Citrus Sinensis ID: 012324

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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
MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMLAIDWQKIRKNVCL
Secondary Structure (PSIPRED)
cEEEEEEcccccHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEcccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHccccccHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHccccccHHcccccEEEEcccccccHHHHHHHHHHccccccccHHHHHccccEEEccccEEEccHHHHHHHHHHHHHcccccccccccccHHHHHHHHHcccccccEEEEEEccccHHHHcccccccccccccccEEEEEcccccccccccccccccccEEccccccccccccccccccccEEEccccccEEccccccccccccEEEcccccccccccccccccccccEEEcccccccccccccccccccccEEEccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEcccccHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEEccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHcccccHHHHHHHHHHcEEEEEcccccEEHHHHHHHHccHHEEcccccccccEEEEcHHHHHHHHccccccccccHEEHHccccccEEcccHHHHHHccccEEEEEccccccccccccccccccccEEEccccccccccccccHHHcEEEEccccccccccccHHHHHcccEEEcccccccccccccHcccccccEEEccccHHHHcccHHHccHHHccEEEccccccccccccHHHHHcccEEEccccHHHHcccccHHcccccHHHHHccccccHHHHcHHHHHHcccccccccccccc
Coil and Loop (DISEMBL)
MKVLIVFDDVTCFSQLESIIRsldwltpvsRIIITTRNKQVLRNWGVRKIYEIEALENHHALelfsrhafkrnhpdvgyeKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDsldnkeknIFLDVACFFQGEDVNLVMKFLnasgfypeigISVLVDKSLIAIGSYNKIRMHDLLQELGREIVrqesinpgnrsrlwhheDIYEVLTYNTHYSKLNQIIHTACNKLiaktpnpmlmprlNNLVILNlrsgkslkslpsgifnlefltkldlsgcsklkrlpeissgnvcWLFLRGTAIEELPSSIDRLRRlgylnlsdckrlkslpsslcklkslkvlnlcgcsnlqrlpeclgqlsspiILNLAKTNIERIPESIIQLFVLRYLLLSYSErfqslpkplflargclalepflgiiedtqriphsdhmlAIDWQKIRKNVCL
Flexible Loop (DISEMBL)
MKVLIVFDDVTCFSQLESiirsldwltpvsriiittrnkqvlrnWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQesinpgnrsrlwhHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLkrlpeissgnvCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMlaidwqkirknvcl
Low Complexity Region (SEG)
MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRlkslpsslcklkslkvlnlCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMLAIDWQKIRKNVCL
Disordered region (IsUnstruct)
**VLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMLAIDWQKIRKN***
Disordered Region (DISOPRED)
MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMLAIDWQKIRKNVCL
Disordered Region (DISEMBL)
MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMLAIDWQKIRKNVCL
Disordered Region (DISPRO)
MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMLAIDWQKIR*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHMLAIDWQKIRKNVCL
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	466	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.847	0.345	0.343	2e-57
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.787	0.282	0.344	7e-47
Q9FL92	1372	Probable WRKY transcripti	no	no	0.813	0.276	0.337	8e-46
Q9FH83	1288	Probable WRKY transcripti	no	no	0.5	0.180	0.432	2e-44
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.903	0.222	0.311	7e-44
O82500	1095	Putative disease resistan	no	no	0.896	0.381	0.307	9e-42
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.817	0.236	0.310	1e-36
Q9LVT1	623	Putative disease resistan	no	no	0.862	0.645	0.241	1e-16
Q9LZ25	811	Probable disease resistan	no	no	0.858	0.493	0.235	4e-16
Q9T048	985	Disease resistance protei	no	no	0.815	0.385	0.258	1e-15

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  223 bits (569), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 153/445 (34%), Positives = 246/445 (55%), Gaps = 50/445 (11%)

Query: 2   KVLIVFDDVTCFSQ-LESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHH 60
           KVLIV DD+      LE +   LDW    SRIIITTR+K ++    +  IYE+ AL +H 
Sbjct: 295 KVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHE 352

Query: 61  ALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQ 120
           +++LF +HAF +  P+  +EKLS +V+ YA+G+PLALKV G  L+       +SAI  ++
Sbjct: 353 SIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMK 412

Query: 121 RILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
              +  I++ LKISYD L+ K++ +FLD+ACF +GE+ + +++ L +     E G+ +L+
Sbjct: 413 NNSYSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILI 472

Query: 181 DKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNT------ 234
           DKSL+ I  YN+++MHDL+Q++G+ IV  +  +PG RSRLW  +++ EV++ NT      
Sbjct: 473 DKSLVFISEYNQVQMHDLIQDMGKYIVNFQK-DPGERSRLWLAKEVEEVMSNNTGTMAME 531

Query: 235 -----HYSKL----NQII------------HTACNKLIAKTPNPML-----------MP- 261
                 YS      NQ +             ++ +  I   PN +             P 
Sbjct: 532 AIWVSSYSSTLRFSNQAVKNMKRLRVFNMGRSSTHYAIDYLPNNLRCFVCTNYPWESFPS 591

Query: 262 --RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFL- 317
              L  LV L LR   SL+ L +   +L  L ++DLS   +L R P+ +   N+ ++ L 
Sbjct: 592 TFELKMLVHLQLRHN-SLRHLWTETKHLPSLRRIDLSWSKRLTRTPDFTGMPNLEYVNLY 650

Query: 318 RGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL 377
           + + +EE+  S+    ++  L L+DCK LK  P     ++SL+ L L  C +L++LPE  
Sbjct: 651 QCSNLEEVHHSLGCCSKVIGLYLNDCKSLKRFPC--VNVESLEYLGLRSCDSLEKLPEIY 708

Query: 378 GQLSSPIILNLAKTNIERIPESIIQ 402
           G++   I +++  + I  +P SI Q
Sbjct: 709 GRMKPEIQIHMQGSGIRELPSSIFQ 733

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  188 bits (478), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 145/421 (34%), Positives = 218/421 (51%), Gaps = 54/421 (12%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVLI+ DDV     L++++   +W    SRII+ T+++Q+L+   +  IYE+E    H A
Sbjct: 286 KVLILLDDVDSLEFLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLA 345

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           L +  R AF ++ P   +++L+ +V K A  +PL L VLG  L  R KE     + +L+ 
Sbjct: 346 LTMLCRSAFGKDSPPDDFKELAFEVAKLAGNLPLGLSVLGSSLKGRTKEWWMEMMPRLRN 405

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
            L+  I++ L++SYD L  K++++FL +AC F G +V+ V   L  +     +G ++L +
Sbjct: 406 GLNGDIMKTLRVSYDRLHQKDQDMFLYIACLFNGFEVSYVKDLLKDN-----VGFTMLTE 460

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQESI-NPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           KSLI I     I MH+LL++LGREI R +S  NPG R  L + EDI+EV+T  T    L 
Sbjct: 461 KSLIRITPDGYIEMHNLLEKLGREIDRAKSKGNPGKRRFLTNFEDIHEVVTEKTGTETLL 520

Query: 241 QI-----IHTACNKLIAKTPNPMLMPRLNNLVI--------------LNLR----SGKSL 277
            I      + +   L+    +   M  L  L I              L LR        L
Sbjct: 521 GIRLPFEEYFSTRPLLIDKESFKGMRNLQYLEIGYYGDLPQSLVYLPLKLRLLDWDDCPL 580

Query: 278 KSLPS----------------------GIFNLEFLTKLDLSGCSKLKRLPEISSG-NVCW 314
           KSLPS                      G   L  L +++L   + LK +P++S   N+  
Sbjct: 581 KSLPSTFKAEYLVNLIMKYSKLEKLWEGTLPLGSLKEMNLRYSNNLKEIPDLSLAINLEE 640

Query: 315 LFLRG-TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRL 373
           L L G  ++  LPSSI    +L YL++SDCK+L+S P+ L  L+SL+ LNL GC NL+  
Sbjct: 641 LDLVGCKSLVTLPSSIQNATKLIYLDMSDCKKLESFPTDL-NLESLEYLNLTGCPNLRNF 699

Query: 374 P 374
           P
Sbjct: 700 P 700

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score =  185 bits (469), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 146/433 (33%), Positives = 224/433 (51%), Gaps = 54/433 (12%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           +VL+V DDV     +ES +   DW  P S IIIT+++K V R   V +IYE++ L    A
Sbjct: 242 RVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEA 301

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVS-ESAINKLQ 120
           L+LFS  A   +  +    ++S KV+KYA G PLAL + G  L  +++    E A  KL+
Sbjct: 302 LQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEMEIAFLKLK 361

Query: 121 RILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
                  ++ +K SYD+L+++EKNIFLD+ACFFQGE+V+ VM+ L   GF+P +GI VLV
Sbjct: 362 ECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLV 421

Query: 181 DKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           +KSL+ I S N++RMH+L+Q++GR+I+ +E+     RSRLW    I  +L         N
Sbjct: 422 EKSLVTI-SENRVRMHNLIQDVGRQIINRETRQTKRRSRLWEPCSIKYLLEDKEQNE--N 478

Query: 241 QIIHTACNKLIAKTPNPM--LMPRLNNLV----------ILNLRSGKSLKSLPSGIFNLE 288
           +   T   +  A+ P  +  +    +NL           +LNLR  K   S P  + ++ 
Sbjct: 479 EEQKTTFER--AQVPEEIEGMFLDTSNLSFDIKHVAFDNMLNLRLFKIYSSNPE-VHHVN 535

Query: 289 FLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSID------------RLRRLG 336
              K  LS    + RL          L      ++ LP + D            +L++L 
Sbjct: 536 NFLKGSLSSLPNVLRL----------LHWENYPLQFLPQNFDPIHLVEINMPYSQLKKL- 584

Query: 337 YLNLSDCKRLKSLP----------SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIIL 386
           +    D + LK++             L K ++L+V++L GC+ LQ  P   GQL    ++
Sbjct: 585 WGGTKDLEMLKTIRLCHSQQLVDIDDLLKAQNLEVVDLQGCTRLQSFP-ATGQLLHLRVV 643

Query: 387 NLAK-TNIERIPE 398
           NL+  T I+  PE
Sbjct: 644 NLSGCTEIKSFPE 656

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  180 bits (457), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 102/236 (43%), Positives = 144/236 (61%), Gaps = 3/236 (1%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           +VL+V DDV      ES +   DWL P S IIIT+R+KQV    G+ +IYE++ L    A
Sbjct: 248 RVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQIYEVQGLNEKEA 307

Query: 62  LELFSRHA-FKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREK-EVSESAINKL 119
            +LF   A  K +  +   ++LS +V+ YA G PLA+ V G  L  ++K    E+A  KL
Sbjct: 308 RQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGRELKGKKKLSEMETAFLKL 367

Query: 120 QRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVL 179
           +R     I++  K +YD+L + EKNIFLD+ACFFQGE+VN V++ L   GF+P + I VL
Sbjct: 368 KRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEGCGFFPHVEIDVL 427

Query: 180 VDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTH 235
           VDK L+ I S N++ +H L Q++GREI+  E++    R RLW    I  +L YN H
Sbjct: 428 VDKCLVTI-SENRVWLHKLTQDIGREIINGETVQIERRRRLWEPWSIKYLLEYNEH 482

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  178 bits (452), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 158/507 (31%), Positives = 246/507 (48%), Gaps = 86/507 (16%)

Query: 2    KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
            ++L++ DDV  +  +++ + +L++  P SRII+T+RN++V     +  +YE++ L+   +
Sbjct: 920  RILVILDDVNDYRDVDTFLGTLNYFGPGSRIIMTSRNRRVFVLCKIDHVYEVKPLDIPKS 979

Query: 62   LELFSRHAFKRN-HPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQ 120
            L L  R   +    P+V Y+ LS +++K++ G P  L+ L     +RE       +    
Sbjct: 980  LLLLDRGTCQIVLSPEV-YKTLSLELVKFSNGNPQVLQFLSSI--DREWNKLSQEVKTTS 1036

Query: 121  RILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
             I  P I E    S   LD+ E+ IFLD+ACFF   D + V   L+  GF   +G   LV
Sbjct: 1037 PIYIPGIFEK---SCCGLDDNERGIFLDIACFFNRIDKDNVAMLLDGCGFSAHVGFRGLV 1093

Query: 181  DKSLIAIGSYNKIRMHDLLQELGREIVRQESIN-PGNRSRLWHHEDIYEVLTYNTHYSKL 239
            DKSL+ I  +N + M   +Q  GREIVRQES + PG+RSRLW+ + I  V   +T  S +
Sbjct: 1094 DKSLLTISQHNLVDMLSFIQATGREIVRQESADRPGDRSRLWNADYIRHVFINDTGTSAI 1153

Query: 240  NQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLK----SLPSGI----------- 284
              I     N  +    NP +  ++ NL +L L   K+ +    S P G+           
Sbjct: 1154 EGIFLDMLN--LKFDANPNVFEKMCNLRLLKLYCSKAEEKHGVSFPQGLEYLPSKLRLLH 1211

Query: 285  ------------FNLEFLTKLDL-SGCSK------------------------------L 301
                        FN E L +L+L S C+K                              L
Sbjct: 1212 WEYYPLSSLPKSFNPENLVELNLPSSCAKKLWKGKKARFCTTNSSLEKLKKMRLSYSDQL 1271

Query: 302  KRLPEISSG-NVCWLFLRG-TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSL 359
             ++P +SS  N+  + L G  ++  L  SI  L++L +LNL  C +L+++P S+  L+SL
Sbjct: 1272 TKIPRLSSATNLEHIDLEGCNSLLSLSQSISYLKKLVFLNLKGCSKLENIP-SMVDLESL 1330

Query: 360  KVLNLCGCSNLQRLPECLGQLSSPII--LNLAKTNIERIPESIIQLFVLRYLLLSYSERF 417
            +VLNL GCS L   PE      SP +  L +  T I+ IP SI  L +L  L L  S   
Sbjct: 1331 EVLNLSGCSKLGNFPEI-----SPNVKELYMGGTMIQEIPSSIKNLVLLEKLDLENSRHL 1385

Query: 418  QSLPKPLFLAR--------GCLALEPF 436
            ++LP  ++  +        GC++LE F
Sbjct: 1386 KNLPTSIYKLKHLETLNLSGCISLERF 1412

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  171 bits (434), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 133/433 (30%), Positives = 214/433 (49%), Gaps = 15/433 (3%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVLI+ DDV    QL+++ +   W    SRI++TT+NKQ+L +  +  +Y++       A
Sbjct: 290 KVLIILDDVDNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEA 349

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           L +F +HAFK++ P    + L+ +    A  +PLAL+VLG F+  + KE  E ++  L+ 
Sbjct: 350 LTIFCQHAFKQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKS 409

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASG-FYPEIGISVLV 180
            L   + +VLK+ YD L + EK++FL +AC F G+  N + + + A+   Y   G+ VL 
Sbjct: 410 RLDGEVEKVLKVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTYVSFGLQVLA 469

Query: 181 DKSLIAIGSYNKIRMHDLLQELGREIVRQESI-NPGNRSRLWHHEDIYEVLTYNTHYSKL 239
           DKSLI      +I MH LL++LG+E+VR++SI  PG R  L + ++   VL+ NT    +
Sbjct: 470 DKSLIQKFENGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNNTGTGTV 529

Query: 240 NQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKS-------LPSGIFNLEFLTK 292
             I    C        +      + NLV L       +         LP     L +L +
Sbjct: 530 LGISLDMCEIKEELYISEKTFEEMRNLVYLKFYMSSPIDDKMKVKLQLPEE--GLSYLPQ 587

Query: 293 LDL--SGCSKLKRLP-EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSL 349
           L L       L+  P       +  L +  + +++L S +  LR L  +NL+  + L+ L
Sbjct: 588 LRLLHWDAYPLEFFPSSFRPECLVELNMSHSKLKKLWSGVQPLRNLRTMNLNSSRNLEIL 647

Query: 350 PSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYL 409
           P +L +   L  L+L  C +L  LP  +  L   I+L ++      I  + I L  L  L
Sbjct: 648 P-NLMEATKLNRLDLGWCESLVELPSSIKNLQHLILLEMSCCKKLEIIPTNINLPSLEVL 706

Query: 410 LLSYSERFQSLPK 422
              Y  R Q+ P+
Sbjct: 707 HFRYCTRLQTFPE 719

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  154 bits (389), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 126/406 (31%), Positives = 207/406 (50%), Gaps = 25/406 (6%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           ++L+V DDV      ES ++ LDW    S IIIT+ +KQV     + +IY ++ L  H A
Sbjct: 272 RILVVLDDVRDSLAAESFLKRLDWFGSGSLIIITSVDKQVFAFCQINQIYTVQGLNVHEA 331

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           L+LFS+  F  N P+    KLS KV+ Y  G PLAL + G  L  ++ E+ E+A  +L+ 
Sbjct: 332 LQLFSQSVFGINEPEQNDRKLSMKVIDYVNGNPLALSIYGRELMGKKSEM-ETAFFELKH 390

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
                I +VLK +Y +L + EKNI LD+A FF+GE VN VM+ L  S ++P + I VLVD
Sbjct: 391 CPPLKIQDVLKNAYSALSDNEKNIVLDIAFFFKGETVNYVMQLLEESHYFPRLAIDVLVD 450

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYN-------T 234
           K ++ I S N ++M++L+Q+  +EI   E       +R+W    I  +L Y+       T
Sbjct: 451 KCVLTI-SENTVQMNNLIQDTCQEIFNGEI---ETCTRMWEPSRIRYLLEYDELEGSGET 506

Query: 235 HYSKLNQIIHTACNKLIAKTPNPML------MPRLNNLVILNLRSGKSLK----SLPSGI 284
                + ++      +   T N            + NL  L + +  S      + P G+
Sbjct: 507 KAMPKSGLVAEHIESIFLDTSNVKFDVKHDAFKNMFNLKFLKIYNSCSKYISGLNFPKGL 566

Query: 285 FNLEFLTKLDLSGCSKLKRLP-EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC 343
            +L +  +L       L+ LP +   G++  L +  + + +L + +  L  L  L LS  
Sbjct: 567 DSLPYELRLLHWENYPLQSLPQDFDFGHLVKLSMPYSQLHKLGTRVKDLVMLKRLILSHS 626

Query: 344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLA 389
            +L      L   +++++++L GC+ LQR P+   QL +  ++NL+
Sbjct: 627 LQLVEC-DILIYAQNIELIDLQGCTGLQRFPD-TSQLQNLRVVNLS 670

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT1|DRL39_ARATH Putative disease resistance protein At5g47280 OS=Arabidopsis thaliana GN=At5g47280 PE=3 SV=1

 Score = 88.2 bits (217), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 117/485 (24%), Positives = 220/485 (45%), Gaps = 83/485 (17%)

Query: 4   LIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALE 63
           L++ DDV     L+ ++ ++    P +  ++ +++K V      R  Y++E L  H A  
Sbjct: 86  LVILDDVRTRESLDQLMFNI----PGTTTLVVSQSKLV----DPRTTYDVELLNEHDATS 137

Query: 64  LFSRHAFKRNHPDVGYEK-LSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR- 121
           LF   AF +     G+ K L  +V+  ++G+PL+LKVLG  L +R +     A+ +L R 
Sbjct: 138 LFCLSAFNQKSVPSGFSKSLVKQVVGESKGLPLSLKVLGASLNDRPETYWAIAVERLSRG 197

Query: 122 ----ILHPS-ILEVLKISYDSLDNKEKNIFLDVACFFQGED------VNLVMK---FLNA 167
                 H S +   ++ + ++LD K K  FLD+  F +G+       +N+++K     +A
Sbjct: 198 EPVDETHESKVFAQIEATLENLDPKTKECFLDMGAFPEGKKIPVDVLINMLVKIHDLEDA 257

Query: 168 SGFYPEIG------ISVLVDKSLIAIG-SYNKI--RMHDLLQEL-------GREIVRQES 211
           + F   +       ++++ D + +A+G SY  I    HD+L+++       G+   R   
Sbjct: 258 AAFDVLVDLANRNLLTLVKDPTFVAMGTSYYDIFVTQHDVLRDVALHLTNRGKVSRRDRL 317

Query: 212 INPGNRSRL---W---------------HHEDIYEVLTYNTHYSKLNQIIHTACNKLIAK 253
           + P   + L   W               H  ++ E+  ++  + K   +I    +     
Sbjct: 318 LMPKRETMLPSEWERSNDEPYNARVVSIHTGEMTEMDWFDMDFPKAEVLIVNFSSDNYVL 377

Query: 254 TPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKR--LPEISSG- 310
            P    M  L   VI+N  +G S    P+ + +    T L       L+R  +PE+SS  
Sbjct: 378 PPFIAKMGMLRVFVIIN--NGTS----PAHLHDFPIPTSLTNLRSLWLERVHVPELSSSM 431

Query: 311 ----NVCWLFLRGTAIEELPSSIDR--------LRRLGYLNLSDCKRLKSLPSSLCKLKS 358
               N+  L+L    I ++ +S D+          +L  + +  C  L  LPS++C + S
Sbjct: 432 IPLKNLHKLYL---IICKINNSFDQTAIDIAQIFPKLTDITIDYCDDLAELPSTICGITS 488

Query: 359 LKVLNLCGCSNLQRLPECLGQLSSPIILNL-AKTNIERIPESIIQLFVLRYLLLSYSERF 417
           L  +++  C N++ LP+ + +L +  +L L A   ++ +P  I +L  L Y+ +S+    
Sbjct: 489 LNSISITNCPNIKELPKNISKLQALQLLRLYACPELKSLPVEICELPRLVYVDISHCLSL 548

Query: 418 QSLPK 422
            SLP+
Sbjct: 549 SSLPE 553

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZ25|DRL30_ARATH Probable disease resistance protein At5g04720 OS=Arabidopsis thaliana GN=At5g04720 PE=2 SV=1

 Score = 86.3 bits (212), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 116/492 (23%), Positives = 217/492 (44%), Gaps = 92/492 (18%)

Query: 4   LIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALE 63
           L++ DDV     L+ ++       P +  ++ +R+K        R  Y++E L  H A  
Sbjct: 273 LVILDDVWTRESLDQLMFEN---IPGTTTLVVSRSKLA----DSRVTYDVELLNEHEATA 325

Query: 64  LFSRHAFKRNHPDVGY-EKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR- 121
           LF    F +     G+ + L  +V+   +G+PL+LKV+G  L ER ++  E A+ +L R 
Sbjct: 326 LFCLSVFNQKLVPSGFSQSLVKQVVGECKGLPLSLKVIGASLKERPEKYWEGAVERLSRG 385

Query: 122 ----ILHPS-ILEVLKISYDSLDNKEKNIFLDVACFFQGEDVN---LVMKFLNASGFYPE 173
                 H S +   ++ + ++LD K ++ FL +  F + + +    L+   +        
Sbjct: 386 EPADETHESRVFAQIEATLENLDPKTRDCFLVLGAFPEDKKIPLDVLINVLVELHDLEDA 445

Query: 174 IGISVLVD---KSLIAI----------GSYNKI--RMHDLLQELGREIVRQESINPGNRS 218
              +V+VD   ++L+ +           SY  I    HD+L+++   +     +N  NR 
Sbjct: 446 TAFAVIVDLANRNLLTLVKDPRFGHMYTSYYDIFVTQHDVLRDVALRLSNHGKVN--NRE 503

Query: 219 RL------------W--HHEDIYEVLTYNTHYSKLNQ--------------IIHTACNKL 250
           RL            W  ++++ Y+    + H  ++ Q              I+H + +K 
Sbjct: 504 RLLMPKRESMLPREWERNNDEPYKARVVSIHTGEMTQMDWFDMELPKAEVLILHFSSDKY 563

Query: 251 IAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL------ 304
           +   P    M +L  LVI+N  +G S    P+ + +    T L     +KLK L      
Sbjct: 564 VL-PPFIAKMGKLTALVIIN--NGMS----PARLHDFSIFTNL-----AKLKSLWLQRVH 611

Query: 305 -PEISSGNV--------CWLFLR-GTAIEELPSSIDRL-RRLGYLNLSDCKRLKSLPSSL 353
            PE+SS  V          +F +  T++++    I ++  +L  L +  C  L  LPS++
Sbjct: 612 VPELSSSTVPLQNLHKLSLIFCKINTSLDQTELDIAQIFPKLSDLTIDHCDDLLELPSTI 671

Query: 354 CKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNL-AKTNIERIPESIIQLFVLRYLLLS 412
           C + SL  +++  C  ++ LP+ L +L +  +L L A   +  +P  I +L  L+Y+ +S
Sbjct: 672 CGITSLNSISITNCPRIKELPKNLSKLKALQLLRLYACHELNSLPVEICELPRLKYVDIS 731

Query: 413 YSERFQSLPKPL 424
                 SLP+ +
Sbjct: 732 QCVSLSSLPEKI 743

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 85.1 bits (209), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 118/456 (25%), Positives = 202/456 (44%), Gaps = 76/456 (16%)

Query: 30  SRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKY 89
           S++I+T+R  +V R+        ++ L    A ELF ++A      D    K++  V + 
Sbjct: 276 SKVILTSRFLEVCRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSD-HVRKIAKAVSQE 334

Query: 90  AQGVPLALKVLGCFLYEREK-EVSESAINKLQRI------LHPSILEVLKISYDSLDNKE 142
             G+PLA+  +G  +  ++  ++    ++KL +       +   I + LK+SYD L++K 
Sbjct: 335 CGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSKSVPWIKSIEEKIFQPLKLSYDFLEDKA 394

Query: 143 KNIFLDVACFFQGE--DVNLVMKFLNASGFYPEIG------------ISVLVDKSLIAIG 188
           K  FL  A F +    +V  V+++  A GF  E+G            +  L D  L+  G
Sbjct: 395 KFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDG 454

Query: 189 SY-NKIRMHDLLQEL--------------------GREIVRQESINPGNRSRLWHHEDIY 227
              + ++MHD++++                     G + +RQ+ + P  R     +  + 
Sbjct: 455 DRRDTVKMHDVVRDFAIWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLE 514

Query: 228 EVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPS-GIFN 286
            +      +     ++    N L+ + P   L      L ILNL SG  +KS PS  +  
Sbjct: 515 SLPDLVEEFCVKTSVLLLQGNFLLKEVPIGFLQA-FPTLRILNL-SGTRIKSFPSCSLLR 572

Query: 287 LEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKR 345
           L  L  L L  C KL +LP + +   +  L L GT I E P  ++ L+R  +L+LS    
Sbjct: 573 LFSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLH 632

Query: 346 LKSLPSSLC-KLKSLKVLNLC----------------------GCSNLQRLPECLGQL-S 381
           L+S+P+ +  +L SL+ L++                       GC  LQRL     +L S
Sbjct: 633 LESIPARVVSRLSSLETLDMTSSHYRWSVQGETQKGQATVEEIGC--LQRLQVLSIRLHS 690

Query: 382 SPIILNLAKTNIERIPESIIQLFV-LRYLLLSYSER 416
           SP +LN   T I+R+ +   QL V  RY+L +  ++
Sbjct: 691 SPFLLNKRNTWIKRLKK--FQLVVGSRYILRTRHDK 724

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	466
147802475	1244	hypothetical protein VITISV_027841 [Viti	0.894	0.335	0.448	2e-83
255537139	1137	leucine-rich repeat-containing protein,	0.901	0.369	0.399	2e-76
356515308	1464	PREDICTED: TMV resistance protein N-like	0.942	0.299	0.365	4e-74
359493572	2338	PREDICTED: uncharacterized protein LOC10	0.809	0.161	0.414	3e-73
359496026	1250	PREDICTED: TMV resistance protein N-like	0.903	0.336	0.388	9e-73
255564976	944	TMV resistance protein N, putative [Rici	0.869	0.429	0.405	2e-71
359496034	1132	PREDICTED: TMV resistance protein N-like	0.873	0.359	0.408	3e-71
357499823	1437	NBS-containing resistance-like protein [	0.894	0.290	0.369	5e-71
224145028	709	nbs-lrr resistance protein [Populus tric	0.886	0.582	0.381	8e-71
74231152	753	disease resistance protein [Phaseolus vu	0.860	0.532	0.388	9e-71

>gi|147802475|emb|CAN61853.1| hypothetical protein VITISV_027841 [Vitis vinifera]

 Score =  315 bits (808), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 199/444 (44%), Positives = 266/444 (59%), Gaps = 27/444 (6%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVLI+ DDV   +QLES+  ++DW    SRI+ITTR+K +L   GV +IYE + LE   A
Sbjct: 295 KVLIILDDVDDLNQLESLAGNVDWFGIGSRIVITTRDKHLLNVHGVSEIYEAKELEPEEA 354

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           L+LFS++AFKR  P   Y  LS  V+ YA+G+PLALKVLG FL+ +     ES ++KL++
Sbjct: 355 LQLFSQYAFKRKSPXKDYMNLSDNVVHYAKGLPLALKVLGSFLFSKTILEWESELHKLKK 414

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
            L+  + +VL+IS+D LD  +K IFLD+ACFF+G++ + V+K L+  GF+ + GI VL D
Sbjct: 415 ELNTKVQDVLRISFDGLDFTQKEIFLDLACFFKGQEYDFVIKILDGCGFHAKSGIRVLSD 474

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQES-INPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           + LI +   N++ MHDL+Q++G EIVRQE   +PG  SRLW +E IY VL  NT    LN
Sbjct: 475 RCLIDLLD-NRLWMHDLIQQMGWEIVRQECPKDPGKWSRLWDYEHIYSVLKKNTVLDNLN 533

Query: 241 QIIHTACNKLIAKTPNPMLMPR---------------------LNNLVILNLRSGKSLKS 279
            I  +    LI   PN   MP                      LN L+ LNL++ K L+S
Sbjct: 534 TIELSNSQHLI-HLPNFSSMPNLERLVLEGCTSFLEVDPSIEVLNKLIFLNLKNCKKLRS 592

Query: 280 LPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NVCWLFLRGTAIEELPSSIDRLRRLGY 337
            P  I  LE L  L LSGCS LK  PEI     ++  L+L GTAI ELP SI  L  L  
Sbjct: 593 FPRSI-KLECLKYLSLSGCSDLKNFPEIQGNMQHLSELYLDGTAISELPFSIGYLTGLIL 651

Query: 338 LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIP 397
           L+L +CKRLKSLPSS+CKLKSL+ L L  CS L+  PE +  +     L L  T ++++ 
Sbjct: 652 LDLENCKRLKSLPSSICKLKSLETLILSACSKLESFPEIMENMEHLKKLLLDGTALKQLH 711

Query: 398 ESIIQLFVLRYLLLSYSERFQSLP 421
            SI  L  L  L L   +   +LP
Sbjct: 712 PSIEHLNGLVSLNLRDCKNLATLP 735

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537139|ref|XP_002509636.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223549535|gb|EEF51023.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  293 bits (749), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 191/478 (39%), Positives = 264/478 (55%), Gaps = 58/478 (12%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           +VLIV DD     QL+ ++ S DW  P SRII+T+R+KQVL    V  IYE++ L +H A
Sbjct: 290 RVLIVVDDANDSEQLDLLVGSHDWFGPGSRIIVTSRDKQVLTKI-VDDIYEVKELVHHEA 348

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           L+LF++  FK+      Y  LS  V++YA+GVPLALKVLG FL+ + K   ESA++KL++
Sbjct: 349 LQLFNQTTFKKKCVPEDYSYLSDLVIEYAKGVPLALKVLGSFLFGKSKTEWESALDKLKK 408

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
             H +   VLKISYD LD +EKNIFLD+ACFF+GE V +V K L+  GF  +IG+ +LVD
Sbjct: 409 APHRATQNVLKISYDGLDAEEKNIFLDIACFFRGESVEMVTKILDGCGFSTKIGLCLLVD 468

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLT---------- 231
           KSLI I + +K+ MHDLLQE+G+EIV QES  P  R+RLW+HEDI  V +          
Sbjct: 469 KSLITILN-DKVEMHDLLQEMGKEIVLQESKQPSQRTRLWNHEDILHVFSRNLGTETIEG 527

Query: 232 ---------------------YNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILN 270
                                YN  + K  Q       K   K   P  +  L+N +   
Sbjct: 528 MCLNTSMINKIELNSNAFGRMYNLRFLKFYQSYIHGGFKECTKIRLPQGLDSLSNELRYL 587

Query: 271 LRSGKSLKSLPS----------------------GIFNLEFLTKLDLSGCSKLKRLPEIS 308
              G  LKSLP+                      G  +L+ L  +DLS    L R+ E++
Sbjct: 588 HWHGYPLKSLPARIHLMNLVVLVLPYSKVKRLWKGCKDLKKLKVIDLSYSQALIRITELT 647

Query: 309 SG-NVCWLFLRGTA-IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCG 366
           +  N+ ++ L G   +  +PS+  R + L  L ++ C +L+SLPSS+CKLKSL+ L+LCG
Sbjct: 648 TASNLSYMKLSGCKNLRSMPSTT-RWKSLSTLEMNYCTKLESLPSSICKLKSLESLSLCG 706

Query: 367 CSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
           CSNLQ  PE L  +    +L L  T I+ +P SI +L  L  + L        LP+  
Sbjct: 707 CSNLQSFPEILESMDRLKVLVLNGTAIKELPSSIERLKGLSSIYLENCRNLAHLPESF 764

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356515308|ref|XP_003526343.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  285 bits (729), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 180/493 (36%), Positives = 274/493 (55%), Gaps = 54/493 (10%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVL++ DDV    QL+++    DW    S IIITTR+K +L    V K YE++ L +  A
Sbjct: 301 KVLLILDDVDKLEQLQALAGGRDWFGFGSVIIITTRDKHLLAAQQVDKTYEVKKLNHDEA 360

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
            +LF+  AFKR  PD GY  +S++V+ YA+G+PLALKV+G  L+ +  E  +SA+ K ++
Sbjct: 361 FDLFTWSAFKRKAPDAGYFDISNRVVLYAEGLPLALKVMGSNLFGKTVEEWKSALGKYEK 420

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
           I +  +  VL++++D+L+  EK IFLD+ACFF+GE +  + K L A G YP+ GISVLVD
Sbjct: 421 IPNKEVQNVLRVTFDNLEENEKEIFLDIACFFKGETMEYIEKTLQACGLYPKFGISVLVD 480

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQES-INPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           +SL++I  Y+++RMHDL+Q++GREIVR+ S + PG RSRLW+HED++EVL+ NT   ++ 
Sbjct: 481 RSLVSIDKYDRLRMHDLIQDMGREIVREVSPLEPGKRSRLWYHEDVFEVLSENTGTYRIQ 540

Query: 241 QIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSL--------------------KSL 280
            ++    ++      +     ++ NL IL +RSG                        SL
Sbjct: 541 GMMVDLPDQYTVHLKDESF-KKMRNLKILIVRSGHFFGSPQHLPNNLRLLDWMEYPSSSL 599

Query: 281 PSG-------IFN--------------LEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLR 318
           PS        + N              L+ LT +DL+ C  L +LP+I+   N+  L L 
Sbjct: 600 PSSFQPKKLVVLNLSHSRFTMQEPFKYLDSLTSMDLTHCELLTKLPDITGVPNLTELHLD 659

Query: 319 -GTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL 377
             T +EE+  S+  L +L  L    C +LK  PS+L +L SL+ L L  CS+LQ  P  L
Sbjct: 660 YCTNLEEVHDSVGFLEKLVELRAYGCTKLKVFPSAL-RLASLRSLILNWCSSLQNFPAIL 718

Query: 378 GQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLAR--------G 429
           G++ +   +++  T I  +P SI  L  L+ L ++     + LP    + +        G
Sbjct: 719 GKMDNLKSVSIDSTGIRELPPSIGNLVGLQELSMTSCLSLKELPDNFDMLQNLINLDIEG 778

Query: 430 CLALEPFLGIIED 442
           C  L  FL  + D
Sbjct: 779 CPQLRSFLTKLRD 791

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493572|ref|XP_002270741.2| PREDICTED: uncharacterized protein LOC100261885 [Vitis vinifera]

 Score =  282 bits (721), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 184/444 (41%), Positives = 249/444 (56%), Gaps = 67/444 (15%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVL+  DDV   +QLE +I   DW  P SRIIITTR K +L    V  +YE+E L  H A
Sbjct: 296 KVLVFLDDVDELTQLEHLIGKHDWFGPGSRIIITTRKKDLLTRHEVNDMYEVEKLYFHEA 355

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           L+LF R+AFK++HP  GY  LS +V++YA G+PLALKVLG  L+ +     +S + KL++
Sbjct: 356 LQLFCRYAFKQHHPKEGYGDLSHQVVQYADGLPLALKVLGSLLFGKRLPDWKSELQKLEK 415

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
           + +  I++VLKIS+D LD  ++ IFLD+ACFF+G+DV  V + L+AS F  E GI+ LVD
Sbjct: 416 VPNMEIVKVLKISFDGLDYTQRMIFLDIACFFRGDDVKRVSRILDASEFNAESGINALVD 475

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQESIN-PGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           +  I I   N+I MHDLL ++G+ IV QE  N PG RSRLW H DIY VL  NT   K+ 
Sbjct: 476 RCFITISKDNRIDMHDLLAQMGKGIVDQECPNEPGERSRLWRHIDIYRVLKRNTGTEKIE 535

Query: 241 QI-IHTACNKLIAKTPNPMLMPRLNNLVILNLR---------------------SGKSLK 278
            I +H   ++ I  T       R++ L +L++                      +G SL+
Sbjct: 536 GIYLHVDKSEQIQFTSKA--FERMHRLRLLSISHNHVQLSKDFVFPYDLTYLRWNGYSLE 593

Query: 279 SLPS----------------------GIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWL 315
           SLPS                      G   L  L +++LS   +L  LP  S+  N+  L
Sbjct: 594 SLPSNFHANNLVSLILGNSNIKLLWKGNMCLRNLRRINLSDSQQLIELPNFSNVPNLEEL 653

Query: 316 FLRG-------------------TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKL 356
            L G                   TAI+ELPSSI+ L  L YLNL +CK L+ LP+S+C L
Sbjct: 654 ILSGCIILLKSNIAKLEELCLDETAIKELPSSIELLEGLRYLNLDNCKNLEGLPNSICNL 713

Query: 357 KSLKVLNLCGCSNLQRLPECLGQL 380
           + L VL+L GCS L RLPE L ++
Sbjct: 714 RFLVVLSLEGCSKLDRLPEDLERM 737

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496026|ref|XP_002277166.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  280 bits (717), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 191/492 (38%), Positives = 260/492 (52%), Gaps = 71/492 (14%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           +VLIV DD     QLE +    DW  P SRIIITTR+  +L   GV  +YE+  L N+ A
Sbjct: 298 RVLIVLDDAHNLQQLEYLAGKHDWFGPGSRIIITTRDVHLLNKVGVNGVYEVAHLNNNDA 357

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           + LFSRHAF+ +HP   Y +LS+  + YA+G+PLALKVLG FL+ + K   +S ++KLQ 
Sbjct: 358 VALFSRHAFEEDHPTEDYMELSNYAVSYAKGLPLALKVLGSFLFSKSKLEWKSQLDKLQI 417

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
             H  I  VL++S+D LD+ E++IFLDVACFF+GED + V+K L++ GFYP IGI VL+D
Sbjct: 418 NPHMDIESVLRVSFDGLDDTEQDIFLDVACFFKGEDKDYVIKILDSCGFYPSIGIRVLID 477

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQES---------INPGNRSRLWHHEDIYEVLTY 232
           KSLI +  +NK+ MHDLLQE+G +IVR+ S         ++PG  SRLW  ED+Y+VLT 
Sbjct: 478 KSLITV-VHNKLWMHDLLQEMGWDIVRKTSHKNPSKRRRLDPGKHSRLWLQEDVYDVLTE 536

Query: 233 NTHYSKLNQIIHT--ACNKLIAKTPNPMLMPRLNNLVILNLRSGKS-------------- 276
            T    +  I        ++   T     M +L  L + N  +                 
Sbjct: 537 KTGTENIEGIFLNLYGLKEIHYTTEAFAEMKKLRLLKVYNSHNSGDFEYASRNENYKRPF 596

Query: 277 --------------------LKSLPS----------------------GIFNLEFLTKLD 294
                               LKSLPS                      G+ ++E L  +D
Sbjct: 597 SQDFEFPSNKLRYLYWHRYPLKSLPSNFHPKNLVELNLCCCYVEELWKGVKHMEKLECID 656

Query: 295 LSGCSKLKRLPEISS-GNVCWLFLRG-TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSS 352
           LS    L R P+ S   N+  L   G T + E+  S+  L +L +LNL DCK L+  PSS
Sbjct: 657 LSHSQYLVRTPDFSGIPNLERLIFEGCTDLREVHQSLGVLSKLIFLNLKDCKNLQCFPSS 716

Query: 353 LCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLS 412
           + +L+SLKVL L GCS L   PE L  +     L L  T I+ +P S+  L  L  L L 
Sbjct: 717 I-ELESLKVLILSGCSKLDNFPEILENMEGLRELFLDGTAIKELPLSVEHLNGLVLLNLR 775

Query: 413 YSERFQSLPKPL 424
             ER  +LP  +
Sbjct: 776 NCERLITLPSSI 787

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564976|ref|XP_002523481.1| TMV resistance protein N, putative [Ricinus communis] gi|223537309|gb|EEF38940.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  276 bits (706), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 192/473 (40%), Positives = 261/473 (55%), Gaps = 68/473 (14%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVLIV DDV    QLE++    +W  P SRII+T+R+K VL+N     IY+IE L++H A
Sbjct: 292 KVLIVLDDVNNLRQLENLAGEHNWFGPGSRIILTSRDKDVLKN-KTDAIYKIEDLDHHEA 350

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           L+LFS +AF++  P   Y KLS +V+ YA+G PL LKVLG FLY+R  +  ESA++KL+R
Sbjct: 351 LQLFSLNAFRQECPKADYMKLSKRVINYAKGNPLGLKVLGSFLYQRNIKEWESALHKLER 410

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
             +  I  VLK+SYD LD++EK+IFLDVACFF GED + V + LN  GF  +I ISVLV 
Sbjct: 411 STNKEIQNVLKVSYDGLDDEEKDIFLDVACFFNGEDRDFVTRILNGCGFSADIAISVLVS 470

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQESI-NPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           KSL+ I S N + +H+LLQ++G  IVRQES   PG RSRL   ED+  VL+ NT    + 
Sbjct: 471 KSLLTI-SNNTLAIHNLLQQMGWGIVRQESTKEPGRRSRLCTSEDVVHVLSKNTGTEAI- 528

Query: 241 QIIHTACNKLIAKTPNPMLMPRLNNLVILNLR---------------------------- 272
           + I+   +K      +P    R++NL +L                               
Sbjct: 529 EGIYLDMSKSRKVYLSPKAFERMHNLRLLKFHHSFSPIAMYSKVYLPEGLESLPDKLSCL 588

Query: 273 --SGKSLKSLP----------------------SGIFNLEFLTKLDLSGCSKLKRLPEIS 308
             +G  LKSLP                       G   L+ L  ++LS    L RLP+ S
Sbjct: 589 HWNGYPLKSLPFNFCAEYLVELSMPHSHVKFLWEGDQCLKKLNSINLSDSQHLIRLPDFS 648

Query: 309 SG-NVCWLFLRGT-AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCG 366
              N+ ++ L G  ++ ++PSSI  L +L  LNL DCK L+S+P SL  L+SL+ LNL G
Sbjct: 649 EALNLEYINLEGCISLAQVPSSIGYLTKLDILNLKDCKELRSIP-SLIDLQSLRKLNLSG 707

Query: 367 CSNL---QRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSER 416
           CSNL   Q  P  + +L       L  T IE +P SI  L  L +  +   +R
Sbjct: 708 CSNLNHCQDFPRNIEELC------LDGTAIEELPASIEDLSELTFWSMENCKR 754

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496034|ref|XP_002277500.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  275 bits (703), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 181/443 (40%), Positives = 249/443 (56%), Gaps = 36/443 (8%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           +V IV D+V     LE ++ S DW    SRIIITTR+K++L + GVR +YE++ L +  A
Sbjct: 286 EVFIVLDNVYDQDILECLVGSHDWFGQGSRIIITTRDKRLLMSHGVRVVYEVKKLVHTEA 345

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           +E   R+A K+      + +LS+ ++ YAQG+PL LKVLG FL+   K    S ++KL+ 
Sbjct: 346 IEFLGRYASKQQIVIDEFMELSNSIITYAQGLPLVLKVLGSFLFSMSKHEWRSELDKLKD 405

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
             H  I EVL+ISYD LD+KEKNIFLD+ACFF+GED + V+K L+  GF+   GI  L+D
Sbjct: 406 TPHGRIQEVLRISYDGLDDKEKNIFLDIACFFKGEDKDHVIKILDGCGFFAVCGIRGLID 465

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQES-INPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           KSLI I + +KI MHDLLQE+GR+I+RQ S   PG RSRLW ++D Y VL+ NT   ++ 
Sbjct: 466 KSLITISNNDKIVMHDLLQEMGRKIIRQTSPKEPGKRSRLWIYKDAYHVLSKNTGTQEVE 525

Query: 241 QI---------IHTACNKLIAKTPNPMLM-----PRLN------------------NLVI 268
            I         IH             +L      P  N                  NLV 
Sbjct: 526 GIFFNLSDIEEIHFTTKAFAGMDKLRLLKFYDYSPSTNSECTSKRKCKLPHDFSPKNLVD 585

Query: 269 LNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRG-TAIEELP 326
           L+L S   +K L  GI  L+ L  +DLS    L   P  S   N+  L L G T + E+ 
Sbjct: 586 LSL-SCSDVKQLWKGIKVLDKLKFMDLSHSKYLVETPNFSGISNLEKLDLTGCTYLREVH 644

Query: 327 SSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIIL 386
            ++  L +L +L+L DCK LK++P+S+CKLKSL+     GCS ++  PE  G L     L
Sbjct: 645 PTLGVLGKLSFLSLRDCKMLKNIPNSICKLKSLETFIFSGCSKVENFPENFGNLEQLKEL 704

Query: 387 NLAKTNIERIPESIIQLFVLRYL 409
              +T I  +P SI  L +L+ L
Sbjct: 705 YADETAISALPSSICHLRILQVL 727

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357499823|ref|XP_003620200.1| NBS-containing resistance-like protein [Medicago truncatula] gi|355495215|gb|AES76418.1| NBS-containing resistance-like protein [Medicago truncatula]

 Score =  275 bits (702), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 172/466 (36%), Positives = 260/466 (55%), Gaps = 49/466 (10%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVL++ DDV    QL S++   DW    S+IIITTR+K +L   GV+K+YE++ L +H +
Sbjct: 327 KVLLILDDVDNLQQLRSLVGRRDWFGFGSKIIITTRDKHLLAAHGVKKLYEVKELNDHES 386

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           LELFS +AF++N PD  Y ++   V++YA+G PLAL V+G  L+ +  E  +SA+NK + 
Sbjct: 387 LELFSMNAFRKNVPDASYGEIVKCVVQYAKGHPLALNVIGSDLFGKTVEEWKSALNKYET 446

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
           I +  IL VLK+SYD+LD+ EK IFLD+ACFF+G     V K L+AS FY + GI VLVD
Sbjct: 447 IPNKEILNVLKVSYDNLDDNEKEIFLDIACFFKGYPKADVEKTLDASRFYSKYGIGVLVD 506

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQES-INPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           KSL+ I   N ++MHDL+++LG++I R+ES  +P  R RLWHHED+ EVLT N     + 
Sbjct: 507 KSLVTISESNSVKMHDLIEDLGKDIARKESPFDPSKRRRLWHHEDVLEVLTENMGTDTIE 566

Query: 241 QIIHTACN-----KLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSG------------ 283
            I+    N     +L A T +   M RL  L++ N +   + ++LP+             
Sbjct: 567 GIVLDMPNLKQEVQLKANTFDD--MKRLRILIVRNGQVSGAPQNLPNNLRLLEWNKYPLT 624

Query: 284 ------------IFNL--------------EFLTKLDLSGCSKLKRLPEISSG-NVCWLF 316
                       + NL              E LT ++ S C  L +LP++S+  N+  + 
Sbjct: 625 SLPDSFHPKTLVVLNLPKSHITMDEPFKKFEHLTFMNFSDCDSLTKLPDVSATPNLTRIL 684

Query: 317 LRGTA-IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE 375
           +     + ++  SI  L +L  L+   C  LKS P  L + K L+ LNL  CS++   P+
Sbjct: 685 VNNCENLVDIHESIGDLDKLVTLSTEGCPNLKSFPRGL-RSKYLEYLNLRKCSSIDNFPD 743

Query: 376 CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLP 421
            L ++ +   +++  T I++ P SI     L  L+L+     + LP
Sbjct: 744 VLAKVENMKNIDIGGTAIKKFPSSIENFKGLEELVLTSCSNVEDLP 789

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145028|ref|XP_002325500.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222862375|gb|EEE99881.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  274 bits (700), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 187/490 (38%), Positives = 259/490 (52%), Gaps = 77/490 (15%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KV  V DDV+   Q+E +I   D   P SRI++T+R++QVL+N    +IYE+E L    A
Sbjct: 77  KVFTVLDDVSDVEQVECLIERHDMFGPGSRILVTSRDRQVLKNVA-DEIYEVEELNCSEA 135

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
            +LFS   FK NH    Y+ LS + + YA+G PLALKVLG FL+++ KE  E+A+NKL+R
Sbjct: 136 RQLFSLSVFKGNHIPKDYKGLSIRAVNYAKGNPLALKVLGSFLFDQRKEDWENALNKLER 195

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
                I  +LK+S+D+L ++EKNIFLD+ACFF+G+ ++ V + L+  GF   IG+  L +
Sbjct: 196 NPQLKIYNMLKVSFDALGDEEKNIFLDIACFFKGKQIDYVKRILDGCGFSTNIGVFFLAE 255

Query: 182 KSLIAIGSYNKIRMHDLLQELGREIVRQESINP-GNRSRLWHHEDIYEVLTYNTHYSKLN 240
           + LI I S  K+ MHDLLQE+  EIVRQESI   G RSRLW   D+ +VLT N    K+ 
Sbjct: 256 RCLITI-SNGKLEMHDLLQEMAFEIVRQESIKELGKRSRLWSPRDVNQVLTKNLGTEKVE 314

Query: 241 QIIHTA--------CNKLIAKTPNPMLMPRLNNLVILNLR-------------------S 273
            I             +K  A+  N  L+   N+ V  N +                    
Sbjct: 315 GIFFDTSKIKEIKLSSKAFARMYNLRLLKIYNSEVGKNCKVYLPHGLKSLSDELRYLHWD 374

Query: 274 GKSLKSLPSGIFNLEFLTKL---------------------------------------- 293
           G  LKSLPS  F+ E L +L                                        
Sbjct: 375 GYPLKSLPSN-FHPENLVELNLSHSKVRELWKGDQVWFSQYTYAAQAFRVFQESLNRKIS 433

Query: 294 --DLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPS 351
             +LSGCS LK  PE +  +V +L    TAI+ELP SI    RL  LNL +CK+L +LP 
Sbjct: 434 ALNLSGCSNLKMYPETTE-HVMYLNFNETAIKELPQSIGHRSRLVALNLRECKQLGNLPE 492

Query: 352 SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLL 411
           S+C LKS+ ++++ GCSN+ + P   G       L L+ T +E  P S+  L  +  L L
Sbjct: 493 SICLLKSIVIVDVSGCSNVTKFPNIPGNTR---YLYLSGTAVEEFPSSVGHLSRISSLDL 549

Query: 412 SYSERFQSLP 421
           S S R ++LP
Sbjct: 550 SNSGRLKNLP 559

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|74231152|gb|ABA00702.1| disease resistance protein [Phaseolus vulgaris]

 Score =  273 bits (699), Expect = 9e-71,   Method: Compositional matrix adjust.
 Identities = 175/451 (38%), Positives = 255/451 (56%), Gaps = 50/451 (11%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVL++ DDVT  +QL+ +IR  D     SRII+T+R++QVLRN G   IYE++ L    +
Sbjct: 278 KVLLILDDVTDSAQLQKLIRGSDSFGQGSRIIMTSRDRQVLRNAGADDIYEVKELNLDDS 337

Query: 62  LELFSRHAFK-RNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQ 120
            +LF+ HAFK ++  +  Y  LS +V+ YA+G+PLAL++LG  LY R +E  ES + KL+
Sbjct: 338 QKLFNLHAFKQKSSAEKSYMDLSEEVLGYAEGIPLALQILGSLLYGRTREAWESELQKLK 397

Query: 121 RILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
           +  H  I  VLK+SYD L+ +EKNIFLD+ACF++G +   V + L+  GF  +IG+ +L 
Sbjct: 398 KGQHLGIFNVLKLSYDGLEEEEKNIFLDIACFYRGHNEIAVAERLDDFGFSSKIGMDILK 457

Query: 181 DKSLIAIGSYNKIRMHDLLQELGREIVRQES-INPGNRSRLWHHEDIYEVLTYNTHYSKL 239
           D+ LI++    +I MHDL+QE+G+EIVR+E   +PG RSRL++ E+I EVL  N      
Sbjct: 458 DRGLISVID-GRIVMHDLIQEMGKEIVRKECPQHPGKRSRLFNAEEICEVLRKNEGV--- 513

Query: 240 NQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS 299
                            P     L  L  L+L    SL   P  + +++FL +L L GCS
Sbjct: 514 -----------------PSNFQNLKRLCHLDLSHCSSLTIFPFDLSHMKFLKQLSLRGCS 556

Query: 300 KLKRLPEISSG--NVCWLFLRGTAIEELPSSIDR------------------------LR 333
           KL+ LP+I     ++  L L GTAI+ LPSS+ R                        L 
Sbjct: 557 KLENLPQIQDTLEDLVVLILDGTAIQALPSSLCRLVGLQELSLCSCLNLEIIPSSIGSLT 616

Query: 334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNI 393
           RL  L+L+ C  L++ PS++  LK L+ L+LCGCS+L+  PE      +   +NL  T +
Sbjct: 617 RLCKLDLTHCSSLQTFPSTIFNLK-LRNLDLCGCSSLRTFPEITEPAPTFDHINLICTAV 675

Query: 394 ERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
           + +P S   L  LR L L      +SLP  +
Sbjct: 676 KELPSSFANLVNLRSLELRKCTDLESLPNSI 706

Source: Phaseolus vulgaris

Species: Phaseolus vulgaris

Genus: Phaseolus

Family: Fabaceae

Order: Fabales

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	466
TAIR|locus:2118106	1219	AT4G12010 [Arabidopsis thalian	0.572	0.219	0.373	4e-55
TAIR|locus:2081790	1253	AT3G51560 [Arabidopsis thalian	0.457	0.169	0.438	5.5e-54
TAIR|locus:2827629	1355	AT2G17050 [Arabidopsis thalian	0.487	0.167	0.375	2.4e-53
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.489	0.191	0.430	4.5e-52
TAIR|locus:2158485	1288	RRS1 "RESISTANT TO RALSTONIA S	0.5	0.180	0.432	4.8e-51
TAIR|locus:2155347	1372	TTR1 "TOLERANT TO TOBACCO RING	0.469	0.159	0.443	1.2e-50
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.725	0.261	0.370	3.3e-50
TAIR|locus:2170488	1205	AT5G46260 [Arabidopsis thalian	0.575	0.222	0.354	1.8e-49
TAIR|locus:2094498	1981	AT3G25510 [Arabidopsis thalian	0.890	0.209	0.296	7.2e-35
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.869	0.354	0.324	1.2e-47

TAIR|locus:2118106 AT4G12010 [Arabidopsis thaliana (taxid:3702)]

 Score = 395 (144.1 bits), Expect = 4.0e-55, Sum P(2) = 4.0e-55
 Identities = 106/284 (37%), Positives = 158/284 (55%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             ++LIV DDV    Q+  ++    W    SRIIITTR+ +++     RK Y +  L +  A
Sbjct:   292 RLLIVLDDVNDEKQIRYLMGHCKWYQGGSRIIITTRDSKLIETIKGRK-YVLPKLNDREA 350

Query:    62 LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
             L+LFS +AF  + P   +E L++ V+ YA+G PLALKVLG  L ER+    E+ +++L+ 
Sbjct:   351 LKLFSLNAFSNSFPLKEFEGLTNMVLDYAKGHPLALKVLGSDLCERDDLYWEAKLDRLKS 410

Query:   122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
               H  I EVL+ SY+ L  ++KN+FLD+ACFF+ E+V+ V   LN+ G      +  LVD
Sbjct:   411 RSHGDIYEVLETSYEELTTEQKNVFLDIACFFRSENVDYVTSLLNSHGVDVSGVVKDLVD 470

Query:   182 KSLIAIGSYNKIRMHDLLQELGREI-VRQESIN---------PGNRS----RLWHHEDIY 227
             K LI + S N+I MHD+LQ + +EI ++ E+I           GN+     RLW  EDI 
Sbjct:   471 KCLITL-SDNRIEMHDMLQTMAKEISLKVETIGIRDCRWLSRHGNQCQWHIRLWDSEDIC 529

Query:   228 EVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNL 271
             ++LT      K+  I     +KL A   +      + NL  L +
Sbjct:   530 DLLTEGLGTDKIRGIFLDT-SKLRAMRLSAKAFQGMYNLKYLKI 572

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

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

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

TAIR|locus:2081790 AT3G51560 [Arabidopsis thaliana (taxid:3702)]

 Score = 429 (156.1 bits), Expect = 5.5e-54, Sum P(2) = 5.5e-54
 Identities = 97/221 (43%), Positives = 135/221 (61%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             +VL+V DDV      ES +   DW  P S IIIT+R+KQV     V +IYE+  L    A
Sbjct:   262 RVLVVLDDVCKPLDAESFLGGFDWFCPGSLIIITSRDKQVFSICRVDQIYEVPGLNEEEA 321

Query:    62 LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
             L+LFSR AF +       +KLS KV+ YA G PLAL   GC   +  K + E A  K+++
Sbjct:   322 LQLFSRCAFGKEIIHESLQKLSKKVIDYANGNPLALIFFGCMSRKNPKPI-EIAFPKVKK 380

Query:   122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
              L   I + +K +YDSL + EKNIFLD+AC F+GE+V+ V+  L   GF+P + I+VLV+
Sbjct:   381 YLAHEIHDAVKSTYDSLSSNEKNIFLDIACLFRGENVDCVIHLLEGCGFFPRVEINVLVE 440

Query:   182 KSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNR-SRLW 221
             K L+++    ++ MH+L+Q +GR+I     IN G R SRLW
Sbjct:   441 KCLVSMAE-GRVVMHNLIQSIGRKI-----INGGKRRSRLW 475

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2827629 AT2G17050 [Arabidopsis thaliana (taxid:3702)]

 Score = 362 (132.5 bits), Expect = 2.4e-53, Sum P(2) = 2.4e-53
 Identities = 87/232 (37%), Positives = 128/232 (55%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             ++LIV D+V      ++ +   DW  P S IIIT+R+KQVL   GV +IYE+E L    A
Sbjct:   115 RLLIVLDNVLKPLDADAFLNGFDWFGPGSLIIITSRDKQVLVQCGVNQIYEVEGLNKDEA 174

Query:    62 LELFSRHAFKRN-HPDVGYEKLSSKVM--KYAQGVPLALKVLGCFLYEREKEVSESAINK 118
              +L    AF  +     G E L+   +  KY  G PLAL +    L   + +  E  + K
Sbjct:   175 KQLLHGCAFGIDWRKQSGLETLAPYYISVKYFSGNPLALSLYEEMLSHMKSDKMEVKLLK 234

Query:   119 LQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISV 178
             L     P I+EV K +Y++L+  EK++FLD+ACFF+GE  + VM+     GF+P +GI V
Sbjct:   235 LNHP-PPQIMEVFKSNYNALNENEKSMFLDIACFFRGEKADYVMQLFEGCGFFPHVGIYV 293

Query:   179 LVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVL 230
             LVDK L+ I    K+ MH+L+Q +G+ I  + ++      RLW    I  +L
Sbjct:   294 LVDKCLVTIVK-RKMEMHNLIQIVGKAISNEGTVELDRHVRLWDTSIIQPLL 344

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 431 (156.8 bits), Expect = 4.5e-52, Sum P(2) = 4.5e-52
 Identities = 99/230 (43%), Positives = 141/230 (61%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             +VL+V DDV    QL S     D     SRIIITTRN  +L+       Y  + L+   +
Sbjct:   293 RVLLVVDDVDDVHQLNSAAIDRDCFGHGSRIIITTRNMHLLKQLRAEGSYSPKELDGDES 352

Query:    62 LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
             LELFS HAF+ + P   + + S +V+ Y  G+PLA++VLG FL ER     ES +  L+R
Sbjct:   353 LELFSWHAFRTSEPPKEFLQHSEEVVTYCAGLPLAVEVLGAFLIERSIREWESTLKLLKR 412

Query:   122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
             I + +I   L+IS+++L  ++K++FLD+ACFF G D   V   L+    YP+I +S+L++
Sbjct:   413 IPNDNIQAKLQISFNALTIEQKDVFLDIACFFIGVDSYYVACILDGCNLYPDIVLSLLME 472

Query:   182 KSLIAIGSYNKIRMHDLLQELGREIVRQESINP-GNRSRLWHHEDIYEVL 230
             + LI I S N I MHDLL+++GR+IVR+ S    G RSRLW H D+  VL
Sbjct:   473 RCLITI-SGNNIMMHDLLRDMGRQIVREISPKKCGERSRLWSHNDVVGVL 521

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2158485 RRS1 "RESISTANT TO RALSTONIA SOLANACEARUM 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 459 (166.6 bits), Expect = 4.8e-51, Sum P(2) = 4.8e-51
 Identities = 102/236 (43%), Positives = 144/236 (61%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             +VL+V DDV      ES +   DWL P S IIIT+R+KQV    G+ +IYE++ L    A
Sbjct:   248 RVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQIYEVQGLNEKEA 307

Query:    62 LELFSRHA-FKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREK-EVSESAINKL 119
              +LF   A  K +  +   ++LS +V+ YA G PLA+ V G  L  ++K    E+A  KL
Sbjct:   308 RQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGRELKGKKKLSEMETAFLKL 367

Query:   120 QRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVL 179
             +R     I++  K +YD+L + EKNIFLD+ACFFQGE+VN V++ L   GF+P + I VL
Sbjct:   368 KRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEGCGFFPHVEIDVL 427

Query:   180 VDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTH 235
             VDK L+ I S N++ +H L Q++GREI+  E++    R RLW    I  +L YN H
Sbjct:   428 VDKCLVTI-SENRVWLHKLTQDIGREIINGETVQIERRRRLWEPWSIKYLLEYNEH 482

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;TAS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP;TAS

GO:0003677 "DNA binding" evidence=IDA

GO:0008219 "cell death" evidence=IMP

TAIR|locus:2155347 TTR1 "TOLERANT TO TOBACCO RINGSPOT NEPOVIRUS 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 465 (168.7 bits), Expect = 1.2e-50, Sum P(2) = 1.2e-50
 Identities = 98/221 (44%), Positives = 144/221 (65%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             +VL+V DDV     +ES +   DW  P S IIIT+++K V R   V +IYE++ L    A
Sbjct:   242 RVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEA 301

Query:    62 LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVS-ESAINKLQ 120
             L+LFS  A   +  +    ++S KV+KYA G PLAL + G  L  +++    E A  KL+
Sbjct:   302 LQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEMEIAFLKLK 361

Query:   121 RILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
                    ++ +K SYD+L+++EKNIFLD+ACFFQGE+V+ VM+ L   GF+P +GI VLV
Sbjct:   362 ECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLV 421

Query:   181 DKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLW 221
             +KSL+ I S N++RMH+L+Q++GR+I+ +E+     RSRLW
Sbjct:   422 EKSLVTI-SENRVRMHNLIQDVGRQIINRETRQTKRRSRLW 461

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006952 "defense response" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0043565 "sequence-specific DNA binding" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009615 "response to virus" evidence=IMP

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

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 534 (193.0 bits), Expect = 3.3e-50, P = 3.3e-50
 Identities = 130/351 (37%), Positives = 205/351 (58%)

Query:     3 VLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHAL 62
             V IV DDV    QL  +++   W  P SRII+TTR++ +L + G+  +Y+++ L    AL
Sbjct:   290 VFIVLDDVDRSEQLNELVKETGWFGPGSRIIVTTRDRHLLLSHGINLVYKVKCLPKKEAL 349

Query:    63 ELFSRHAFKRNH--PDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQ 120
             +LF  +AF+     P  G+E+LS + + YA G+PLAL+VLG FLY R +   ES + +L+
Sbjct:   350 QLFCNYAFREEIILPH-GFEELSVQAVNYASGLPLALRVLGSFLYRRSQIEWESTLARLK 408

Query:   121 RILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
                H  I+EVL++SYD LD +EK IFL ++CF+  + V+ V K L+  G+  EIGI++L 
Sbjct:   409 TYPHSDIMEVLRVSYDGLDEQEKAIFLYISCFYNMKQVDYVRKLLDLCGYAAEIGITILT 468

Query:   181 DKSLIAIGSYNKIRMHDLLQELGREIVRQESIN-PGNRSRLWHHEDIYEVLTYNTHYSKL 239
             +KSLI + S   +++HDLL+++GRE+VRQ+++N P  R  LW  EDI  +L+ N+  ++L
Sbjct:   469 EKSLI-VESNGCVKIHDLLEQMGRELVRQQAVNNPAQRLLLWDPEDICHLLSENSG-TQL 526

Query:   240 NQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRS----GKSLKSLPSGIFNL-EFLTKLD 294
              + I    +++     +      L+NL +LN       G++   LP+G+  L   L  L 
Sbjct:   527 VEGISLNLSEISEVFASDRAFEGLSNLKLLNFYDLSFDGETRVHLPNGLSYLPRKLRYLR 586

Query:   295 LSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCK 344
               G   LK +P       +  L +  + +E+L   I  LR L  ++LS CK
Sbjct:   587 WDGYP-LKTMPSRFFPEFLVELCMSNSNLEKLWDGIQPLRNLKKMDLSRCK 636

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170488 AT5G46260 [Arabidopsis thaliana (taxid:3702)]

 Score = 398 (145.2 bits), Expect = 1.8e-49, Sum P(2) = 1.8e-49
 Identities = 96/271 (35%), Positives = 146/271 (53%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             KVLI+ DDV     L+S++    W    SRII+ T NK  L   G+ ++YE+      HA
Sbjct:   293 KVLIIIDDVDDQVILDSLVGKTQWFGNGSRIIVVTNNKHFLTAHGIDRMYEVSLPTEEHA 352

Query:    62 LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
             L +  + AFK+  P  G+E L  +V +YA  +PL LKVLG +L  ++KE     + +LQ 
Sbjct:   353 LAMLCQSAFKKKSPPEGFEMLVVQVARYAGSLPLVLKVLGSYLSGKDKEYWIDMLPRLQN 412

Query:   122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
              L+  I  +L+ISYD L+++++ IF  +AC F   +V  +   L  S +   +G+  LVD
Sbjct:   413 GLNDKIERILRISYDGLESEDQAIFRHIACIFNHMEVTTIKSLLANSIYGANVGLQNLVD 472

Query:   182 KSLIAIGSYNKIRMHDLLQELGREIVRQESIN-PGNRSRLWHHEDIYEVLTYNTHYSKLN 240
             KS+I +  +  + MH LLQE+GR+IVR +SI  P  R  L    DI +VL+      K+ 
Sbjct:   473 KSIIHV-RWGHVEMHPLLQEMGRKIVRTQSIGKPRKREFLVDPNDICDVLSEGIDTQKVL 531

Query:   241 QIIHTACNKLIAKTPNPMLMPRLNNLVILNL 271
              I     +K+     +     R+ NL  L +
Sbjct:   532 GI-SLETSKIDELCVHESAFKRMRNLRFLKI 561

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2094498 AT3G25510 [Arabidopsis thaliana (taxid:3702)]

 Score = 393 (143.4 bits), Expect = 7.2e-35, P = 7.2e-35
 Identities = 127/429 (29%), Positives = 210/429 (48%)

Query:     2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
             KVLIV D++    QL++I +   W    SRIIITT+++++L+  G+  IY+++    H A
Sbjct:  1532 KVLIVLDNIDQSMQLDAIAKETRWFGHGSRIIITTQDQKLLKAHGINHIYKVDYPSTHEA 1591

Query:    62 LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
              ++F   A  +  P   +++L+ +V      +PL L+V+G       K+   +A+ +L+ 
Sbjct:  1592 CQIFCMSAVGKKFPKDEFQELALEVTNLLGNLPLGLRVMGSHFRGMSKQEWINALPRLRT 1651

Query:   122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLVD 181
              L  +I  +LK SYD+L  ++K++FL +AC F  + +  V   L       +    VL +
Sbjct:  1652 HLDSNIQSILKFSYDALCREDKDLFLHIACTFNNKRIENVEAHLTHKFLDTKQRFHVLAE 1711

Query:   182 KSLIAIGSYNKIRMHDLLQELGREIV--RQESIN-PGNRSRLWHHEDIYEVLTYNTHYSK 238
             KSLI+I     I+MH+LL+ LGREIV    ESI  PG R  L    DI EVLT +T    
Sbjct:  1712 KSLISIEE-GWIKMHNLLELLGREIVCHEHESIREPGKRQFLVDARDICEVLTDDTGSKS 1770

Query:   239 LNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKS-LPSGIFNLEFLT-KLDLS 296
             +  I   +   L     +      ++NL  L ++  +S K  LP G   L++++ KL L 
Sbjct:  1771 VVGIYFNSAELLGELNISERAFEGMSNLKFLRIKCDRSDKMYLPRG---LKYISRKLRLL 1827

Query:   297 GCSK--LKRLPE-ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRXXXXXXXX 353
                +  L  LP    +  +  L +R + + +L      L  L ++NL   K         
Sbjct:  1828 EWDRFPLTCLPSNFCTEYLVELNMRHSKLVKLWEGNLSLGNLKWMNLFHSKNLKELPDFS 1887

Query:   354 XXXXXXXXXXXCGCSNLQRLPECLGQLSSPIILNLAK-TNIERIPESIIQLFVLRYLLLS 412
                        CGCS+L  LP  +G  ++   L+L + T++  +P SI  L  L+ + L 
Sbjct:  1888 TATNLQTLIL-CGCSSLVELPYSIGSANNLQKLHLCRCTSLVELPASIGNLHKLQNVTLK 1946

Query:   413 YSERFQSLP 421
                + + +P
Sbjct:  1947 GCSKLEVVP 1955

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 509 (184.2 bits), Expect = 1.2e-47, P = 1.2e-47
 Identities = 139/428 (32%), Positives = 228/428 (53%)

Query:     2 KVLIVFDDVTCFSQ-LESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHH 60
             KVLIV DD+      LE +   LDW    SRIIITTR+K ++    +  IYE+ AL +H 
Sbjct:   295 KVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHE 352

Query:    61 ALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQ 120
             +++LF +HAF +  P+  +EKLS +V+ YA+G+PLALKV G  L+       +SAI  ++
Sbjct:   353 SIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMK 412

Query:   121 RILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
                +  I++ LKISYD L+ K++ +FLD+ACF +GE+ + +++ L +     E G+ +L+
Sbjct:   413 NNSYSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILI 472

Query:   181 DKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
             DKSL+ I  YN+++MHDL+Q++G+ IV  +  +PG RSRLW  +++ EV++ NT    + 
Sbjct:   473 DKSLVFISEYNQVQMHDLIQDMGKYIVNFQK-DPGERSRLWLAKEVEEVMSNNTGTMAME 531

Query:   241 QIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFL-TKLDLSGCS 299
              I  ++ +  + +  N   +  +  L + N+  G+S     S  + +++L   L    C+
Sbjct:   532 AIWVSSYSSTL-RFSN-QAVKNMKRLRVFNM--GRS-----STHYAIDYLPNNLRCFVCT 582

Query:   300 KL--KRLPE-ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRXXXXXXXXXXX 356
                 +  P       +  L LR  ++  L +    L  L  ++LS  KR           
Sbjct:   583 NYPWESFPSTFELKMLVHLQLRHNSLRHLWTETKHLPSLRRIDLSWSKRLTRTPDFTGMP 642

Query:   357 XXXXXXXXCGCSNLQRLPECLGQLSSPI--ILNLAKTNIERIPESIIQLFVLRYLLLSYS 414
                       CSNL+ +   LG  S  I   LN  K+ ++R P   + +  L YL L   
Sbjct:   643 NLEYVNLY-QCSNLEEVHHSLGCCSKVIGLYLNDCKS-LKRFP--CVNVESLEYLGLRSC 698

Query:   415 ERFQSLPK 422
             +  + LP+
Sbjct:   699 DSLEKLPE 706

GO:0005515 "protein binding" evidence=IPI

---

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	466
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-53
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-18
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-16
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-15
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	4e-07
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	6e-07
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	6e-05
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	6e-04
PRK15387	788	PRK15387, PRK15387, E3 ubiquitin-protein ligase Ss	8e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.004
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.004

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

 Score =  192 bits (490), Expect = 2e-53
 Identities = 153/442 (34%), Positives = 220/442 (49%), Gaps = 39/442 (8%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHA 61
           KVLI  DD+     L+++     W    SRII+ T++K  LR  G+  IYE+    N  A
Sbjct: 297 KVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELA 356

Query: 62  LELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQR 121
           LE+F R AFK+N P  G+ +L+S+V   A  +PL L VLG +L  R+KE     + +L+ 
Sbjct: 357 LEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRN 416

Query: 122 ILHPSILEVLKISYDSLDN-KEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEIGISVLV 180
            L   I + L++SYD L+N K+K IF  +AC F GE VN +   L  S     IG+  LV
Sbjct: 417 GLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLV 476

Query: 181 DKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKLN 240
           DKSLI +   + + MH LLQE+G+EIVR +S  PG R  L   +DI +VL  NT   K+ 
Sbjct: 477 DKSLIHV-REDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVL 535

Query: 241 QI-----------IHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKS------LPSG 283
            I           IH    K             + NL+ L   + K  +       LP G
Sbjct: 536 GITLDIDEIDELHIHENAFK------------GMRNLLFLKFYTKKWDQKKEVRWHLPEG 583

Query: 284 IFNLEFLTKLDLSGCSK--LKRLP-EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNL 340
            F+     KL L    K  L+ +P      N+  L ++G+ +E+L   +  L  L  ++L
Sbjct: 584 -FD-YLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDL 641

Query: 341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAK-TNIERIPES 399
              K LK +P  L    +L+ L L  CS+L  LP  +  L+    L++++  N+E +P  
Sbjct: 642 RGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG 700

Query: 400 IIQLFVLRYLLLSYSERFQSLP 421
            I L  L  L LS   R +S P
Sbjct: 701 -INLKSLYRLNLSGCSRLKSFP 721

syringae 6; Provisional. Length = 1153

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

 Score = 84.7 bits (210), Expect = 2e-18
 Identities = 57/185 (30%), Positives = 92/185 (49%), Gaps = 10/185 (5%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVR-KIYEIEALENHH 60
           + L+V DDV   +  + I          SR+I+TTR++ V    G   K +E+E+LE   
Sbjct: 101 RFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEE 160

Query: 61  ALELFSRHAFKRNHP-DVGYEKLSSKVMKYAQGVPLALKVLGCFLYERE-----KEVSES 114
           + ELFS   F++  P     E+++ ++++  +G+PLALKVLG  L  +      + V E 
Sbjct: 161 SWELFSNKVFEKELPPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQ 220

Query: 115 AINKL-QRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGED--VNLVMKFLNASGFY 171
             N+L  R     +L +L +SYD+L    K  FL +A F +  +     ++K   A GF 
Sbjct: 221 LNNELAGRDGLNEVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFV 280

Query: 172 PEIGI 176
               I
Sbjct: 281 IPSDI 285

Length = 285

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

 Score = 82.2 bits (203), Expect = 1e-16
 Identities = 43/114 (37%), Positives = 70/114 (61%), Gaps = 2/114 (1%)

Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLF 316
           P  +  L+ L  L + +  +L++LP+GI NLE L  LDLSGCS+L+  P+IS+ N+  L 
Sbjct: 795 PSSIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPDIST-NISDLN 852

Query: 317 LRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL 370
           L  T IEE+P  I++   L +L+++ C  L+ +  ++ KLK L+ ++   C  L
Sbjct: 853 LSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGAL 906

syringae 6; Provisional. Length = 1153

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

 Score = 79.9 bits (197), Expect = 1e-15
 Identities = 66/198 (33%), Positives = 92/198 (46%), Gaps = 54/198 (27%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
           LN L  L++   ++L+ LP+GI NL+ L +L+LSGCS+LK  P+IS+ N+ WL L  TAI
Sbjct: 680 LNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDIST-NISWLDLDETAI 737

Query: 323 EELPSSIDRLRRLGYLNL-------------------------------SDCKRLKSLPS 351
           EE PS++ RL  L  L L                               SD   L  LPS
Sbjct: 738 EEFPSNL-RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPS 796

Query: 352 SLCKLKSLKVLNLCGCSNLQRLP-------------------ECLGQLSSPI-ILNLAKT 391
           S+  L  L+ L +  C NL+ LP                        +S+ I  LNL++T
Sbjct: 797 SIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPDISTNISDLNLSRT 856

Query: 392 NIERIPESIIQLFVLRYL 409
            IE +P  I +   L +L
Sbjct: 857 GIEEVPWWIEKFSNLSFL 874

syringae 6; Provisional. Length = 1153

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

 Score = 51.5 bits (123), Expect = 4e-07
 Identities = 49/157 (31%), Positives = 71/157 (45%), Gaps = 5/157 (3%)

Query: 258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSG--CSKLKRLPEISSGNVCWL 315
             +  L  L  L+L +   L+S  S +  L  LT LDL     + +  L  +   N+  L
Sbjct: 87  ENLLNLLPLPSLDL-NLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKEL 145

Query: 316 FLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE 375
            L    IE LPS +  L  L  L+LS    L  LP  L  L +L  L+L G + +  LP 
Sbjct: 146 DLSDNKIESLPSPLRNLPNLKNLDLSFND-LSDLPKLLSNLSNLNNLDLSG-NKISDLPP 203

Query: 376 CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLS 412
            +  LS+   L+L+  +I  +  S+  L  L  L LS
Sbjct: 204 EIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELS 240

Length = 394

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 51.8 bits (124), Expect = 6e-07
 Identities = 60/200 (30%), Positives = 102/200 (51%), Gaps = 11/200 (5%)

Query: 241 QIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSG-IFNLEFLTKLDLSGCS 299
           Q I+ + N+L    P+ +     ++L  LNL +     S+P G I NLE    LDLS   
Sbjct: 96  QTINLSNNQLSGPIPDDIFTTS-SSLRYLNLSNNNFTGSIPRGSIPNLE---TLDLSNNM 151

Query: 300 KLKRLP-EISS-GNVCWLFLRGTAIE-ELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKL 356
               +P +I S  ++  L L G  +  ++P+S+  L  L +L L+  + +  +P  L ++
Sbjct: 152 LSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQM 211

Query: 357 KSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSYS 414
           KSLK + L G +NL   +P  +G L+S   L+L   N+   IP S+  L  L+YL L  +
Sbjct: 212 KSLKWIYL-GYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQN 270

Query: 415 ERFQSLPKPLFLARGCLALE 434
           +    +P  +F  +  ++L+
Sbjct: 271 KLSGPIPPSIFSLQKLISLD 290

Length = 968

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 45.2 bits (107), Expect = 6e-05
 Identities = 33/85 (38%), Positives = 49/85 (57%), Gaps = 5/85 (5%)

Query: 317 LRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPEC 376
           LRG     +P+ I +LR L  +NLS      ++P SL  + SL+VL+L   S    +PE 
Sbjct: 430 LRG----FIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES 485

Query: 377 LGQLSSPIILNLAKTNIE-RIPESI 400
           LGQL+S  ILNL   ++  R+P ++
Sbjct: 486 LGQLTSLRILNLNGNSLSGRVPAAL 510

Length = 623

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 41.7 bits (98), Expect = 6e-04
 Identities = 32/81 (39%), Positives = 44/81 (54%), Gaps = 9/81 (11%)

Query: 299 SKLKRLPEIS-SGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLK 357
           SKL+ L  I+ SGN     +RG     +P S+  +  L  L+LS      S+P SL +L 
Sbjct: 439 SKLRHLQSINLSGN----SIRG----NIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLT 490

Query: 358 SLKVLNLCGCSNLQRLPECLG 378
           SL++LNL G S   R+P  LG
Sbjct: 491 SLRILNLNGNSLSGRVPAALG 511

Length = 623

>gnl|CDD|185285 PRK15387, PRK15387, E3 ubiquitin-protein ligase SspH2; Provisional

 Score = 41.7 bits (97), Expect = 8e-04
 Identities = 49/171 (28%), Positives = 74/171 (43%), Gaps = 30/171 (17%)

Query: 254 TPNPMLMPRLNNLVILNLRSGKSLKSLP---SGIFNLEFLTKLDLSGCSKLKRLPEISSG 310
           T  P L P L  L +    SG  L SLP    G+  L   +       + L  LP + SG
Sbjct: 235 TSLPALPPELRTLEV----SGNQLTSLPVLPPGLLELSIFS-------NPLTHLPALPSG 283

Query: 311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL 370
            +C L++ G  +  LP     L+ L  ++ +    L +LPS LCKL +         ++L
Sbjct: 284 -LCKLWIFGNQLTSLPVLPPGLQELS-VSDNQLASLPALPSELCKLWAYN----NQLTSL 337

Query: 371 QRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLP 421
             LP  L +LS      ++   +  +P    +L    Y L +Y+ R  SLP
Sbjct: 338 PTLPSGLQELS------VSDNQLASLPTLPSEL----YKLWAYNNRLTSLP 378

Length = 788

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 41/147 (27%), Positives = 63/147 (42%), Gaps = 22/147 (14%)

Query: 255 PNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCW 314
           P P  +  L NL  L L   K    +P  IF+L+ L  LDLS                  
Sbjct: 251 PIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDN---------------- 294

Query: 315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP 374
             L G    E+P  + +L+ L  L+L        +P +L  L  L+VL L        +P
Sbjct: 295 -SLSG----EIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIP 349

Query: 375 ECLGQLSSPIILNLAKTNIE-RIPESI 400
           + LG+ ++  +L+L+  N+   IPE +
Sbjct: 350 KNLGKHNNLTVLDLSTNNLTGEIPEGL 376

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 54/215 (25%), Positives = 88/215 (40%), Gaps = 37/215 (17%)

Query: 241 QIIHTACNKLIAKTPNPML-MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS 299
           +I+H   N    K P  +  +PRL    +L L S K    +P  +     LT LDLS  +
Sbjct: 311 EILHLFSNNFTGKIPVALTSLPRLQ---VLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNN 367

Query: 300 KLKRLPE--ISSGNVCWLFLRGTAIE-------------------------ELPSSIDRL 332
               +PE   SSGN+  L L   ++E                         ELPS   +L
Sbjct: 368 LTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKL 427

Query: 333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG--QLSSPIILNLAK 390
             + +L++S+      + S    + SL++L+L        LP+  G  +L +   L+L++
Sbjct: 428 PLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKRLEN---LDLSR 484

Query: 391 TNI-ERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
                 +P  +  L  L  L LS ++    +P  L
Sbjct: 485 NQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDEL 519

Length = 968

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	466
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.95
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.74
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.69
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.57
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.55
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.51
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.46
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.42
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.4
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.36
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.3
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.17
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.13
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.11
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.11
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.05
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.95
PLN03150	623	hypothetical protein; Provisional	98.91
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.89
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.89
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.87
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.86
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.85
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.84
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.84
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.82
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.74
PLN03150	623	hypothetical protein; Provisional	98.72
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.71
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.69
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.62
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.46
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.43
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.36
PRK04841	903	transcriptional regulator MalT; Provisional	98.29
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.29
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.22
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.18
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.17
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.11
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.1
PRK15386	426	type III secretion protein GogB; Provisional	98.07
PRK15386	426	type III secretion protein GogB; Provisional	97.98
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.95
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.89
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.81
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.76
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.64
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.63
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.63
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.54
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.39
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.3
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.28
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.28
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.19
PRK06893	229	DNA replication initiation factor; Validated	96.64
PF05729	166	NACHT: NACHT domain	96.64
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	96.63
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.51
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	96.33
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.29
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.24
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.98
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.94
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	95.78
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	95.66
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	95.44
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	95.4
KOG2982	418	consensus Uncharacterized conserved protein [Funct	95.38
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.31
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	95.06
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.88
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.71
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.33
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.5
COG3903	414	Predicted ATPase [General function prediction only	93.33
PRK09087	226	hypothetical protein; Validated	93.32
COG3899	849	Predicted ATPase [General function prediction only	91.97
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	91.8
KOG1947	482	consensus Leucine rich repeat proteins, some prote	91.41
PRK08727	233	hypothetical protein; Validated	91.27
PF13173	128	AAA_14: AAA domain	90.77
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	90.58
PRK06620	214	hypothetical protein; Validated	89.99
PRK05564	313	DNA polymerase III subunit delta'; Validated	89.91
PRK08084	235	DNA replication initiation factor; Provisional	89.83
smart00370	26	LRR Leucine-rich repeats, outliers.	89.39
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	89.39
KOG1947	482	consensus Leucine rich repeat proteins, some prote	88.71
PRK07471	365	DNA polymerase III subunit delta'; Validated	87.94
KOG4341	483	consensus F-box protein containing LRR [General fu	87.69
PRK05642	234	DNA replication initiation factor; Validated	87.67
PRK13342	413	recombination factor protein RarA; Reviewed	86.26
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	85.04
PRK00411	394	cdc6 cell division control protein 6; Reviewed	84.28
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	84.03
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	83.87
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	83.21
PRK09112	351	DNA polymerase III subunit delta'; Validated	82.65
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	82.05
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	81.58
PRK12402	337	replication factor C small subunit 2; Reviewed	81.21

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=3e-52  Score=432.57  Aligned_cols=359  Identities=28%  Similarity=0.367  Sum_probs=273.0

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhh-cCcceEEEccCCChhhHHHHHHHhhcCCC-CCCch
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRN-WGVRKIYEIEALENHHALELFSRHAFKRN-HPDVG   78 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~-~~~~~   78 (466)
                      |||+|||||||+..+|+.++.++|....||||++|||+++||.. |++.+.++++.|+.+|||+||.+.||... ...+.
T Consensus       261 krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~  340 (889)
T KOG4658|consen  261 KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPD  340 (889)
T ss_pred             CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccccccc
Confidence            79999999999999999999999999999999999999999999 88888999999999999999999998763 34456


Q ss_pred             HHHHHHHHHHHhCCCceeehhhhhhcccC-CHHHHHHHHHHHHhc-------cchhHHHHHHHHHhcCchhhhhhhceee
Q 012324           79 YEKLSSKVMKYAQGVPLALKVLGCFLYER-EKEVSESAINKLQRI-------LHPSILEVLKISYDSLDNKEKNIFLDVA  150 (466)
Q Consensus        79 ~~~~~~~i~~~c~glPlai~~~~~~l~~~-~~~~w~~~~~~l~~~-------~~~~~~~~l~~sy~~L~~~~~~~~~~~~  150 (466)
                      ++++|++++++|+|+|||+.++|+.|+.+ +..+|+.+.+.+...       ..+.++.++.+||+.||++.|.||+|||
T Consensus       341 i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLyca  420 (889)
T KOG4658|consen  341 IEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCA  420 (889)
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhc
Confidence            89999999999999999999999999987 677999999988665       1467899999999999998999999999


Q ss_pred             ccCCCccH--HHHHHHHHhcCCCc------------cchhhhhhcccceEEcC----CCeEEecHHHHHHHHHHHhhhcc
Q 012324          151 CFFQGEDV--NLVMKFLNASGFYP------------EIGISVLVDKSLIAIGS----YNKIRMHDLLQELGREIVRQESI  212 (466)
Q Consensus       151 ~fp~~~~~--~~l~~~~~~~~~~~------------~~~~~~L~~~sl~~~~~----~~~~~~hdlv~~~~~~~~~~~~~  212 (466)
                      .||+++++  +.++.+|+|+||+.            ..++.+|++++++....    ...|+|||++||+|.+++.+...
T Consensus       421 lFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~  500 (889)
T KOG4658|consen  421 LFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGK  500 (889)
T ss_pred             cCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccc
Confidence            99999765  45999999999873            34499999999998764    37899999999999999985432


Q ss_pred             CCCCcccccchh-hHHHHhhhcccchhhhhHHHhhhhhcccCCCCCCCCCCCCCCcEEEcCCCCC-CcccC-cccccCcc
Q 012324          213 NPGNRSRLWHHE-DIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKS-LKSLP-SGIFNLEF  289 (466)
Q Consensus       213 ~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~-~~~~~-~~l~~l~~  289 (466)
                      ..+.  .+.... ...+ .+........++....+...     .....-..++.|++|-+.+|.. ...++ ..|..++.
T Consensus       501 ~~e~--~iv~~~~~~~~-~~~~~~~~~~rr~s~~~~~~-----~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~  572 (889)
T KOG4658|consen  501 QEEN--QIVSDGVGLSE-IPQVKSWNSVRRMSLMNNKI-----EHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPL  572 (889)
T ss_pred             cccc--eEEECCcCccc-cccccchhheeEEEEeccch-----hhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcc
Confidence            2111  110000 0000 00011111222221111110     0011122334677777776642 23333 33556777


Q ss_pred             cCEEecCCCCCCCccCCCCCC--cccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCC
Q 012324          290 LTKLDLSGCSKLKRLPEISSG--NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGC  367 (466)
Q Consensus       290 L~~L~l~~~~~~~~~~~~~~~--~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~  367 (466)
                      |++||+++|.-.+.+|..+..  +|++|+++++.++.+|.+++++..|++|++..+.....+|.....+++|++|.+...
T Consensus       573 LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  573 LRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRS  652 (889)
T ss_pred             eEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeecc
Confidence            777887777777777766553  667777778889999999999999999999887766666665666999999988653

>PLN03210 Resistant to P

Probab=100.00  E-value=3.8e-49  Score=430.30  Aligned_cols=417  Identities=35%  Similarity=0.521  Sum_probs=356.9

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhhcCcceEEEccCCChhhHHHHHHHhhcCCCCCCchHH
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNHPDVGYE   80 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~   80 (466)
                      ||+||||||||+..+|+.+.......++||+||||||++.++..++..++|+++.|+++|||+||.++||+...++.++.
T Consensus       296 krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~  375 (1153)
T PLN03210        296 RKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFM  375 (1153)
T ss_pred             CeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHH
Confidence            68999999999999999998776666899999999999999988888889999999999999999999998776677789


Q ss_pred             HHHHHHHHHhCCCceeehhhhhhcccCCHHHHHHHHHHHHhccchhHHHHHHHHHhcCch-hhhhhhceeeccCCCccHH
Q 012324           81 KLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDN-KEKNIFLDVACFFQGEDVN  159 (466)
Q Consensus        81 ~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~~~~l~~sy~~L~~-~~~~~~~~~~~fp~~~~~~  159 (466)
                      +++++|+++|+|+|||++++|++|++++..+|++++++++......+..++++||+.|++ ..|.||+++|+|+.+.+++
T Consensus       376 ~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~  455 (1153)
T PLN03210        376 ELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN  455 (1153)
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH
Confidence            999999999999999999999999999999999999999988888899999999999986 5899999999999999888


Q ss_pred             HHHHHHHhcCCCccchhhhhhcccceEEcCCCeEEecHHHHHHHHHHHhhhccCCCCcccccchhhHHHHhhhcccchhh
Q 012324          160 LVMKFLNASGFYPEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSKL  239 (466)
Q Consensus       160 ~l~~~~~~~~~~~~~~~~~L~~~sl~~~~~~~~~~~hdlv~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  239 (466)
                      .+..++...++....+++.|++++|++.. .+.+.|||++|++++++++.+...++.+.++|.+.++.+++....+..++
T Consensus       456 ~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v  534 (1153)
T PLN03210        456 DIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKV  534 (1153)
T ss_pred             HHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCccccee
Confidence            87777777777788889999999999886 56899999999999999998887888999999999999998887777665


Q ss_pred             hhHHHhhhhhcccCCCCCCCCCCCCCCcEEEcCCCCC------CcccCcccccCc-ccCEEecCCCCCCCccCCC-CCCc
Q 012324          240 NQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKS------LKSLPSGIFNLE-FLTKLDLSGCSKLKRLPEI-SSGN  311 (466)
Q Consensus       240 ~~l~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~------~~~~~~~l~~l~-~L~~L~l~~~~~~~~~~~~-~~~~  311 (466)
                      +.+. +..+...........|.++++|+.|.++.+..      ...+|..+..++ +|+.|.+.++.. ..+|.. ...+
T Consensus       535 ~~i~-l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l-~~lP~~f~~~~  612 (1153)
T PLN03210        535 LGIT-LDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPL-RCMPSNFRPEN  612 (1153)
T ss_pred             eEEE-eccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCC-CCCCCcCCccC
Confidence            5441 11111112223344588899999999976532      234666666664 599999998764 555544 3468


Q ss_pred             ccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCC
Q 012324          312 VCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKT  391 (466)
Q Consensus       312 l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~  391 (466)
                      |+.|++.++++..+|.++..+++|++|++++|.....+|. ++.+++|++|++++|.....+|..++++++|+.|++++|
T Consensus       613 L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c  691 (1153)
T PLN03210        613 LVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRC  691 (1153)
T ss_pred             CcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCC
Confidence            8999999999999999999999999999999887888885 888999999999999999999999999999999999875


Q ss_pred             -CccccchhhhccCCCcEeecccCcCCCcCCC
Q 012324          392 -NIERIPESIIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       392 -~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                       ++..+|..+ ++++|++|++++|..++.+|.
T Consensus       692 ~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~  722 (1153)
T PLN03210        692 ENLEILPTGI-NLKSLYRLNLSGCSRLKSFPD  722 (1153)
T ss_pred             CCcCccCCcC-CCCCCCEEeCCCCCCcccccc
Confidence             566888765 789999999999988877775

syringae 6; Provisional

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

Probab=99.95  E-value=7.5e-29  Score=233.06  Aligned_cols=173  Identities=30%  Similarity=0.498  Sum_probs=137.3

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhhcCc-ceEEEccCCChhhHHHHHHHhhcCCC-CCCch
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGV-RKIYEIEALENHHALELFSRHAFKRN-HPDVG   78 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~~~-~~~~~l~~L~~~~~~~Lf~~~~~~~~-~~~~~   78 (466)
                      +||||||||||+..+|+.+...++....||+||||||+..++..++. .+.+++++|+.+||++||.+.++... .....
T Consensus       101 ~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~  180 (287)
T PF00931_consen  101 KRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGRKESESPED  180 (287)
T ss_dssp             TSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTSHS----TT
T ss_pred             ccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            58999999999999999998888877889999999999999887654 67999999999999999999997655 33455


Q ss_pred             HHHHHHHHHHHhCCCceeehhhhhhcccC-CHHHHHHHHHHHHhcc------chhHHHHHHHHHhcCchhhhhhhceeec
Q 012324           79 YEKLSSKVMKYAQGVPLALKVLGCFLYER-EKEVSESAINKLQRIL------HPSILEVLKISYDSLDNKEKNIFLDVAC  151 (466)
Q Consensus        79 ~~~~~~~i~~~c~glPlai~~~~~~l~~~-~~~~w~~~~~~l~~~~------~~~~~~~l~~sy~~L~~~~~~~~~~~~~  151 (466)
                      .++.+++|+++|+|+|+|++++|++|+.+ +..+|+.+.+++....      ...+..++.+||+.||++.|+||+||++
T Consensus       181 ~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~f~~L~~  260 (287)
T PF00931_consen  181 LEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSALELSYDSLPDELRRCFLYLSI  260 (287)
T ss_dssp             SCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHHHHHHHSSHTCCHHHHHHGGG
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceechhcCCccHHHHHhhCcC
Confidence            57789999999999999999999999654 6788999998876553      4679999999999999999999999999


Q ss_pred             cCCCcc--HHHHHHHHHhcCCCcc
Q 012324          152 FFQGED--VNLVMKFLNASGFYPE  173 (466)
Q Consensus       152 fp~~~~--~~~l~~~~~~~~~~~~  173 (466)
                      ||+++.  ...++++|.++|++..
T Consensus       261 f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  261 FPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             SGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             CCCCceECHHHHHHHHHHCCCCcc
Confidence            999955  6679999999998764

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

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

Probab=99.74  E-value=7.2e-18  Score=184.57  Aligned_cols=165  Identities=28%  Similarity=0.354  Sum_probs=89.1

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccc-cCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCc-ccChhhhccCCCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIE-ELPSSIDRLRRLG  336 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~-~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~-~lp~~l~~l~~L~  336 (466)
                      .+..+++|++|++++|.+.+.+|..+. .+++|++|++++|.+.+.+|.....++++|++++|.+. .+|..++.+++|+
T Consensus        88 ~~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~  167 (968)
T PLN00113         88 AIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLK  167 (968)
T ss_pred             HHhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCC
Confidence            345556666666666655555554433 55566666666665555555544455555555555554 4455555555555


Q ss_pred             eeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhccCCCcEeecccCc
Q 012324          337 YLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       337 ~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l~~L~~L~l~~~~  415 (466)
                      +|++++|.+.+.+|..++++++|++|++++|.+.+.+|..++++++|+.|++++|++. .+|..++++++|++|++++|.
T Consensus       168 ~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~  247 (968)
T PLN00113        168 VLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNN  247 (968)
T ss_pred             EEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCce
Confidence            5555555555555555555555555555555555555555555555555555555554 444455555555555555554


Q ss_pred             CCCcCCCC
Q 012324          416 RFQSLPKP  423 (466)
Q Consensus       416 ~~~~~p~~  423 (466)
                      +.+.+|..
T Consensus       248 l~~~~p~~  255 (968)
T PLN00113        248 LTGPIPSS  255 (968)
T ss_pred             eccccChh
Confidence            44444443

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

Probab=99.69  E-value=5.4e-17  Score=177.71  Aligned_cols=169  Identities=26%  Similarity=0.282  Sum_probs=102.2

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCc-ccChhhhccCCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIE-ELPSSIDRLRRL  335 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~-~lp~~l~~l~~L  335 (466)
                      .+.++++|++|++++|.+.+.+|..++++++|++|++++|.+.+.+|..+.  .++++|++++|.+. .+|..++++++|
T Consensus       183 ~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L  262 (968)
T PLN00113        183 SLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNL  262 (968)
T ss_pred             hhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCC
Confidence            455555666666655555555555555566666666666555555554332  35566666666554 455566666666


Q ss_pred             CeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhccCCCcEeecccC
Q 012324          336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       336 ~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l~~L~~L~l~~~  414 (466)
                      ++|++++|.+.+.+|..+.++++|++|++++|.+.+.+|..+.++++|+.|++++|.+. .+|..+.++++|+.|++++|
T Consensus       263 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n  342 (968)
T PLN00113        263 QYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSN  342 (968)
T ss_pred             CEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCC
Confidence            66666666655556666666666666666666666666666666666666666666665 55556666666666666666


Q ss_pred             cCCCcCCCCeEec
Q 012324          415 ERFQSLPKPLFLA  427 (466)
Q Consensus       415 ~~~~~~p~~~~~l  427 (466)
                      .+.+.+|..+..+
T Consensus       343 ~l~~~~p~~l~~~  355 (968)
T PLN00113        343 KFSGEIPKNLGKH  355 (968)
T ss_pred             CCcCcCChHHhCC
Confidence            6666666554433

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

Probab=99.57  E-value=3e-17  Score=132.97  Aligned_cols=163  Identities=25%  Similarity=0.333  Sum_probs=135.0

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccChhhhccCCCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPSSIDRLRRLG  336 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~l~~l~~L~  336 (466)
                      .+.++.+++.|.++.| ....+|+.+..+++|+.|++.+|++ .++|..+  ...++.|++.-|++..+|.+++.++.|+
T Consensus        28 gLf~~s~ITrLtLSHN-Kl~~vppnia~l~nlevln~~nnqi-e~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~le  105 (264)
T KOG0617|consen   28 GLFNMSNITRLTLSHN-KLTVVPPNIAELKNLEVLNLSNNQI-EELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALE  105 (264)
T ss_pred             cccchhhhhhhhcccC-ceeecCCcHHHhhhhhhhhcccchh-hhcChhhhhchhhhheecchhhhhcCccccCCCchhh
Confidence            3566788888999888 4556777788999999999998764 4455433  3577888888899999999999999999


Q ss_pred             eeecccccccc-ccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCc
Q 012324          337 YLNLSDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       337 ~L~l~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~  415 (466)
                      .|++++|+... .+|..+.-++.|+.|+++.|. -..+|..++++++|+.|.+..|.+.++|..++.++.|+.|++.+|.
T Consensus       106 vldltynnl~e~~lpgnff~m~tlralyl~dnd-fe~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnr  184 (264)
T KOG0617|consen  106 VLDLTYNNLNENSLPGNFFYMTTLRALYLGDND-FEILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNR  184 (264)
T ss_pred             hhhccccccccccCCcchhHHHHHHHHHhcCCC-cccCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccce
Confidence            99999987654 578778888999999998855 4578889999999999999999999999999999999999999887


Q ss_pred             CCCcCCCCeE
Q 012324          416 RFQSLPKPLF  425 (466)
Q Consensus       416 ~~~~~p~~~~  425 (466)
                       +.-+|.++.
T Consensus       185 -l~vlppel~  193 (264)
T KOG0617|consen  185 -LTVLPPELA  193 (264)
T ss_pred             -eeecChhhh
Confidence             555666544

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

Probab=99.55  E-value=3.6e-16  Score=150.28  Aligned_cols=86  Identities=30%  Similarity=0.395  Sum_probs=71.0

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcc---cEEeecCccCcccChhhhccC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNV---CWLFLRGTAIEELPSSIDRLR  333 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l---~~L~l~~~~i~~lp~~l~~l~  333 (466)
                      |..+..+..|..|||+.| ...++|..+.+-+++-+|++++|+ +.++|...+-+|   -+|++++|++..+|+.+..+.
T Consensus        96 P~diF~l~dLt~lDLShN-qL~EvP~~LE~AKn~iVLNLS~N~-IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~  173 (1255)
T KOG0444|consen   96 PTDIFRLKDLTILDLSHN-QLREVPTNLEYAKNSIVLNLSYNN-IETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLS  173 (1255)
T ss_pred             Cchhcccccceeeecchh-hhhhcchhhhhhcCcEEEEcccCc-cccCCchHHHhhHhHhhhccccchhhhcCHHHHHHh
Confidence            445788999999999998 567788888888999999999876 667887766554   678889999999999888888


Q ss_pred             CCCeeeccccc
Q 012324          334 RLGYLNLSDCK  344 (466)
Q Consensus       334 ~L~~L~l~~~~  344 (466)
                      +||+|.+++|.
T Consensus       174 ~LqtL~Ls~NP  184 (1255)
T KOG0444|consen  174 MLQTLKLSNNP  184 (1255)
T ss_pred             hhhhhhcCCCh
Confidence            88888888776

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

Probab=99.51  E-value=1.3e-15  Score=146.52  Aligned_cols=169  Identities=26%  Similarity=0.308  Sum_probs=145.3

Q ss_pred             CCCCCCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC-CCCCcccEEeecCccCcccChhhhc
Q 012324          253 KTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPSSIDR  331 (466)
Q Consensus       253 ~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~l~~~~i~~lp~~l~~  331 (466)
                      ....|.++..+.+|+.+|++.| ....+|..+.++++|+.|++++|.+...... ..-.++++|+++.|+++.+|..+++
T Consensus       211 l~N~Ptsld~l~NL~dvDlS~N-~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcK  289 (1255)
T KOG0444|consen  211 LDNIPTSLDDLHNLRDVDLSEN-NLPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCK  289 (1255)
T ss_pred             hhcCCCchhhhhhhhhcccccc-CCCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHHhh
Confidence            3344567888999999999888 5667888899999999999999886543221 2225789999999999999999999


Q ss_pred             cCCCCeeecccccccc-ccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEee
Q 012324          332 LRRLGYLNLSDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLL  410 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~  410 (466)
                      +++|+.|.+.+|++.. -+|.+++++.+|..+...+ +...-+|++++.|.+|+.|.|++|.+..+|+.+.-|+.|+.|+
T Consensus       290 L~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aan-N~LElVPEglcRC~kL~kL~L~~NrLiTLPeaIHlL~~l~vLD  368 (1255)
T KOG0444|consen  290 LTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAAN-NKLELVPEGLCRCVKLQKLKLDHNRLITLPEAIHLLPDLKVLD  368 (1255)
T ss_pred             hHHHHHHHhccCcccccCCccchhhhhhhHHHHhhc-cccccCchhhhhhHHHHHhcccccceeechhhhhhcCCcceee
Confidence            9999999999887654 4799999999999999987 5677899999999999999999999999999999999999999


Q ss_pred             cccCcCCCcCCCC
Q 012324          411 LSYSERFQSLPKP  423 (466)
Q Consensus       411 l~~~~~~~~~p~~  423 (466)
                      ++.|+.+--.|+.
T Consensus       369 lreNpnLVMPPKP  381 (1255)
T KOG0444|consen  369 LRENPNLVMPPKP  381 (1255)
T ss_pred             ccCCcCccCCCCc
Confidence            9999988777763

>PLN03210 Resistant to P

Probab=99.46  E-value=1.3e-12  Score=144.14  Aligned_cols=175  Identities=35%  Similarity=0.520  Sum_probs=121.3

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC-CCcccEEeecCc-cCcccChhhhccCCCCeee
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNVCWLFLRGT-AIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~~~l~~L~l~~~-~i~~lp~~l~~l~~L~~L~  339 (466)
                      ...+|+.|++.++. ...+|..+..+++|++|++++|.....+|... ..+|+.|++++| .+..+|..++.+++|+.|+
T Consensus       609 ~~~~L~~L~L~~s~-l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~  687 (1153)
T PLN03210        609 RPENLVKLQMQGSK-LEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLD  687 (1153)
T ss_pred             CccCCcEEECcCcc-ccccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhhhccCCCCEEe
Confidence            45778888887774 45677777788888888888887777777533 357788888874 5567888888888888888


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccC-----------------------------------------
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG-----------------------------------------  378 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~-----------------------------------------  378 (466)
                      +++|...+.+|..+ ++++|+.|++++|.....+|....                                         
T Consensus       688 L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~  766 (1153)
T PLN03210        688 MSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERV  766 (1153)
T ss_pred             CCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccccCCcCeeecCCCccccccccccccccccccccccchhhccccc
Confidence            88887777887755 677788888777765444432110                                         


Q ss_pred             ---------CCCCCcEEEccCCCcc-ccchhhhccCCCcEeecccCcCCCcCCCC-------eEeccCCCCcccccc
Q 012324          379 ---------QLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSYSERFQSLPKP-------LFLARGCLALEPFLG  438 (466)
Q Consensus       379 ---------~l~~L~~L~l~~~~l~-~lp~~l~~l~~L~~L~l~~~~~~~~~p~~-------~~~l~~~~~L~~l~~  438 (466)
                               ..++|+.|++++|... .+|..++++++|+.|++++|..++.+|..       ...+.+|..|+.++.
T Consensus       767 ~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~  843 (1153)
T PLN03210        767 QPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPD  843 (1153)
T ss_pred             cccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCccccccc
Confidence                     0134566666665433 67878888888888888888777777764       344555655554443

syringae 6; Provisional

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

Probab=99.42  E-value=1.1e-14  Score=139.08  Aligned_cols=184  Identities=20%  Similarity=0.084  Sum_probs=111.4

Q ss_pred             CCCCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC--CCCCcccEEeecCccCcccCh-hhhc
Q 012324          255 PNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE--ISSGNVCWLFLRGTAIEELPS-SIDR  331 (466)
Q Consensus       255 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~l~~L~l~~~~i~~lp~-~l~~  331 (466)
                      .++..|.++++|+.|+|..|.+--.-.-.|..+++|+.|.+..|.+..---.  ....++++|+++.|++..+.+ ++.+
T Consensus       212 Lp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfg  291 (873)
T KOG4194|consen  212 LPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFG  291 (873)
T ss_pred             cCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccc
Confidence            3344455566666666655532222233455566666666665554332222  223466888888888887755 4678


Q ss_pred             cCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEee
Q 012324          332 LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLL  410 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~  410 (466)
                      +++|+.|++++|.+...-+.++.-.++|+.|+++.|++..--++.|..+..|+.|.|++|++..+.+ .|..+.+|+.|+
T Consensus       292 Lt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~Ld  371 (873)
T KOG4194|consen  292 LTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLD  371 (873)
T ss_pred             cchhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhc
Confidence            8888888888887666667777788888888888877766555666666666666666666664443 455566666666


Q ss_pred             cccCcCCCcCCCCeEeccCCCCcccccc
Q 012324          411 LSYSERFQSLPKPLFLARGCLALEPFLG  438 (466)
Q Consensus       411 l~~~~~~~~~p~~~~~l~~~~~L~~l~~  438 (466)
                      ++.|.+...+.+.-.-..++++|+.+..
T Consensus       372 Lr~N~ls~~IEDaa~~f~gl~~LrkL~l  399 (873)
T KOG4194|consen  372 LRSNELSWCIEDAAVAFNGLPSLRKLRL  399 (873)
T ss_pred             CcCCeEEEEEecchhhhccchhhhheee
Confidence            6666555555443333334444444433

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

Probab=99.40  E-value=6.9e-15  Score=119.39  Aligned_cols=150  Identities=29%  Similarity=0.337  Sum_probs=129.4

Q ss_pred             cccCcccCEEecCCCCCCCccCCC-CCCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEE
Q 012324          284 IFNLEFLTKLDLSGCSKLKRLPEI-SSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVL  362 (466)
Q Consensus       284 l~~l~~L~~L~l~~~~~~~~~~~~-~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L  362 (466)
                      +.++.++..|-+++|++....|.. -..+++.|++++|+++++|.+++.+++|+.|+++.|+ ...+|.+++.++.|+.|
T Consensus        29 Lf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnr-l~~lprgfgs~p~levl  107 (264)
T KOG0617|consen   29 LFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNR-LNILPRGFGSFPALEVL  107 (264)
T ss_pred             ccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhh-hhcCccccCCCchhhhh
Confidence            457888888999999877666653 3368899999999999999999999999999999876 77889999999999999


Q ss_pred             EecCCCCCC-CCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccc
Q 012324          363 NLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEP  435 (466)
Q Consensus       363 ~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~  435 (466)
                      ++++|++.. .+|..|-.++-|+.|.++.|.+.-+|..++++++|+.|.++.|.++ ++|+++..+..+..|..
T Consensus       108 dltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll-~lpkeig~lt~lrelhi  180 (264)
T KOG0617|consen  108 DLTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLL-SLPKEIGDLTRLRELHI  180 (264)
T ss_pred             hccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchh-hCcHHHHHHHHHHHHhc
Confidence            999988754 6788888899999999999999999999999999999999999854 68988876655544443

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

Probab=99.36  E-value=1.5e-13  Score=131.58  Aligned_cols=167  Identities=23%  Similarity=0.159  Sum_probs=133.9

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC--CCCCcccEEeecCccCcccCh-hhhccCCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE--ISSGNVCWLFLRGTAIEELPS-SIDRLRRL  335 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~l~~L~l~~~~i~~lp~-~l~~l~~L  335 (466)
                      .|..|.+++.|+|+.|++...--..+.+++.|+.|+++.|.+...-+.  .+...|+.|+++.|+++.+++ ++..+..|
T Consensus       264 ~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~L  343 (873)
T KOG4194|consen  264 AFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQL  343 (873)
T ss_pred             ceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHh
Confidence            467788999999999977766666788899999999999887765443  556788999999999998876 57889999


Q ss_pred             CeeeccccccccccccccCCCCCCCEEEecCCCCCCCCC---cccCCCCCCcEEEccCCCccccch-hhhccCCCcEeec
Q 012324          336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP---ECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLL  411 (466)
Q Consensus       336 ~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p---~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l  411 (466)
                      ++|+++.|.+...-...+..+.+|++|+++.|.+.+.+.   ..|..|++|+.|.+.+|++..+|. .|.++.+|++|++
T Consensus       344 e~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~LE~LdL  423 (873)
T KOG4194|consen  344 EELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEALEHLDL  423 (873)
T ss_pred             hhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCceeeecchhhhccCcccceecC
Confidence            999999987554444567788999999999988766543   357779999999999999998886 7889999999999


Q ss_pred             ccCcCCCcCCCCeE
Q 012324          412 SYSERFQSLPKPLF  425 (466)
Q Consensus       412 ~~~~~~~~~p~~~~  425 (466)
                      .+|.+-.-=|..+-
T Consensus       424 ~~NaiaSIq~nAFe  437 (873)
T KOG4194|consen  424 GDNAIASIQPNAFE  437 (873)
T ss_pred             CCCcceeecccccc
Confidence            98885544444443

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

Probab=99.30  E-value=2.3e-14  Score=131.20  Aligned_cols=166  Identities=28%  Similarity=0.347  Sum_probs=129.3

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC-CcccEEeecCccCcccChhhhccCCC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTAIEELPSSIDRLRRL  335 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-~~l~~L~l~~~~i~~lp~~l~~l~~L  335 (466)
                      +.+++.+..+..++..+| -+..+|..+.++.+|..+++.+|+.....|..+. +.++.|+...|-++.+|+.++.+.+|
T Consensus       130 ~~~i~~~~~l~dl~~~~N-~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L  208 (565)
T KOG0472|consen  130 PDSIGRLLDLEDLDATNN-QISSLPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESL  208 (565)
T ss_pred             CchHHHHhhhhhhhcccc-ccccCchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhh
Confidence            445777788888888777 4556677777888888888888876655555443 56688888888888999999999899


Q ss_pred             CeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccC-CCCCCcEEEccCCCccccchhhhccCCCcEeecccC
Q 012324          336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG-QLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       336 ~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~-~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~  414 (466)
                      ..|++..|+ +..+| +|..+..|++|+++. +....+|.+.+ +++.+..||++.|+++++|.++.-+.+|.+||+++|
T Consensus       209 ~~LyL~~Nk-i~~lP-ef~gcs~L~Elh~g~-N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN  285 (565)
T KOG0472|consen  209 ELLYLRRNK-IRFLP-EFPGCSLLKELHVGE-NQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNN  285 (565)
T ss_pred             HHHHhhhcc-cccCC-CCCccHHHHHHHhcc-cHHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCC
Confidence            888888876 66777 588888888888866 55666776655 788888999999998899988888888999999877


Q ss_pred             cCCCcCCCCeEec
Q 012324          415 ERFQSLPKPLFLA  427 (466)
Q Consensus       415 ~~~~~~p~~~~~l  427 (466)
                      . +..+|.+++++
T Consensus       286 ~-is~Lp~sLgnl  297 (565)
T KOG0472|consen  286 D-ISSLPYSLGNL  297 (565)
T ss_pred             c-cccCCcccccc
Confidence            6 55677776655

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

Probab=99.17  E-value=3.2e-13  Score=123.81  Aligned_cols=175  Identities=27%  Similarity=0.316  Sum_probs=147.5

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC-CcccEEeecCccCcccChhhhccCCC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTAIEELPSSIDRLRRL  335 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-~~l~~L~l~~~~i~~lp~~l~~l~~L  335 (466)
                      |+.+..+..++.++.+.| ....+|+.++.+..|..++..+|++....+.... ..+..|++.+|++.++|+..-.++.|
T Consensus       107 p~~i~s~~~l~~l~~s~n-~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L  185 (565)
T KOG0472|consen  107 PEQIGSLISLVKLDCSSN-ELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRL  185 (565)
T ss_pred             cHHHhhhhhhhhhhcccc-ceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccccchhhCCHHHHHHHHH
Confidence            445778889999999988 5667788899999999999998886655444433 46689999999999999988779999


Q ss_pred             CeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhh-ccCCCcEeecccC
Q 012324          336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESII-QLFVLRYLLLSYS  414 (466)
Q Consensus       336 ~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~-~l~~L~~L~l~~~  414 (466)
                      ++|+...| ..+.+|+.++.+.+|..|++..| ....+| +|..++.|..|+++.|.+..+|.... ++++|..||++.|
T Consensus       186 ~~ld~~~N-~L~tlP~~lg~l~~L~~LyL~~N-ki~~lP-ef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdN  262 (565)
T KOG0472|consen  186 KHLDCNSN-LLETLPPELGGLESLELLYLRRN-KIRFLP-EFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDN  262 (565)
T ss_pred             Hhcccchh-hhhcCChhhcchhhhHHHHhhhc-ccccCC-CCCccHHHHHHHhcccHHHhhHHHHhcccccceeeecccc
Confidence            99999885 48999999999999999999885 456778 89999999999999999999998776 8999999999998


Q ss_pred             cCCCcCCCCeEeccCCCCcccc
Q 012324          415 ERFQSLPKPLFLARGCLALEPF  436 (466)
Q Consensus       415 ~~~~~~p~~~~~l~~~~~L~~l  436 (466)
                      + +.++|+++..++++..|+.-
T Consensus       263 k-lke~Pde~clLrsL~rLDlS  283 (565)
T KOG0472|consen  263 K-LKEVPDEICLLRSLERLDLS  283 (565)
T ss_pred             c-cccCchHHHHhhhhhhhccc
Confidence            8 78899998877766666543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.13  E-value=1.6e-10  Score=119.89  Aligned_cols=165  Identities=21%  Similarity=0.206  Sum_probs=95.5

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      ++|+.|++++|.+. .+|..+.  .+|++|++++|.+. .+|..+...++.|++++|++..+|..+.  .+|++|++++|
T Consensus       199 ~~L~~L~Ls~N~Lt-sLP~~l~--~nL~~L~Ls~N~Lt-sLP~~l~~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~Ls~N  272 (754)
T PRK15370        199 EQITTLILDNNELK-SLPENLQ--GNIKTLYANSNQLT-SIPATLPDTIQEMELSINRITELPERLP--SALQSLDLFHN  272 (754)
T ss_pred             cCCcEEEecCCCCC-cCChhhc--cCCCEEECCCCccc-cCChhhhccccEEECcCCccCcCChhHh--CCCCEEECcCC
Confidence            46777777776433 4555442  46777777776643 4565555566777777777776666553  36677777665


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccC-------------------CCCCCcEEEccCCCccccchhhhccC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG-------------------QLSSPIILNLAKTNIERIPESIIQLF  404 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~-------------------~l~~L~~L~l~~~~l~~lp~~l~~l~  404 (466)
                      .+ ..+|..+.  .+|+.|++++|.+.. +|..+.                   -.++|+.|++++|.++.+|..+.  +
T Consensus       273 ~L-~~LP~~l~--~sL~~L~Ls~N~Lt~-LP~~lp~sL~~L~Ls~N~Lt~LP~~l~~sL~~L~Ls~N~Lt~LP~~l~--~  346 (754)
T PRK15370        273 KI-SCLPENLP--EELRYLSVYDNSIRT-LPAHLPSGITHLNVQSNSLTALPETLPPGLKTLEAGENALTSLPASLP--P  346 (754)
T ss_pred             cc-CccccccC--CCCcEEECCCCcccc-CcccchhhHHHHHhcCCccccCCccccccceeccccCCccccCChhhc--C
Confidence            53 34555443  366666666655442 332211                   12467777777777777766543  5


Q ss_pred             CCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCCC
Q 012324          405 VLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRI  446 (466)
Q Consensus       405 ~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~~  446 (466)
                      +|+.|++++|++. .+|..+.     +.|+.+....+.+..+
T Consensus       347 sL~~L~Ls~N~L~-~LP~~lp-----~~L~~LdLs~N~Lt~L  382 (754)
T PRK15370        347 ELQVLDVSKNQIT-VLPETLP-----PTITTLDVSRNALTNL  382 (754)
T ss_pred             cccEEECCCCCCC-cCChhhc-----CCcCEEECCCCcCCCC
Confidence            7888888877643 4665331     2444444444444433

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

Probab=99.11  E-value=1.3e-12  Score=125.04  Aligned_cols=158  Identities=32%  Similarity=0.379  Sum_probs=131.2

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC-CcccEEeecCccCcccChhhhccCCCCee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      +..+..|..+.++.| .+..+|..++++..|.+|+++.|++. .+|..++ --|++|-+++|+++.+|..++.+..|..|
T Consensus        94 ~~~f~~Le~liLy~n-~~r~ip~~i~~L~~lt~l~ls~NqlS-~lp~~lC~lpLkvli~sNNkl~~lp~~ig~~~tl~~l  171 (722)
T KOG0532|consen   94 ACAFVSLESLILYHN-CIRTIPEAICNLEALTFLDLSSNQLS-HLPDGLCDLPLKVLIVSNNKLTSLPEEIGLLPTLAHL  171 (722)
T ss_pred             HHHHHHHHHHHHHhc-cceecchhhhhhhHHHHhhhccchhh-cCChhhhcCcceeEEEecCccccCCcccccchhHHHh
Confidence            444566777777776 56778888999999999999998754 4554444 56799999999999999999999999999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      +.+.|. +..+|..++.+.+|+.|++..|. ...+|++++.|+ |..||+++|++..+|-.|.+|+.|++|.|.+|+ ++
T Consensus       172 d~s~ne-i~slpsql~~l~slr~l~vrRn~-l~~lp~El~~Lp-Li~lDfScNkis~iPv~fr~m~~Lq~l~LenNP-Lq  247 (722)
T KOG0532|consen  172 DVSKNE-IQSLPSQLGYLTSLRDLNVRRNH-LEDLPEELCSLP-LIRLDFSCNKISYLPVDFRKMRHLQVLQLENNP-LQ  247 (722)
T ss_pred             hhhhhh-hhhchHHhhhHHHHHHHHHhhhh-hhhCCHHHhCCc-eeeeecccCceeecchhhhhhhhheeeeeccCC-CC
Confidence            999877 67788889999999999998855 457788888554 999999999999999999999999999999988 56


Q ss_pred             cCCCC
Q 012324          419 SLPKP  423 (466)
Q Consensus       419 ~~p~~  423 (466)
                      +.|..
T Consensus       248 SPPAq  252 (722)
T KOG0532|consen  248 SPPAQ  252 (722)
T ss_pred             CChHH
Confidence            66664

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.11  E-value=1.3e-10  Score=120.56  Aligned_cols=116  Identities=25%  Similarity=0.306  Sum_probs=49.3

Q ss_pred             ccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCC
Q 012324          289 FLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       289 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~  368 (466)
                      +|+.|++++|.+. .+|..+..+|+.|++++|+++.+|..+.  ++|+.|++++|.+. .+|..+  .++|+.|++++|.
T Consensus       263 ~L~~L~Ls~N~L~-~LP~~l~~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~N~Lt-~LP~~l--~~sL~~L~Ls~N~  336 (754)
T PRK15370        263 ALQSLDLFHNKIS-CLPENLPEELRYLSVYDNSIRTLPAHLP--SGITHLNVQSNSLT-ALPETL--PPGLKTLEAGENA  336 (754)
T ss_pred             CCCEEECcCCccC-ccccccCCCCcEEECCCCccccCcccch--hhHHHHHhcCCccc-cCCccc--cccceeccccCCc
Confidence            4445555444333 3344333444555555555544443321  23444444443322 233222  1344555554443


Q ss_pred             CCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCc
Q 012324          369 NLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       369 ~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~  415 (466)
                      +.. +|..+.  ++|+.|++++|+++.+|..+  .++|+.|++++|.
T Consensus       337 Lt~-LP~~l~--~sL~~L~Ls~N~L~~LP~~l--p~~L~~LdLs~N~  378 (754)
T PRK15370        337 LTS-LPASLP--PELQVLDVSKNQITVLPETL--PPTITTLDVSRNA  378 (754)
T ss_pred             ccc-CChhhc--CcccEEECCCCCCCcCChhh--cCCcCEEECCCCc
Confidence            332 343332  34555555555555444433  1345555555544

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.05  E-value=3.4e-10  Score=116.98  Aligned_cols=122  Identities=24%  Similarity=0.237  Sum_probs=79.7

Q ss_pred             ccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCC
Q 012324          289 FLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       289 ~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~  368 (466)
                      +|++|++++|.+.. +|. ...+++.|++++|.+..+|..   ..+|+.|++++|.+ ..+|..   ..+|+.|++++|.
T Consensus       343 ~Lq~LdLS~N~Ls~-LP~-lp~~L~~L~Ls~N~L~~LP~l---~~~L~~LdLs~N~L-t~LP~l---~s~L~~LdLS~N~  413 (788)
T PRK15387        343 GLQELSVSDNQLAS-LPT-LPSELYKLWAYNNRLTSLPAL---PSGLKELIVSGNRL-TSLPVL---PSELKELMVSGNR  413 (788)
T ss_pred             ccceEecCCCccCC-CCC-CCcccceehhhccccccCccc---ccccceEEecCCcc-cCCCCc---ccCCCEEEccCCc
Confidence            45555555554332 332 123445555555555555532   24577777777664 345542   3567888888876


Q ss_pred             CCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCCC
Q 012324          369 NLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKP  423 (466)
Q Consensus       369 ~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~  423 (466)
                      +. .+|..   ..+|+.|++++|+++.+|..+.++++|+.|++++|++.+..|..
T Consensus       414 Ls-sIP~l---~~~L~~L~Ls~NqLt~LP~sl~~L~~L~~LdLs~N~Ls~~~~~~  464 (788)
T PRK15387        414 LT-SLPML---PSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQA  464 (788)
T ss_pred             CC-CCCcc---hhhhhhhhhccCcccccChHHhhccCCCeEECCCCCCCchHHHH
Confidence            54 46653   34678889999999999999999999999999999887765553

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

Probab=98.95  E-value=1e-10  Score=111.66  Aligned_cols=158  Identities=23%  Similarity=0.145  Sum_probs=96.8

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcc---cCEEecCCCCCCCcc----CC---CCCCcccEEeecCccCc-----c
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEF---LTKLDLSGCSKLKRL----PE---ISSGNVCWLFLRGTAIE-----E  324 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~---L~~L~l~~~~~~~~~----~~---~~~~~l~~L~l~~~~i~-----~  324 (466)
                      +..+++|+.|++++|.+.+..+..+..+..   |++|++++|.+.+..    ..   ....+++.|++++|.++     .
T Consensus        77 l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~  156 (319)
T cd00116          77 LTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEA  156 (319)
T ss_pred             HHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHH
Confidence            445678888888777665544444444444   888888877765311    11   11246677888877776     3


Q ss_pred             cChhhhccCCCCeeecccccccc----ccccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCccc-
Q 012324          325 LPSSIDRLRRLGYLNLSDCKRLK----SLPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNIER-  395 (466)
Q Consensus       325 lp~~l~~l~~L~~L~l~~~~~~~----~~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~~-  395 (466)
                      ++..+..+.+|++|++++|.+.+    .++..+..+++|+.|++++|.+.+.    ++..+..+++|+.|++++|.++. 
T Consensus       157 ~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~  236 (319)
T cd00116         157 LAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDA  236 (319)
T ss_pred             HHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchH
Confidence            34455666778888887776543    2333445566788888877765432    33445667778888888877762 


Q ss_pred             cchhh-hc----cCCCcEeecccCcCC
Q 012324          396 IPESI-IQ----LFVLRYLLLSYSERF  417 (466)
Q Consensus       396 lp~~l-~~----l~~L~~L~l~~~~~~  417 (466)
                      -+..+ ..    .+.|++|++++|.+.
T Consensus       237 ~~~~l~~~~~~~~~~L~~L~l~~n~i~  263 (319)
T cd00116         237 GAAALASALLSPNISLLTLSLSCNDIT  263 (319)
T ss_pred             HHHHHHHHHhccCCCceEEEccCCCCC
Confidence            11222 22    367888888877654

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).

>PLN03150 hypothetical protein; Provisional

Probab=98.91  E-value=3.5e-09  Score=109.33  Aligned_cols=110  Identities=30%  Similarity=0.391  Sum_probs=94.2

Q ss_pred             ccEEeecCccCc-ccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccC
Q 012324          312 VCWLFLRGTAIE-ELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAK  390 (466)
Q Consensus       312 l~~L~l~~~~i~-~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~  390 (466)
                      ++.|+|++|.+. .+|..++.+++|+.|++++|.+.+.+|..++.+++|+.|++++|.+.+.+|..++++++|+.|++++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~  499 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNG  499 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcC
Confidence            577888888887 7788899999999999999988889998899999999999999999999999999999999999999


Q ss_pred             CCcc-ccchhhhcc-CCCcEeecccCcCCCcCC
Q 012324          391 TNIE-RIPESIIQL-FVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       391 ~~l~-~lp~~l~~l-~~L~~L~l~~~~~~~~~p  421 (466)
                      |+++ .+|..++.+ .++..+++.+|..+...|
T Consensus       500 N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        500 NSLSGRVPAALGGRLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             CcccccCChHHhhccccCceEEecCCccccCCC
Confidence            9988 888887763 567788888887665554

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

Probab=98.89  E-value=3.9e-11  Score=121.11  Aligned_cols=162  Identities=22%  Similarity=0.176  Sum_probs=90.2

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC-CCcccEEeecCccCcccChhhh------
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNVCWLFLRGTAIEELPSSID------  330 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~~~l~~L~l~~~~i~~lp~~l~------  330 (466)
                      .++..|.+|+.+....|.+ ..+|..+....+|++|++..|.+....|... .+.+++|++..|++..+|+.+.      
T Consensus       258 ~wi~~~~nle~l~~n~N~l-~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~  336 (1081)
T KOG0618|consen  258 EWIGACANLEALNANHNRL-VALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNAS  336 (1081)
T ss_pred             HHHHhcccceEecccchhH-HhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHH
Confidence            4566677777777766643 4444444455555555555544333333222 3455666666665555544221      


Q ss_pred             --------------------ccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccC
Q 012324          331 --------------------RLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAK  390 (466)
Q Consensus       331 --------------------~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~  390 (466)
                                          .+..|+.|.+.+|.+....-+.+.++++|+.|++++|++...-...+.++..|+.|++++
T Consensus       337 l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSG  416 (1081)
T KOG0618|consen  337 LNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSG  416 (1081)
T ss_pred             HHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhccc
Confidence                                123455555555555544444466677777777777544332223566677777777777


Q ss_pred             CCccccchhhhccCCCcEeecccCcCCCcCC
Q 012324          391 TNIERIPESIIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       391 ~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      |+++.+|..+.+++.|++|...+|. +..+|
T Consensus       417 NkL~~Lp~tva~~~~L~tL~ahsN~-l~~fP  446 (1081)
T KOG0618|consen  417 NKLTTLPDTVANLGRLHTLRAHSNQ-LLSFP  446 (1081)
T ss_pred             chhhhhhHHHHhhhhhHHHhhcCCc-eeech
Confidence            7777776666666666666665554 33344

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

Probab=98.89  E-value=5.2e-10  Score=106.78  Aligned_cols=159  Identities=22%  Similarity=0.154  Sum_probs=119.0

Q ss_pred             CCCCCCCcEEEcCCCCCC------cccCcccccCcccCEEecCCCCCCCccCCCCC-----CcccEEeecCccCc-----
Q 012324          260 MPRLNNLVILNLRSGKSL------KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-----GNVCWLFLRGTAIE-----  323 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~------~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~-----~~l~~L~l~~~~i~-----  323 (466)
                      +...+.++.++++++...      ..++..+..+++|++|++++|.+....+..+.     ..++.|++++|++.     
T Consensus        47 l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~  126 (319)
T cd00116          47 LRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLR  126 (319)
T ss_pred             HhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHH
Confidence            445677999999888654      22445577789999999999988754432211     45899999999887     


Q ss_pred             ccChhhhcc-CCCCeeecccccccc----ccccccCCCCCCCEEEecCCCCCC----CCCcccCCCCCCcEEEccCCCcc
Q 012324          324 ELPSSIDRL-RRLGYLNLSDCKRLK----SLPSSLCKLKSLKVLNLCGCSNLQ----RLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       324 ~lp~~l~~l-~~L~~L~l~~~~~~~----~~p~~~~~l~~L~~L~l~~~~~~~----~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      .+...+..+ ++|+.|++++|.+.+    .++..+..+.+|++|++++|.+.+    .++..+..+++|+.|++++|.+.
T Consensus       127 ~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~  206 (319)
T cd00116         127 LLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLT  206 (319)
T ss_pred             HHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccC
Confidence            234456677 899999999998663    234456677899999999988774    23445667789999999999886


Q ss_pred             -----ccchhhhccCCCcEeecccCcCCC
Q 012324          395 -----RIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       395 -----~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                           .++..+..+++|++|++++|.+..
T Consensus       207 ~~~~~~l~~~~~~~~~L~~L~ls~n~l~~  235 (319)
T cd00116         207 DEGASALAETLASLKSLEVLNLGDNNLTD  235 (319)
T ss_pred             hHHHHHHHHHhcccCCCCEEecCCCcCch
Confidence                 244556778999999999997653

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

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

Probab=98.87  E-value=5.3e-11  Score=114.12  Aligned_cols=167  Identities=28%  Similarity=0.352  Sum_probs=141.8

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCC--CCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      ..+..-...|++.| ....+|...+.|.+|..+.++.|.+ ..+|..  ....+++||++.|+++.+|..++.++ |+.|
T Consensus        72 ~~ltdt~~aDlsrN-R~~elp~~~~~f~~Le~liLy~n~~-r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvl  148 (722)
T KOG0532|consen   72 YDLTDTVFADLSRN-RFSELPEEACAFVSLESLILYHNCI-RTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKVL  148 (722)
T ss_pred             ccccchhhhhcccc-ccccCchHHHHHHHHHHHHHHhccc-eecchhhhhhhHHHHhhhccchhhcCChhhhcCc-ceeE
Confidence            56777788899888 6677888888999999999998764 445543  33577999999999999999999987 9999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      -+++|+ .+.+|+.++....|..|+.+.|+ ...+|..++.+.+|+.|.++.|++..+|+.+..|+ |..||+++|+ +.
T Consensus       149 i~sNNk-l~~lp~~ig~~~tl~~ld~s~ne-i~slpsql~~l~slr~l~vrRn~l~~lp~El~~Lp-Li~lDfScNk-is  224 (722)
T KOG0532|consen  149 IVSNNK-LTSLPEEIGLLPTLAHLDVSKNE-IQSLPSQLGYLTSLRDLNVRRNHLEDLPEELCSLP-LIRLDFSCNK-IS  224 (722)
T ss_pred             EEecCc-cccCCcccccchhHHHhhhhhhh-hhhchHHhhhHHHHHHHHHhhhhhhhCCHHHhCCc-eeeeecccCc-ee
Confidence            998765 88999999999999999998865 45778899999999999999999999999999776 9999999666 77


Q ss_pred             cCCCCeEeccCCCCcc
Q 012324          419 SLPKPLFLARGCLALE  434 (466)
Q Consensus       419 ~~p~~~~~l~~~~~L~  434 (466)
                      .+|-.+.+|+++..|.
T Consensus       225 ~iPv~fr~m~~Lq~l~  240 (722)
T KOG0532|consen  225 YLPVDFRKMRHLQVLQ  240 (722)
T ss_pred             ecchhhhhhhhheeee
Confidence            8999988888776665

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.86  E-value=8.5e-09  Score=106.79  Aligned_cols=61  Identities=23%  Similarity=0.171  Sum_probs=35.9

Q ss_pred             CCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCCCeEe
Q 012324          358 SLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFL  426 (466)
Q Consensus       358 ~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~  426 (466)
                      +|+.|++++|.+. .+|..   .++|+.|++++|.++.+|...   .+|+.|++++|.+ ..+|..+..
T Consensus       383 ~L~~LdLs~N~Lt-~LP~l---~s~L~~LdLS~N~LssIP~l~---~~L~~L~Ls~NqL-t~LP~sl~~  443 (788)
T PRK15387        383 GLKELIVSGNRLT-SLPVL---PSELKELMVSGNRLTSLPMLP---SGLLSLSVYRNQL-TRLPESLIH  443 (788)
T ss_pred             ccceEEecCCccc-CCCCc---ccCCCEEEccCCcCCCCCcch---hhhhhhhhccCcc-cccChHHhh
Confidence            4666666665544 34432   245677777777777666532   3566677777664 457765543

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

Probab=98.85  E-value=7.3e-10  Score=93.99  Aligned_cols=119  Identities=28%  Similarity=0.321  Sum_probs=35.7

Q ss_pred             EeecCccCcccChhhh-ccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCccc-CCCCCCcEEEccCCC
Q 012324          315 LFLRGTAIEELPSSID-RLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL-GQLSSPIILNLAKTN  392 (466)
Q Consensus       315 L~l~~~~i~~lp~~l~-~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l-~~l~~L~~L~l~~~~  392 (466)
                      |++++|.|+.+. .++ .+.+|+.|++++|.+ ..++ ++..++.|++|++++|.+.. +++.+ ..+++|+.|++++|+
T Consensus        24 L~L~~n~I~~Ie-~L~~~l~~L~~L~Ls~N~I-~~l~-~l~~L~~L~~L~L~~N~I~~-i~~~l~~~lp~L~~L~L~~N~   99 (175)
T PF14580_consen   24 LNLRGNQISTIE-NLGATLDKLEVLDLSNNQI-TKLE-GLPGLPRLKTLDLSNNRISS-ISEGLDKNLPNLQELYLSNNK   99 (175)
T ss_dssp             -------------S--TT-TT--EEE-TTS---S--T-T----TT--EEE--SS---S--CHHHHHH-TT--EEE-TTS-
T ss_pred             cccccccccccc-chhhhhcCCCEEECCCCCC-cccc-CccChhhhhhcccCCCCCCc-cccchHHhCCcCCEEECcCCc
Confidence            333334444442 233 455666666666553 3332 35566666666666654443 33233 246666666666666


Q ss_pred             ccccc--hhhhccCCCcEeecccCcCCCcCCC-CeEeccCCCCcccccc
Q 012324          393 IERIP--ESIIQLFVLRYLLLSYSERFQSLPK-PLFLARGCLALEPFLG  438 (466)
Q Consensus       393 l~~lp--~~l~~l~~L~~L~l~~~~~~~~~p~-~~~~l~~~~~L~~l~~  438 (466)
                      +..+-  ..+..+++|+.|++.+|++... +. ...-+..||+|+.+.+
T Consensus       100 I~~l~~l~~L~~l~~L~~L~L~~NPv~~~-~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen  100 ISDLNELEPLSSLPKLRVLSLEGNPVCEK-KNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             --SCCCCGGGGG-TT--EEE-TT-GGGGS-TTHHHHHHHH-TT-SEETT
T ss_pred             CCChHHhHHHHcCCCcceeeccCCcccch-hhHHHHHHHHcChhheeCC
Confidence            65332  3455666677777766665443 32 2233344444444433

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

Probab=98.84  E-value=2.1e-10  Score=105.42  Aligned_cols=172  Identities=21%  Similarity=0.182  Sum_probs=111.9

Q ss_pred             CCCCCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcc---cEE---------------
Q 012324          254 TPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNV---CWL---------------  315 (466)
Q Consensus       254 ~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l---~~L---------------  315 (466)
                      ..++..|+.+++|++|||+.|.+...-|+.|..+++|..|-+.+++.+..+|...+..|   +.|               
T Consensus        81 ~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~Cir~~al  160 (498)
T KOG4237|consen   81 SIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNANHINCIRQDAL  160 (498)
T ss_pred             cCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhcchhHHHH
Confidence            34455789999999999999988888899999999999988888666777775444322   333               


Q ss_pred             ---------eecCccCcccCh-hhhccCCCCeeecccccc----------------------------------------
Q 012324          316 ---------FLRGTAIEELPS-SIDRLRRLGYLNLSDCKR----------------------------------------  345 (466)
Q Consensus       316 ---------~l~~~~i~~lp~-~l~~l~~L~~L~l~~~~~----------------------------------------  345 (466)
                               .+..|.+..++. .+..+..++.+.+..|..                                        
T Consensus       161 ~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~  240 (498)
T KOG4237|consen  161 RDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPYRLYYKRINQED  240 (498)
T ss_pred             HHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceecchHHHHHHHhcccc
Confidence                     333444444443 344444455444433320                                        


Q ss_pred             ---------------------ccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhc
Q 012324          346 ---------------------LKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQ  402 (466)
Q Consensus       346 ---------------------~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~  402 (466)
                                           ....| ..+..+++|++|++++|.+.+.-+.+|..+..++.|.|..|++..+.. .|.+
T Consensus       241 a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f~~  320 (498)
T KOG4237|consen  241 ARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSSGMFQG  320 (498)
T ss_pred             hhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHHHhhhc
Confidence                                 00011 024556777777777776666666677777777777777777765433 5677


Q ss_pred             cCCCcEeecccCcCCCcCCCCeE
Q 012324          403 LFVLRYLLLSYSERFQSLPKPLF  425 (466)
Q Consensus       403 l~~L~~L~l~~~~~~~~~p~~~~  425 (466)
                      +..|+.|++.+|++..-.|..+.
T Consensus       321 ls~L~tL~L~~N~it~~~~~aF~  343 (498)
T KOG4237|consen  321 LSGLKTLSLYDNQITTVAPGAFQ  343 (498)
T ss_pred             cccceeeeecCCeeEEEeccccc
Confidence            88888888888887776666544

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

Probab=98.84  E-value=4.1e-11  Score=120.93  Aligned_cols=171  Identities=22%  Similarity=0.225  Sum_probs=126.9

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChhhhccCCCCeeecc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSSIDRLRRLGYLNLS  341 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~  341 (466)
                      .+|++++++.+. ...+|+.++.+.+|..+++.+|.+ ..+|..+.  ..++.|.+..|.++.+|+...++++|++|++.
T Consensus       241 ~nl~~~dis~n~-l~~lp~wi~~~~nle~l~~n~N~l-~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~  318 (1081)
T KOG0618|consen  241 LNLQYLDISHNN-LSNLPEWIGACANLEALNANHNRL-VALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQ  318 (1081)
T ss_pred             ccceeeecchhh-hhcchHHHHhcccceEecccchhH-HhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeeh
Confidence            588888988884 455678888899999999988876 55665444  36788888889999999888889999999998


Q ss_pred             cccccccccccc--------------------------CCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccc
Q 012324          342 DCKRLKSLPSSL--------------------------CKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIER  395 (466)
Q Consensus       342 ~~~~~~~~p~~~--------------------------~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~  395 (466)
                      .|. +..+|+.+                          ..+..|+.|++.+|.+....-..+.++.+|+.|+|+.|.+.+
T Consensus       319 ~N~-L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~  397 (1081)
T KOG0618|consen  319 SNN-LPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNS  397 (1081)
T ss_pred             hcc-ccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeeccccccc
Confidence            876 44444321                          112346666677777766655678889999999999999999


Q ss_pred             cch-hhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCcc
Q 012324          396 IPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIE  441 (466)
Q Consensus       396 lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~  441 (466)
                      +|. .+.++..|+.|.+++|+ +..+|..+.   +|..|+++....+
T Consensus       398 fpas~~~kle~LeeL~LSGNk-L~~Lp~tva---~~~~L~tL~ahsN  440 (1081)
T KOG0618|consen  398 FPASKLRKLEELEELNLSGNK-LTTLPDTVA---NLGRLHTLRAHSN  440 (1081)
T ss_pred             CCHHHHhchHHhHHHhcccch-hhhhhHHHH---hhhhhHHHhhcCC
Confidence            998 56789999999999988 566886543   4445554444333

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

Probab=98.82  E-value=3.6e-09  Score=89.77  Aligned_cols=124  Identities=24%  Similarity=0.216  Sum_probs=46.4

Q ss_pred             cCcccCEEecCCCCCCCccCCC--CCCcccEEeecCccCcccChhhhccCCCCeeecccccccccccccc-CCCCCCCEE
Q 012324          286 NLEFLTKLDLSGCSKLKRLPEI--SSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVL  362 (466)
Q Consensus       286 ~l~~L~~L~l~~~~~~~~~~~~--~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~-~~l~~L~~L  362 (466)
                      +..++++|++++|.+.. +...  ....++.|++++|.++.++ .+..+++|++|++++|.+. .+++++ ..+++|++|
T Consensus        17 n~~~~~~L~L~~n~I~~-Ie~L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~I~-~i~~~l~~~lp~L~~L   93 (175)
T PF14580_consen   17 NPVKLRELNLRGNQIST-IENLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRIS-SISEGLDKNLPNLQEL   93 (175)
T ss_dssp             --------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--SS----S-CHHHHHH-TT--EE
T ss_pred             ccccccccccccccccc-ccchhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCC-ccccchHHhCCcCCEE
Confidence            33445555555544332 1111  1234555555567777664 4677888888888887743 444334 357888888


Q ss_pred             EecCCCCCC-CCCcccCCCCCCcEEEccCCCccccch----hhhccCCCcEeecc
Q 012324          363 NLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERIPE----SIIQLFVLRYLLLS  412 (466)
Q Consensus       363 ~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~lp~----~l~~l~~L~~L~l~  412 (466)
                      ++++|.+.. .--..+..+++|+.|++.+|.+..-+.    .+..+|+|+.||-.
T Consensus        94 ~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   94 YLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             E-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             ECcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            888876533 112456778899999999988885444    46789999999854

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

Probab=98.74  E-value=2.1e-09  Score=100.30  Aligned_cols=157  Identities=20%  Similarity=0.155  Sum_probs=114.8

Q ss_pred             CCCCCCCCcEEEcCCCCCCc--ccCcccccCcccCEEecCCCCCCCccCC---CCCCcccEEeecCccCc--ccChhhhc
Q 012324          259 LMPRLNNLVILNLRSGKSLK--SLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIE--ELPSSIDR  331 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~~l~~L~l~~~~i~--~lp~~l~~  331 (466)
                      -...|++++.|||+.|-+..  .+......+++|+.|+++.|.+.-....   .....++.|.+++|.++  .+......
T Consensus       141 ~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~  220 (505)
T KOG3207|consen  141 YSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLT  220 (505)
T ss_pred             hhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHh
Confidence            45678999999999985442  2334455789999999999986643332   34457799999999888  45556678


Q ss_pred             cCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCC--cccCCCCCCcEEEccCCCcc--ccchh-----hhc
Q 012324          332 LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP--ECLGQLSSPIILNLAKTNIE--RIPES-----IIQ  402 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p--~~l~~l~~L~~L~l~~~~l~--~lp~~-----l~~  402 (466)
                      +++|..|.+..|.....-......++.|++|++++|++.. .+  ...+.++.|..|+++.+.+.  ..|+.     ...
T Consensus       221 fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~-~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~  299 (505)
T KOG3207|consen  221 FPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLID-FDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHT  299 (505)
T ss_pred             CCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccc-cccccccccccchhhhhccccCcchhcCCCccchhhhcc
Confidence            8999999999885333333334567889999999877653 23  35778889999999988888  44553     356


Q ss_pred             cCCCcEeecccCcC
Q 012324          403 LFVLRYLLLSYSER  416 (466)
Q Consensus       403 l~~L~~L~l~~~~~  416 (466)
                      +++|++|.+..|++
T Consensus       300 f~kL~~L~i~~N~I  313 (505)
T KOG3207|consen  300 FPKLEYLNISENNI  313 (505)
T ss_pred             cccceeeecccCcc
Confidence            78999999998874

>PLN03150 hypothetical protein; Provisional

Probab=98.72  E-value=2.4e-08  Score=103.16  Aligned_cols=106  Identities=31%  Similarity=0.382  Sum_probs=68.8

Q ss_pred             CcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccccc
Q 012324          266 LVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKR  345 (466)
Q Consensus       266 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~  345 (466)
                      ++.|+|++|.+.+.+|..++++++|+.|++++|.+.+                     .+|..++.+++|+.|++++|.+
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g---------------------~iP~~~~~l~~L~~LdLs~N~l  478 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRG---------------------NIPPSLGSITSLEVLDLSYNSF  478 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccC---------------------cCChHHhCCCCCCEEECCCCCC
Confidence            6677777777777777777777777777777765444                     4455566666666666666666


Q ss_pred             ccccccccCCCCCCCEEEecCCCCCCCCCcccCCC-CCCcEEEccCCC
Q 012324          346 LKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQL-SSPIILNLAKTN  392 (466)
Q Consensus       346 ~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l-~~L~~L~l~~~~  392 (466)
                      .+.+|..++++++|+.|++++|.+.+.+|..++.+ .++..+++.+|.
T Consensus       479 sg~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        479 NGSIPESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CCCCchHHhcCCCCCEEECcCCcccccCChHHhhccccCceEEecCCc
Confidence            66666666666666666666666666666655542 345555555554

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

Probab=98.71  E-value=1.1e-08  Score=100.77  Aligned_cols=159  Identities=36%  Similarity=0.401  Sum_probs=124.9

Q ss_pred             CCCC-CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCC-CCCcccEEeecCccCcccChhhhccCCCCe
Q 012324          260 MPRL-NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI-SSGNVCWLFLRGTAIEELPSSIDRLRRLGY  337 (466)
Q Consensus       260 ~~~l-~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~  337 (466)
                      ...+ ++|+.|++++| ....+|..+..+++|+.|+++.|++....+.. ....++.|++++|.+..+|..+.....|++
T Consensus       135 ~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~  213 (394)
T COG4886         135 IGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEE  213 (394)
T ss_pred             cccchhhccccccccc-chhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCccccCchhhhhhhhhhh
Confidence            3344 38999999888 45556556788999999999998866655544 667889999999999999988777788999


Q ss_pred             eeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCC
Q 012324          338 LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       338 L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      +.+.+|. ....+..+.++.++..+.+.+|. ...++..++.+++++.|++++|.++.++. ++.+.+|+.|+++++.+.
T Consensus       214 l~~~~N~-~~~~~~~~~~~~~l~~l~l~~n~-~~~~~~~~~~l~~l~~L~~s~n~i~~i~~-~~~~~~l~~L~~s~n~~~  290 (394)
T COG4886         214 LDLSNNS-IIELLSSLSNLKNLSGLELSNNK-LEDLPESIGNLSNLETLDLSNNQISSISS-LGSLTNLRELDLSGNSLS  290 (394)
T ss_pred             hhhcCCc-ceecchhhhhcccccccccCCce-eeeccchhccccccceecccccccccccc-ccccCccCEEeccCcccc
Confidence            9999875 34455567888888888876644 33447788889999999999999998877 888999999999998776


Q ss_pred             CcCCC
Q 012324          418 QSLPK  422 (466)
Q Consensus       418 ~~~p~  422 (466)
                      ..+|.
T Consensus       291 ~~~~~  295 (394)
T COG4886         291 NALPL  295 (394)
T ss_pred             ccchh
Confidence            55554

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

Probab=98.69  E-value=1.6e-09  Score=96.32  Aligned_cols=107  Identities=25%  Similarity=0.253  Sum_probs=80.2

Q ss_pred             cccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccC
Q 012324          311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAK  390 (466)
Q Consensus       311 ~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~  390 (466)
                      .++.|+++.|++..+.. +..+++|+.||+++|. ...+..+-.++.++++|.+.+|. ...+ ++++++-+|..|++++
T Consensus       308 kir~L~lS~N~i~~v~n-La~L~~L~~LDLS~N~-Ls~~~Gwh~KLGNIKtL~La~N~-iE~L-SGL~KLYSLvnLDl~~  383 (490)
T KOG1259|consen  308 KLRRLILSQNRIRTVQN-LAELPQLQLLDLSGNL-LAECVGWHLKLGNIKTLKLAQNK-IETL-SGLRKLYSLVNLDLSS  383 (490)
T ss_pred             ceeEEeccccceeeehh-hhhcccceEeecccch-hHhhhhhHhhhcCEeeeehhhhh-Hhhh-hhhHhhhhheeccccc
Confidence            34555555577776655 7889999999999976 44444444578899999999854 3333 4788888999999999


Q ss_pred             CCccccc--hhhhccCCCcEeecccCcCCCcCCC
Q 012324          391 TNIERIP--ESIIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       391 ~~l~~lp--~~l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                      |+|..+-  ..++++|.|+++.+.+|++.+ +|+
T Consensus       384 N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~~-~vd  416 (490)
T KOG1259|consen  384 NQIEELDEVNHIGNLPCLETLRLTGNPLAG-SVD  416 (490)
T ss_pred             cchhhHHHhcccccccHHHHHhhcCCCccc-cch
Confidence            9998553  478999999999999998544 444

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

Probab=98.62  E-value=3.2e-08  Score=97.40  Aligned_cols=159  Identities=30%  Similarity=0.348  Sum_probs=124.5

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCc-ccCEEecCCCCCCCc-cCCCCCCcccEEeecCccCcccChhhhccCCCCe
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLE-FLTKLDLSGCSKLKR-LPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGY  337 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~~~~-~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~  337 (466)
                      +..++.++.+++.++ ....++.....++ +|+.|++++|.+... .+.....+++.|+++.|++..+|...+..+.|+.
T Consensus       112 ~~~~~~l~~L~l~~n-~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         112 LLELTNLTSLDLDNN-NITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             hhcccceeEEecCCc-ccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            445578899999777 4555666666664 899999999876554 3556667889999999999999988778899999


Q ss_pred             eeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCC
Q 012324          338 LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       338 L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      |++++|. ...+|..+.....|+++.+++|. ....+..+.++.++..+.+.+|.+..++..++.++++++|++++|. +
T Consensus       191 L~ls~N~-i~~l~~~~~~~~~L~~l~~~~N~-~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~~~~l~~l~~L~~s~n~-i  267 (394)
T COG4886         191 LDLSGNK-ISDLPPEIELLSALEELDLSNNS-IIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNNQ-I  267 (394)
T ss_pred             eeccCCc-cccCchhhhhhhhhhhhhhcCCc-ceecchhhhhcccccccccCCceeeeccchhccccccceecccccc-c
Confidence            9999876 67777766667779999998864 3355667888888888888888888878888999999999999877 4


Q ss_pred             CcCCC
Q 012324          418 QSLPK  422 (466)
Q Consensus       418 ~~~p~  422 (466)
                      .+++.
T Consensus       268 ~~i~~  272 (394)
T COG4886         268 SSISS  272 (394)
T ss_pred             ccccc
Confidence            44444

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

Probab=98.46  E-value=2e-08  Score=93.90  Aligned_cols=190  Identities=19%  Similarity=0.061  Sum_probs=125.7

Q ss_pred             CCCCCCCcEEEcCCCCCCcccC--cccccCcccCEEecCCCCCCCccCC----CCCCcccEEeecCccCcccChh--hhc
Q 012324          260 MPRLNNLVILNLRSGKSLKSLP--SGIFNLEFLTKLDLSGCSKLKRLPE----ISSGNVCWLFLRGTAIEELPSS--IDR  331 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~--~~l~~l~~L~~L~l~~~~~~~~~~~----~~~~~l~~L~l~~~~i~~lp~~--l~~  331 (466)
                      -+++++|+.+.|.++ ..+..+  .....|++++.||+++|-+..--+-    .-.++++.|+++.|.+...-.+  -..
T Consensus       117 Qsn~kkL~~IsLdn~-~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~  195 (505)
T KOG3207|consen  117 QSNLKKLREISLDNY-RVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLL  195 (505)
T ss_pred             hhhHHhhhheeecCc-cccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhh
Confidence            356788999999666 344333  3466899999999999865543331    2345778999999888744332  236


Q ss_pred             cCCCCeeeccccccccc-cccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccc--hhhhccCCCcE
Q 012324          332 LRRLGYLNLSDCKRLKS-LPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIP--ESIIQLFVLRY  408 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~~-~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp--~~l~~l~~L~~  408 (466)
                      +++|+.|.++.|.+... +...+..+++|..|++.+|+....-.....-++.|+.|+|++|++...+  ...+.++.|+.
T Consensus       196 l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~  275 (505)
T KOG3207|consen  196 LSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQ  275 (505)
T ss_pred             hhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhh
Confidence            78899999999886643 2233456889999999987533332233445678999999999998666  45788999999


Q ss_pred             eecccCcCCC-cCCCC--eEeccCCCCccccccCccccCCCCCCC
Q 012324          409 LLLSYSERFQ-SLPKP--LFLARGCLALEPFLGIIEDTQRIPHSD  450 (466)
Q Consensus       409 L~l~~~~~~~-~~p~~--~~~l~~~~~L~~l~~~~~~~~~~~~~~  450 (466)
                      |.++.|.+.. ..|+-  .-....+++|+.+....+.+....+..
T Consensus       276 Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~  320 (505)
T KOG3207|consen  276 LNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLN  320 (505)
T ss_pred             hhccccCcchhcCCCccchhhhcccccceeeecccCccccccccc
Confidence            9999887543 22321  223345566666655444443333333

>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=98.43  E-value=1.8e-07  Score=65.00  Aligned_cols=59  Identities=29%  Similarity=0.405  Sum_probs=41.8

Q ss_pred             CCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCc
Q 012324          357 KSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       357 ~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~  415 (466)
                      ++|++|++++|.+...-+..|..+++|+.|++++|.++.++. .|.++++|++|++++|+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            356777777765554444567777777777777777776654 66777788888877775

...

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.36  E-value=2.3e-07  Score=98.34  Aligned_cols=151  Identities=28%  Similarity=0.330  Sum_probs=111.1

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCC-CCccCCCC---CCcccEEeecCc-cCcccChhhhccCCC
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSK-LKRLPEIS---SGNVCWLFLRGT-AIEELPSSIDRLRRL  335 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~-~~~~~~~~---~~~l~~L~l~~~-~i~~lp~~l~~l~~L  335 (466)
                      .+....+...+.+| ....++... .++.|+.|-+.+|.. ...++..+   .+.|++||+++| .+..+|+.++++-+|
T Consensus       520 ~~~~~~rr~s~~~~-~~~~~~~~~-~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~L  597 (889)
T KOG4658|consen  520 KSWNSVRRMSLMNN-KIEHIAGSS-ENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHL  597 (889)
T ss_pred             cchhheeEEEEecc-chhhccCCC-CCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhh
Confidence            34467778888776 344455443 566899999888863 44444432   357799999975 566999999999999


Q ss_pred             CeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc---ccchhhhccCCCcEeecc
Q 012324          336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE---RIPESIIQLFVLRYLLLS  412 (466)
Q Consensus       336 ~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~---~lp~~l~~l~~L~~L~l~  412 (466)
                      ++|+++++. +..+|.+++++..|.+|++..+.....+|.....|++|++|.+......   .....+.++.+|+.+.+.
T Consensus       598 ryL~L~~t~-I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~~ls~~  676 (889)
T KOG4658|consen  598 RYLDLSDTG-ISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLENLSIT  676 (889)
T ss_pred             hcccccCCC-ccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchhhheee
Confidence            999999865 6699999999999999999987777777777777999999999765533   233445566666666554


Q ss_pred             cC
Q 012324          413 YS  414 (466)
Q Consensus       413 ~~  414 (466)
                      ..
T Consensus       677 ~~  678 (889)
T KOG4658|consen  677 IS  678 (889)
T ss_pred             cc
Confidence            33

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.29  E-value=7.8e-06  Score=89.56  Aligned_cols=198  Identities=15%  Similarity=0.179  Sum_probs=122.5

Q ss_pred             eEEEEEeCCCChH--hHH-HHHhcCCCCCCCcEEEEEeCChhh---HhhcCcceEEEcc----CCChhhHHHHHHHhhcC
Q 012324            2 KVLIVFDDVTCFS--QLE-SIIRSLDWLTPVSRIIITTRNKQV---LRNWGVRKIYEIE----ALENHHALELFSRHAFK   71 (466)
Q Consensus         2 r~LlvlDd~~~~~--~~~-~l~~~~~~~~~gs~IlvTTR~~~v---~~~~~~~~~~~l~----~L~~~~~~~Lf~~~~~~   71 (466)
                      +++|||||+...+  ... .+...++....+-++|+|||..--   ..........+++    +|+.+|+.++|......
T Consensus       122 ~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~  201 (903)
T PRK04841        122 PLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS  201 (903)
T ss_pred             CEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC
Confidence            5899999996532  222 332223333456688899998421   1111122355666    99999999999875422


Q ss_pred             CCCCCchHHHHHHHHHHHhCCCceeehhhhhhcccCCHHHHHHHHHHHHhccchhHHHHHHH-HHhcCchhhhhhhceee
Q 012324           72 RNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKI-SYDSLDNKEKNIFLDVA  150 (466)
Q Consensus        72 ~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~~~~l~~-sy~~L~~~~~~~~~~~~  150 (466)
                      .  .   ..+.+.+|.+.|+|+|+++..++..++..... .......+.......+...+.- .++.||++.+..+...+
T Consensus       202 ~--~---~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a  275 (903)
T PRK04841        202 P--I---EAAESSRLCDDVEGWATALQLIALSARQNNSS-LHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCS  275 (903)
T ss_pred             C--C---CHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-hhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhc
Confidence            1  1   24556789999999999999888766543210 0111112211112335554433 47899999999999999


Q ss_pred             ccCCCccHHHHHHHHHhcCCCccchhhhhhcccceE-Ec--CCCeEEecHHHHHHHHHHHh
Q 012324          151 CFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIA-IG--SYNKIRMHDLLQELGREIVR  208 (466)
Q Consensus       151 ~fp~~~~~~~l~~~~~~~~~~~~~~~~~L~~~sl~~-~~--~~~~~~~hdlv~~~~~~~~~  208 (466)
                      +++ .++........ . .-.....+..|.+.+++. ..  ....|++|++++++......
T Consensus       276 ~~~-~~~~~l~~~l~-~-~~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~  333 (903)
T PRK04841        276 VLR-SMNDALIVRVT-G-EENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQ  333 (903)
T ss_pred             ccc-cCCHHHHHHHc-C-CCcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHH
Confidence            986 55543322222 1 112345588888888854 22  23479999999999987763

>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=98.29  E-value=6.2e-07  Score=62.32  Aligned_cols=58  Identities=28%  Similarity=0.385  Sum_probs=32.7

Q ss_pred             cccEEeecCccCcccCh-hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCC
Q 012324          311 NVCWLFLRGTAIEELPS-SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       311 ~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~  368 (466)
                      ++++|++++|++..+|+ .+..+++|++|++++|.+...-|..+..+++|++|++++|+
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            35566666666666654 34556666666666555443334455566666666665543

...

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

Probab=98.22  E-value=4.3e-07  Score=81.06  Aligned_cols=182  Identities=20%  Similarity=0.166  Sum_probs=115.7

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCC---ccCC------------CCC----------CcccE
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLK---RLPE------------ISS----------GNVCW  314 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~---~~~~------------~~~----------~~l~~  314 (466)
                      ++-+++|+.+.++.|. ...+-+....-+.|+.+.+.......   -+|.            ...          +.++.
T Consensus       210 l~~f~~l~~~~~s~~~-~~~i~~~~~~kptl~t~~v~~s~~~~~~~l~pe~~~~D~~~~E~~t~~G~~~~~~dTWq~Lte  288 (490)
T KOG1259|consen  210 LNAFRNLKTLKFSALS-TENIVDIELLKPTLQTICVHNTTIQDVPSLLPETILADPSGSEPSTSNGSALVSADTWQELTE  288 (490)
T ss_pred             hHHhhhhheeeeeccc-hhheeceeecCchhheeeeecccccccccccchhhhcCccCCCCCccCCceEEecchHhhhhh
Confidence            3445677777777763 33333323334556666655433221   1111            000          13578


Q ss_pred             EeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc
Q 012324          315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       315 L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      +++++|.|+.+.++..-++.++.|++++|.+.. +. .+..+++|+.|++++|.+. .+-.+=.++-|.+.|.+++|.+.
T Consensus       289 lDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~-v~-nLa~L~~L~~LDLS~N~Ls-~~~Gwh~KLGNIKtL~La~N~iE  365 (490)
T KOG1259|consen  289 LDLSGNLITQIDESVKLAPKLRRLILSQNRIRT-VQ-NLAELPQLQLLDLSGNLLA-ECVGWHLKLGNIKTLKLAQNKIE  365 (490)
T ss_pred             ccccccchhhhhhhhhhccceeEEeccccceee-eh-hhhhcccceEeecccchhH-hhhhhHhhhcCEeeeehhhhhHh
Confidence            899999999888888888999999999887433 32 3778889999999886544 33334445778889999999888


Q ss_pred             ccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCCCCC
Q 012324          395 RIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRIPH  448 (466)
Q Consensus       395 ~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~~~~  448 (466)
                      .+ ++++.+-+|.+||+++|++-. + ++...+.+++-|+.+....+++..+..
T Consensus       366 ~L-SGL~KLYSLvnLDl~~N~Ie~-l-deV~~IG~LPCLE~l~L~~NPl~~~vd  416 (490)
T KOG1259|consen  366 TL-SGLRKLYSLVNLDLSSNQIEE-L-DEVNHIGNLPCLETLRLTGNPLAGSVD  416 (490)
T ss_pred             hh-hhhHhhhhheeccccccchhh-H-HHhcccccccHHHHHhhcCCCccccch
Confidence            77 467888889999999887422 1 123334455566665555555555443

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

Probab=98.18  E-value=1.1e-07  Score=94.34  Aligned_cols=125  Identities=23%  Similarity=0.108  Sum_probs=87.0

Q ss_pred             cccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccC
Q 012324          311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAK  390 (466)
Q Consensus       311 ~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~  390 (466)
                      .|.+.+++.|.+..+..++.-++.|+.|++++|++...-  .+..++.|++|++++|. ...+|..-..=.+|..|.+++
T Consensus       165 ~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN~-L~~vp~l~~~gc~L~~L~lrn  241 (1096)
T KOG1859|consen  165 KLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYNC-LRHVPQLSMVGCKLQLLNLRN  241 (1096)
T ss_pred             hHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccch-hccccccchhhhhheeeeecc
Confidence            456777788888888888888899999999998754443  57788899999998854 446664322223588999999


Q ss_pred             CCccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCcc
Q 012324          391 TNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIE  441 (466)
Q Consensus       391 ~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~  441 (466)
                      |.++++ .++.+|.+|+.||+++|-+.+.-.  +.-+..+..|..+...++
T Consensus       242 N~l~tL-~gie~LksL~~LDlsyNll~~hse--L~pLwsLs~L~~L~LeGN  289 (1096)
T KOG1859|consen  242 NALTTL-RGIENLKSLYGLDLSYNLLSEHSE--LEPLWSLSSLIVLWLEGN  289 (1096)
T ss_pred             cHHHhh-hhHHhhhhhhccchhHhhhhcchh--hhHHHHHHHHHHHhhcCC
Confidence            988877 468888999999999886544221  222334444554444444

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

Probab=98.17  E-value=2.3e-07  Score=85.80  Aligned_cols=136  Identities=28%  Similarity=0.320  Sum_probs=89.7

Q ss_pred             CCccCCCCCCcccEEeecCccCcccCh-hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCc-ccC
Q 012324          301 LKRLPEISSGNVCWLFLRGTAIEELPS-SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLG  378 (466)
Q Consensus       301 ~~~~~~~~~~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~-~l~  378 (466)
                      ..++|..+......++|..|.|+.+|+ .|+.+++|+.|+++.|.+....|..+..+.+|..|-+-+++.+..+|+ .|+
T Consensus        58 L~eVP~~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~  137 (498)
T KOG4237|consen   58 LTEVPANLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFG  137 (498)
T ss_pred             cccCcccCCCcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhh
Confidence            345666666667777777788887776 467778888888887777667777777777777776666555555554 577


Q ss_pred             CCCCCcEEEccCCCccccc-hhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccC
Q 012324          379 QLSSPIILNLAKTNIERIP-ESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGI  439 (466)
Q Consensus       379 ~l~~L~~L~l~~~~l~~lp-~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~  439 (466)
                      .+..|+.|.+.-|++..++ ..+..|++|..|.+..|. .+.+++..+  .++..++.+...
T Consensus       138 gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~-~q~i~~~tf--~~l~~i~tlhlA  196 (498)
T KOG4237|consen  138 GLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNK-IQSICKGTF--QGLAAIKTLHLA  196 (498)
T ss_pred             hHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchh-hhhhccccc--cchhccchHhhh
Confidence            7777777777777777443 467777777777777665 444554221  234444444443

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

Probab=98.11  E-value=8.9e-08  Score=85.31  Aligned_cols=155  Identities=21%  Similarity=0.191  Sum_probs=91.7

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCccc--ChhhhccCCCCee
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEEL--PSSIDRLRRLGYL  338 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~l--p~~l~~l~~L~~L  338 (466)
                      +.|.+|+.|.++|+.+.+.+...+.+-.+|+.|++++|                     +.+++.  .--+.+++.|+.|
T Consensus       207 s~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~---------------------sG~t~n~~~ll~~scs~L~~L  265 (419)
T KOG2120|consen  207 SQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMC---------------------SGFTENALQLLLSSCSRLDEL  265 (419)
T ss_pred             HHHHhhhhccccccccCcHHHHHHhccccceeeccccc---------------------cccchhHHHHHHHhhhhHhhc
Confidence            34455556666665555555555555555666666655                     344432  2235678888888


Q ss_pred             ecccccccccccccc-C-CCCCCCEEEecCCCCC---CCCCcccCCCCCCcEEEccCCCcc--ccchhhhccCCCcEeec
Q 012324          339 NLSDCKRLKSLPSSL-C-KLKSLKVLNLCGCSNL---QRLPECLGQLSSPIILNLAKTNIE--RIPESIIQLFVLRYLLL  411 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~-~-~l~~L~~L~l~~~~~~---~~~p~~l~~l~~L~~L~l~~~~l~--~lp~~l~~l~~L~~L~l  411 (466)
                      ++++|.........+ . --.+|+.|+++|+...   ..+.--..++++|-+||++.|...  ..-..|..++.|++|.+
T Consensus       266 NlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSl  345 (419)
T KOG2120|consen  266 NLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSL  345 (419)
T ss_pred             CchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeeh
Confidence            888886544432211 1 1246777888775421   122223456788888888765433  34446677888888888


Q ss_pred             ccCcCCCcCCCCeEeccCCCCcccccc
Q 012324          412 SYSERFQSLPKPLFLARGCLALEPFLG  438 (466)
Q Consensus       412 ~~~~~~~~~p~~~~~l~~~~~L~~l~~  438 (466)
                      +.|.  +-+|..+.++..-++|..+..
T Consensus       346 sRCY--~i~p~~~~~l~s~psl~yLdv  370 (419)
T KOG2120|consen  346 SRCY--DIIPETLLELNSKPSLVYLDV  370 (419)
T ss_pred             hhhc--CCChHHeeeeccCcceEEEEe
Confidence            8876  446666666666666665543

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

Probab=98.10  E-value=7e-07  Score=88.24  Aligned_cols=151  Identities=28%  Similarity=0.235  Sum_probs=101.7

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      +..+++|+.+++.+|.+. .+...+..+++|++|++++|.+....+-.....|+.|++.+|.|..+.. +..+..|+.++
T Consensus        91 l~~~~~l~~l~l~~n~i~-~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l~~N~i~~~~~-~~~l~~L~~l~  168 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIE-KIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNLSGNLISDISG-LESLKSLKLLD  168 (414)
T ss_pred             cccccceeeeeccccchh-hcccchhhhhcchheeccccccccccchhhccchhhheeccCcchhccC-Cccchhhhccc
Confidence            677899999999988544 3443367899999999999988776666556668999999999987753 44588999999


Q ss_pred             ccccccccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCCCC------------------------CcEEEccCCCcc
Q 012324          340 LSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS------------------------PIILNLAKTNIE  394 (466)
Q Consensus       340 l~~~~~~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~------------------------L~~L~l~~~~l~  394 (466)
                      +++|.+...-+ . ...+.+++.+.+.+|.....  +.+..+..                        |+.+++++|.+.
T Consensus       169 l~~n~i~~ie~~~-~~~~~~l~~l~l~~n~i~~i--~~~~~~~~l~~~~l~~n~i~~~~~l~~~~~~~L~~l~l~~n~i~  245 (414)
T KOG0531|consen  169 LSYNRIVDIENDE-LSELISLEELDLGGNSIREI--EGLDLLKKLVLLSLLDNKISKLEGLNELVMLHLRELYLSGNRIS  245 (414)
T ss_pred             CCcchhhhhhhhh-hhhccchHHHhccCCchhcc--cchHHHHHHHHhhcccccceeccCcccchhHHHHHHhcccCccc
Confidence            99987544333 2 46788888888887654321  12222222                        455555555555


Q ss_pred             ccchhhhccCCCcEeecccCc
Q 012324          395 RIPESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       395 ~lp~~l~~l~~L~~L~l~~~~  415 (466)
                      .++..+..++++..|++..|.
T Consensus       246 ~~~~~~~~~~~l~~l~~~~n~  266 (414)
T KOG0531|consen  246 RSPEGLENLKNLPVLDLSSNR  266 (414)
T ss_pred             cccccccccccccccchhhcc
Confidence            554445555555555555544

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.07  E-value=1.5e-05  Score=76.15  Aligned_cols=62  Identities=24%  Similarity=0.308  Sum_probs=40.2

Q ss_pred             CCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCc-cCcccChh
Q 012324          263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT-AIEELPSS  328 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~-~i~~lp~~  328 (466)
                      +++++.|++++| ....+|.   --.+|+.|.+++|.....+|..+..+|+.|++++| .+..+|+.
T Consensus        51 ~~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~LP~nLe~L~Ls~Cs~L~sLP~s  113 (426)
T PRK15386         51 ARASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGSIPEGLEKLTVCHCPEISGLPES  113 (426)
T ss_pred             hcCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCchhhhhhhheEccCcccccccccc
Confidence            466777777777 4455552   12347777777777666677666667777777776 66666643

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.98  E-value=1.6e-05  Score=76.06  Aligned_cols=119  Identities=23%  Similarity=0.400  Sum_probs=75.5

Q ss_pred             cccCcccCEEecCCCCCCCccCCCCCCcccEEeecC-ccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEE
Q 012324          284 IFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRG-TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVL  362 (466)
Q Consensus       284 l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~-~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L  362 (466)
                      +..+.+++.|++++| .+..+| .+..+++.|.+++ +.++.+|..+.  .+|++|++++|..+..+|.+      |+.|
T Consensus        48 ~~~~~~l~~L~Is~c-~L~sLP-~LP~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP~s------Le~L  117 (426)
T PRK15386         48 IEEARASGRLYIKDC-DIESLP-VLPNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLPES------VRSL  117 (426)
T ss_pred             HHHhcCCCEEEeCCC-CCcccC-CCCCCCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccccc------cceE
Confidence            445789999999998 466667 4556799999987 56677776553  58999999998666677754      5556


Q ss_pred             EecCCC--CCCCCCcccCCC------------------CCCcEEEccCCCccccchhhhccCCCcEeecccC
Q 012324          363 NLCGCS--NLQRLPECLGQL------------------SSPIILNLAKTNIERIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       363 ~l~~~~--~~~~~p~~l~~l------------------~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~  414 (466)
                      ++.++.  ..+.+|..+..|                  ++|+.|++++|....+|..+-  .+|++|+++.+
T Consensus       118 ~L~~n~~~~L~~LPssLk~L~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~i~LP~~LP--~SLk~L~ls~n  187 (426)
T PRK15386        118 EIKGSATDSIKNVPNGLTSLSINSYNPENQARIDNLISPSLKTLSLTGCSNIILPEKLP--ESLQSITLHIE  187 (426)
T ss_pred             EeCCCCCcccccCcchHhheeccccccccccccccccCCcccEEEecCCCcccCccccc--ccCcEEEeccc
Confidence            665432  244555543322                  245556665555444443222  35555555443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.95  E-value=6.5e-06  Score=73.69  Aligned_cols=179  Identities=20%  Similarity=0.185  Sum_probs=115.4

Q ss_pred             CCCCCCcEEEcCCCCCCc--ccCcccccCcccCEEecCCCCCCCccCC--CCCCcccEEeecCccCc--ccChhhhccCC
Q 012324          261 PRLNNLVILNLRSGKSLK--SLPSGIFNLEFLTKLDLSGCSKLKRLPE--ISSGNVCWLFLRGTAIE--ELPSSIDRLRR  334 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~l~~L~l~~~~i~--~lp~~l~~l~~  334 (466)
                      ..+++++.+||.+|.+.+  ++...+.++|.|+.|+++.|.+...+..  .-..++++|-+.++.+.  ...+.+..++.
T Consensus        68 ~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~  147 (418)
T KOG2982|consen   68 SSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPK  147 (418)
T ss_pred             HHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchh
Confidence            345788888888885542  3444466788888999988876654332  34467888888887766  55556677777


Q ss_pred             CCeeeccccccccc---------cccc---c-----------------CCCCCCCEEEecCCCCCCC-CCcccCCCCCCc
Q 012324          335 LGYLNLSDCKRLKS---------LPSS---L-----------------CKLKSLKVLNLCGCSNLQR-LPECLGQLSSPI  384 (466)
Q Consensus       335 L~~L~l~~~~~~~~---------~p~~---~-----------------~~l~~L~~L~l~~~~~~~~-~p~~l~~l~~L~  384 (466)
                      ++.|.++.|.....         +..+   +                 .-++++..+-+..|++... --+....++.+.
T Consensus       148 vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~  227 (418)
T KOG2982|consen  148 VTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLS  227 (418)
T ss_pred             hhhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccCCCCCcch
Confidence            78777776632111         0000   0                 1133444444444433221 123345567788


Q ss_pred             EEEccCCCccccc--hhhhccCCCcEeecccCcCCCcCCC---CeEeccCCCCccccccC
Q 012324          385 ILNLAKTNIERIP--ESIIQLFVLRYLLLSYSERFQSLPK---PLFLARGCLALEPFLGI  439 (466)
Q Consensus       385 ~L~l~~~~l~~lp--~~l~~l~~L~~L~l~~~~~~~~~p~---~~~~l~~~~~L~~l~~~  439 (466)
                      .|+++.|++.+..  +.+..+++|+.|.+..+++...+..   ...-+..+++++.+.+.
T Consensus       228 ~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  228 CLNLGANNIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             hhhhcccccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence            8999999988442  4788999999999999998766654   24556778888877764

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

Probab=97.89  E-value=2.9e-06  Score=77.54  Aligned_cols=157  Identities=18%  Similarity=0.081  Sum_probs=85.5

Q ss_pred             CCCCCCCcEEEcCCCCCCcccC----cccccCcccCEEecCCCCCCCccCC---------------CCCCcccEEeecCc
Q 012324          260 MPRLNNLVILNLRSGKSLKSLP----SGIFNLEFLTKLDLSGCSKLKRLPE---------------ISSGNVCWLFLRGT  320 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~----~~l~~l~~L~~L~l~~~~~~~~~~~---------------~~~~~l~~L~l~~~  320 (466)
                      +..+++|++++|++|-+...-+    .-+..+..|++|.+.+|.+...-..               .....|+++...+|
T Consensus        88 L~~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rN  167 (382)
T KOG1909|consen   88 LLGCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRN  167 (382)
T ss_pred             HhcCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecc
Confidence            4455678888888876554332    2245577777777777654321100               11235577777777


Q ss_pred             cCcccC-----hhhhccCCCCeeeccccccccc----cccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEE
Q 012324          321 AIEELP-----SSIDRLRRLGYLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILN  387 (466)
Q Consensus       321 ~i~~lp-----~~l~~l~~L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~  387 (466)
                      ++..-+     ..+...+.|..+.+..|.+...    +...+..+++|+.|++..|.++..    +...+..+++|+.++
T Consensus       168 rlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~  247 (382)
T KOG1909|consen  168 RLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELN  247 (382)
T ss_pred             ccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeec
Confidence            666332     3445556666666666543221    123345566666666666655432    233455566666666


Q ss_pred             ccCCCcc-----ccchhhh-ccCCCcEeecccCcC
Q 012324          388 LAKTNIE-----RIPESII-QLFVLRYLLLSYSER  416 (466)
Q Consensus       388 l~~~~l~-----~lp~~l~-~l~~L~~L~l~~~~~  416 (466)
                      ++.|.+.     .+...+. ..|+|+.|.+.+|.+
T Consensus       248 l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeI  282 (382)
T KOG1909|consen  248 LGDCLLENEGAIAFVDALKESAPSLEVLELAGNEI  282 (382)
T ss_pred             ccccccccccHHHHHHHHhccCCCCceeccCcchh
Confidence            6666655     1222222 256666666666654

>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=97.81  E-value=2.6e-05  Score=49.68  Aligned_cols=36  Identities=25%  Similarity=0.245  Sum_probs=22.9

Q ss_pred             CCCcEEEccCCCccccchhhhccCCCcEeecccCcC
Q 012324          381 SSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       381 ~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~  416 (466)
                      ++|+.|++++|+++.+|..+++|++|+.|++++|++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i   36 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPI   36 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCC
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCC
Confidence            356677777777776666667777777777776653

...

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

Probab=97.76  E-value=3.4e-06  Score=83.38  Aligned_cols=128  Identities=30%  Similarity=0.227  Sum_probs=86.9

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccC-CCCCCcccEEeecCccCcccChhhhccCCCCeeec
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNL  340 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l  340 (466)
                      .+..+..+.+..|.+. ..-..+..+++|.+|++.+|.+.+... .....+|++|++++|.|+.+. .+..++.|+.|++
T Consensus        70 ~l~~l~~l~l~~n~i~-~~~~~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l  147 (414)
T KOG0531|consen   70 SLTSLKELNLRQNLIA-KILNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNL  147 (414)
T ss_pred             HhHhHHhhccchhhhh-hhhcccccccceeeeeccccchhhcccchhhhhcchheecccccccccc-chhhccchhhhee
Confidence            3455556666666333 333347788999999999987666555 455678888888888888764 3566677888888


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCC-cccCCCCCCcEEEccCCCcc
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p-~~l~~l~~L~~L~l~~~~l~  394 (466)
                      .+|. +..+. ++..++.|+.+++++|.+...-+ . ...+.+++.+.+.+|.+.
T Consensus       148 ~~N~-i~~~~-~~~~l~~L~~l~l~~n~i~~ie~~~-~~~~~~l~~l~l~~n~i~  199 (414)
T KOG0531|consen  148 SGNL-ISDIS-GLESLKSLKLLDLSYNRIVDIENDE-LSELISLEELDLGGNSIR  199 (414)
T ss_pred             ccCc-chhcc-CCccchhhhcccCCcchhhhhhhhh-hhhccchHHHhccCCchh
Confidence            8876 33333 35567888888888866554333 1 466777888888777665

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

Probab=97.64  E-value=1e-05  Score=74.10  Aligned_cols=157  Identities=17%  Similarity=0.081  Sum_probs=110.0

Q ss_pred             CCCCCCCcEEEcCCCCCCcc-------------cCcccccCcccCEEecCCCCCCCccCC------CCCCcccEEeecCc
Q 012324          260 MPRLNNLVILNLRSGKSLKS-------------LPSGIFNLEFLTKLDLSGCSKLKRLPE------ISSGNVCWLFLRGT  320 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~-------------~~~~l~~l~~L~~L~l~~~~~~~~~~~------~~~~~l~~L~l~~~  320 (466)
                      ++++..|+.|.+.+|.+...             ...-..+-++||++...+|.+......      ...+.++.+.+..|
T Consensus       116 l~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN  195 (382)
T KOG1909|consen  116 LSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQN  195 (382)
T ss_pred             HHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecc
Confidence            44567778888877754321             112233457788888888775543221      12256677777777


Q ss_pred             cCc-----ccChhhhccCCCCeeeccccccccc----cccccCCCCCCCEEEecCCCCCCCCCccc-----CCCCCCcEE
Q 012324          321 AIE-----ELPSSIDRLRRLGYLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNLQRLPECL-----GQLSSPIIL  386 (466)
Q Consensus       321 ~i~-----~lp~~l~~l~~L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~~~~p~~l-----~~l~~L~~L  386 (466)
                      .|.     .+...+..+++|+.||+..|.+...    +...++.+++|+.+++++|.+.......|     ...++|+.+
T Consensus       196 ~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl  275 (382)
T KOG1909|consen  196 GIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVL  275 (382)
T ss_pred             cccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHHHHHHHhccCCCCcee
Confidence            765     3455778899999999999987544    33557788999999999998865443322     347899999


Q ss_pred             EccCCCcc-----ccchhhhccCCCcEeecccCcC
Q 012324          387 NLAKTNIE-----RIPESIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       387 ~l~~~~l~-----~lp~~l~~l~~L~~L~l~~~~~  416 (466)
                      .+.+|.++     .+-..+...+.|+.|.+++|.+
T Consensus       276 ~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  276 ELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             ccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            99999998     2333566799999999999985

>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=97.63  E-value=7.5e-05  Score=47.56  Aligned_cols=40  Identities=33%  Similarity=0.390  Sum_probs=26.7

Q ss_pred             CCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccc
Q 012324          357 KSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIP  397 (466)
Q Consensus       357 ~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp  397 (466)
                      ++|++|++++|.+. .+|..+++|++|+.|++++|.++.++
T Consensus         1 ~~L~~L~l~~N~i~-~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQIT-DLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-S-SHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             CcceEEEccCCCCc-ccCchHhCCCCCCEEEecCCCCCCCc
Confidence            35777777776555 45656777777777777777777654

...

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

Probab=97.63  E-value=2.1e-05  Score=81.57  Aligned_cols=150  Identities=26%  Similarity=0.219  Sum_probs=86.7

Q ss_pred             CCCcEEEcCCCCCC-cccCccccc-CcccCEEecCCCCCCCcc-C--CCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          264 NNLVILNLRSGKSL-KSLPSGIFN-LEFLTKLDLSGCSKLKRL-P--EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       264 ~~L~~L~l~~~~~~-~~~~~~l~~-l~~L~~L~l~~~~~~~~~-~--~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      .+|+.|+++|.... ...|..++. ||.|+.|.+.+-.+...- .  -..+++|..||+++++++.+ .+++.+++||.|
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L  200 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVL  200 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHH
Confidence            35566666554322 222222322 566666666653322210 0  12334566666666778777 788999999999


Q ss_pred             ecccccccc-ccccccCCCCCCCEEEecCCCCCCCC--C----cccCCCCCCcEEEccCCCcc-ccch-hhhccCCCcEe
Q 012324          339 NLSDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRL--P----ECLGQLSSPIILNLAKTNIE-RIPE-SIIQLFVLRYL  409 (466)
Q Consensus       339 ~l~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~--p----~~l~~l~~L~~L~l~~~~l~-~lp~-~l~~l~~L~~L  409 (466)
                      .+.+-.+.. ..-..+.++++|+.|++|........  .    +.-..+|+|+.||.+++.+. .+.+ .+..-++|+.+
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L~~i  280 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNLQQI  280 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccHhhh
Confidence            887643322 11124778999999999874433211  1    12234889999999988887 3333 34456677766


Q ss_pred             ecccC
Q 012324          410 LLSYS  414 (466)
Q Consensus       410 ~l~~~  414 (466)
                      .+-.|
T Consensus       281 ~~~~~  285 (699)
T KOG3665|consen  281 AALDC  285 (699)
T ss_pred             hhhhh
Confidence            65543

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

Probab=97.54  E-value=0.00018  Score=61.04  Aligned_cols=122  Identities=22%  Similarity=0.149  Sum_probs=73.7

Q ss_pred             cCEEecCCCCCCCccC-CCCCCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCC
Q 012324          290 LTKLDLSGCSKLKRLP-EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       290 L~~L~l~~~~~~~~~~-~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~  368 (466)
                      =+.+++++.++....- .....+...++++.|.+..++ .+..++.|.+|.+.+|.+...-|.--.-+++|+.|.+.+|+
T Consensus        21 e~e~~LR~lkip~ienlg~~~d~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNs   99 (233)
T KOG1644|consen   21 ERELDLRGLKIPVIENLGATLDQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNS   99 (233)
T ss_pred             ccccccccccccchhhccccccccceecccccchhhcc-cCCCccccceEEecCCcceeeccchhhhccccceEEecCcc
Confidence            3455555544322111 122245577888888777654 35567778888888776544444322345668888887765


Q ss_pred             CCC--CCCcccCCCCCCcEEEccCCCccccch----hhhccCCCcEeeccc
Q 012324          369 NLQ--RLPECLGQLSSPIILNLAKTNIERIPE----SIIQLFVLRYLLLSY  413 (466)
Q Consensus       369 ~~~--~~p~~l~~l~~L~~L~l~~~~l~~lp~----~l~~l~~L~~L~l~~  413 (466)
                      +..  .+ ..+..+++|+.|.+-+|.+..-+.    .+..+|+|+.||++.
T Consensus       100 i~~l~dl-~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  100 IQELGDL-DPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             hhhhhhc-chhccCCccceeeecCCchhcccCceeEEEEecCcceEeehhh
Confidence            532  22 345667788888887777764332    356778888888764

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

Probab=97.39  E-value=1.3e-05  Score=63.50  Aligned_cols=83  Identities=18%  Similarity=0.266  Sum_probs=37.3

Q ss_pred             cEEeecCccCcccChhhh-ccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCC
Q 012324          313 CWLFLRGTAIEELPSSID-RLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKT  391 (466)
Q Consensus       313 ~~L~l~~~~i~~lp~~l~-~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~  391 (466)
                      +..++++|.+..+|+.+. .++.++.|++.+|. +..+|..+..++.|+.|+++.|.+. ..|+-+..+.+|..|+..+|
T Consensus        56 ~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~ne-isdvPeE~Aam~aLr~lNl~~N~l~-~~p~vi~~L~~l~~Lds~~n  133 (177)
T KOG4579|consen   56 TKISLSDNGFKKFPKKFTIKFPTATTLNLANNE-ISDVPEELAAMPALRSLNLRFNPLN-AEPRVIAPLIKLDMLDSPEN  133 (177)
T ss_pred             EEEecccchhhhCCHHHhhccchhhhhhcchhh-hhhchHHHhhhHHhhhcccccCccc-cchHHHHHHHhHHHhcCCCC
Confidence            445555555555554442 23344444444433 3444444444444444444443322 23333333444444444444


Q ss_pred             Cccccc
Q 012324          392 NIERIP  397 (466)
Q Consensus       392 ~l~~lp  397 (466)
                      .+..+|
T Consensus       134 a~~eid  139 (177)
T KOG4579|consen  134 ARAEID  139 (177)
T ss_pred             ccccCc
Confidence            444443

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

Probab=97.30  E-value=0.00013  Score=75.84  Aligned_cols=130  Identities=20%  Similarity=0.232  Sum_probs=87.6

Q ss_pred             CcccCEEecCCCCCCCc-cC---CCCCCcccEEeecCccCc--ccChhhhccCCCCeeeccccccccccccccCCCCCCC
Q 012324          287 LEFLTKLDLSGCSKLKR-LP---EISSGNVCWLFLRGTAIE--ELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLK  360 (466)
Q Consensus       287 l~~L~~L~l~~~~~~~~-~~---~~~~~~l~~L~l~~~~i~--~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~  360 (466)
                      -.+|++|++++...... .|   ....+.|+.|.+++-.+.  .+.....++++|..||+++++ +..+ .+++++++|+
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~Tn-I~nl-~GIS~LknLq  198 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTN-ISNL-SGISRLKNLQ  198 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCC-ccCc-HHHhccccHH
Confidence            36789999998654422 22   234467888998885554  344455688999999999865 4444 6788999999


Q ss_pred             EEEecCCCCCC-CCCcccCCCCCCcEEEccCCCccccch-------hhhccCCCcEeecccCcCCC
Q 012324          361 VLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERIPE-------SIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       361 ~L~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~lp~-------~l~~l~~L~~L~l~~~~~~~  418 (466)
                      .|.+.+-.+.. ..-..+-+|++|+.||+|......-+.       .-..||+|+.||.++..+.+
T Consensus       199 ~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~  264 (699)
T KOG3665|consen  199 VLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINE  264 (699)
T ss_pred             HHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhH
Confidence            99886644332 112356679999999998665543221       12358999999998765443

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

Probab=97.28  E-value=6.6e-06  Score=82.08  Aligned_cols=123  Identities=24%  Similarity=0.246  Sum_probs=59.0

Q ss_pred             CCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccccc
Q 012324          265 NLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCK  344 (466)
Q Consensus       265 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~  344 (466)
                      .|.+.+.+.| ....+..++.-++.|+.|+|++|++                      .... .+..+++|.+|||++|.
T Consensus       165 ~L~~a~fsyN-~L~~mD~SLqll~ale~LnLshNk~----------------------~~v~-~Lr~l~~LkhLDlsyN~  220 (1096)
T KOG1859|consen  165 KLATASFSYN-RLVLMDESLQLLPALESLNLSHNKF----------------------TKVD-NLRRLPKLKHLDLSYNC  220 (1096)
T ss_pred             hHhhhhcchh-hHHhHHHHHHHHHHhhhhccchhhh----------------------hhhH-HHHhcccccccccccch
Confidence            4555555555 2333444455566666666666433                      2222 34455555555555544


Q ss_pred             ccccccc-ccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccc--hhhhccCCCcEeecccCc
Q 012324          345 RLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIP--ESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       345 ~~~~~p~-~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp--~~l~~l~~L~~L~l~~~~  415 (466)
                       +..+|. +...+ .|+.|++.+|.... + .++.++.+|+.||++.|-+....  ..++.|..|+.|++.+|+
T Consensus       221 -L~~vp~l~~~gc-~L~~L~lrnN~l~t-L-~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  221 -LRHVPQLSMVGC-KLQLLNLRNNALTT-L-RGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             -hccccccchhhh-hheeeeecccHHHh-h-hhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCc
Confidence             333332 11112 25555555543322 1 24455555555665555554221  234555556666666665

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

Probab=97.28  E-value=1.7e-05  Score=62.94  Aligned_cols=110  Identities=21%  Similarity=0.273  Sum_probs=82.7

Q ss_pred             cccEEeecCccCcccChhh---hccCCCCeeeccccccccccccccC-CCCCCCEEEecCCCCCCCCCcccCCCCCCcEE
Q 012324          311 NVCWLFLRGTAIEELPSSI---DRLRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSNLQRLPECLGQLSSPIIL  386 (466)
Q Consensus       311 ~l~~L~l~~~~i~~lp~~l---~~l~~L~~L~l~~~~~~~~~p~~~~-~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L  386 (466)
                      .+..++++++.+-.++...   ....+|...++++|. ...+|+.+. +++.+.+|++.+| ....+|.++..++.|+.+
T Consensus        28 E~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~-fk~fp~kft~kf~t~t~lNl~~n-eisdvPeE~Aam~aLr~l  105 (177)
T KOG4579|consen   28 ELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNG-FKKFPKKFTIKFPTATTLNLANN-EISDVPEELAAMPALRSL  105 (177)
T ss_pred             HhhhcccccchhhHHHHHHHHHhCCceEEEEecccch-hhhCCHHHhhccchhhhhhcchh-hhhhchHHHhhhHHhhhc
Confidence            3466788888887666644   455566667888876 455665554 5668899999884 556788889999999999


Q ss_pred             EccCCCccccchhhhccCCCcEeecccCcCCCcCCCC
Q 012324          387 NLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKP  423 (466)
Q Consensus       387 ~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~  423 (466)
                      +++.|.+...|..+..|.+|-.|+..+|. ...+|-+
T Consensus       106 Nl~~N~l~~~p~vi~~L~~l~~Lds~~na-~~eid~d  141 (177)
T KOG4579|consen  106 NLRFNPLNAEPRVIAPLIKLDMLDSPENA-RAEIDVD  141 (177)
T ss_pred             ccccCccccchHHHHHHHhHHHhcCCCCc-cccCcHH
Confidence            99999999888888888888889887765 4455555

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

Probab=97.19  E-value=0.00067  Score=57.71  Aligned_cols=105  Identities=22%  Similarity=0.182  Sum_probs=69.7

Q ss_pred             CcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhh-ccCCCCeeeccccccc--cccccccCCCCCCCEEE
Q 012324          287 LEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSID-RLRRLGYLNLSDCKRL--KSLPSSLCKLKSLKVLN  363 (466)
Q Consensus       287 l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~-~l~~L~~L~l~~~~~~--~~~p~~~~~l~~L~~L~  363 (466)
                      +.+...+|+++|.+....--.....+.+|.+.+|+|+.+.+.+. .+++|+.|.+.+|.+.  +.+- .+..++.|++|.
T Consensus        41 ~d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~-pLa~~p~L~~Lt  119 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLD-PLASCPKLEYLT  119 (233)
T ss_pred             ccccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcc-hhccCCccceee
Confidence            34566788888775443333345678888888888888877664 4567888888887642  2332 366788888888


Q ss_pred             ecCCCCCCCCC---cccCCCCCCcEEEccCCC
Q 012324          364 LCGCSNLQRLP---ECLGQLSSPIILNLAKTN  392 (466)
Q Consensus       364 l~~~~~~~~~p---~~l~~l~~L~~L~l~~~~  392 (466)
                      +-+|+....--   --+..+++|+.||...-.
T Consensus       120 ll~Npv~~k~~YR~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  120 LLGNPVEHKKNYRLYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             ecCCchhcccCceeEEEEecCcceEeehhhhh
Confidence            88866543210   135678888888876543

>PRK06893 DNA replication initiation factor; Validated

Probab=96.64  E-value=0.0035  Score=56.52  Aligned_cols=89  Identities=13%  Similarity=0.296  Sum_probs=57.1

Q ss_pred             EEEEeCCCCh---HhHHH-HHhcCCCC-CCCcEEEEEeCC----------hhhHhhcCcceEEEccCCChhhHHHHHHHh
Q 012324            4 LIVFDDVTCF---SQLES-IIRSLDWL-TPVSRIIITTRN----------KQVLRNWGVRKIYEIEALENHHALELFSRH   68 (466)
Q Consensus         4 LlvlDd~~~~---~~~~~-l~~~~~~~-~~gs~IlvTTR~----------~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~   68 (466)
                      +|||||+|..   .+|+. +...+... ..|+.|+++|.+          +++.+.+..+.+++++++++++.++++++.
T Consensus        94 lLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~  173 (229)
T PRK06893         94 LVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRN  173 (229)
T ss_pred             EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHH
Confidence            7999999863   34553 22222211 235556555444          466666777779999999999999999998


Q ss_pred             hcCCCCCCchHHHHHHHHHHHhCCCc
Q 012324           69 AFKRNHPDVGYEKLSSKVMKYAQGVP   94 (466)
Q Consensus        69 ~~~~~~~~~~~~~~~~~i~~~c~glP   94 (466)
                      +....-.  -..++..-|++.+.|-.
T Consensus       174 a~~~~l~--l~~~v~~~L~~~~~~d~  197 (229)
T PRK06893        174 AYQRGIE--LSDEVANFLLKRLDRDM  197 (229)
T ss_pred             HHHcCCC--CCHHHHHHHHHhccCCH
Confidence            8643221  12455666777666544

>PF05729 NACHT: NACHT domain

Probab=96.64  E-value=0.0052  Score=52.08  Aligned_cols=69  Identities=22%  Similarity=0.391  Sum_probs=48.9

Q ss_pred             CeEEEEEeCCCChHh---------HHHHHhc-CCC-CCCCcEEEEEeCChhh---HhhcCcceEEEccCCChhhHHHHHH
Q 012324            1 MKVLIVFDDVTCFSQ---------LESIIRS-LDW-LTPVSRIIITTRNKQV---LRNWGVRKIYEIEALENHHALELFS   66 (466)
Q Consensus         1 kr~LlvlDd~~~~~~---------~~~l~~~-~~~-~~~gs~IlvTTR~~~v---~~~~~~~~~~~l~~L~~~~~~~Lf~   66 (466)
                      ++++||+|++++...         +..+... ++. ...+.+|+||+|....   .........++++++++++..++++
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  160 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLR  160 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHH
Confidence            478999999975443         2222222 222 3568999999999866   2334444689999999999999998


Q ss_pred             Hhh
Q 012324           67 RHA   69 (466)
Q Consensus        67 ~~~   69 (466)
                      ++.
T Consensus       161 ~~f  163 (166)
T PF05729_consen  161 KYF  163 (166)
T ss_pred             HHh
Confidence            765

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

Probab=96.63  E-value=0.00086  Score=59.66  Aligned_cols=156  Identities=17%  Similarity=0.134  Sum_probs=94.9

Q ss_pred             CCCCCCCcEEEcCCCCCCc----ccC-------cccccCcccCEEecCCCCCCCccCCC------CCCcccEEeecCccC
Q 012324          260 MPRLNNLVILNLRSGKSLK----SLP-------SGIFNLEFLTKLDLSGCSKLKRLPEI------SSGNVCWLFLRGTAI  322 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~----~~~-------~~l~~l~~L~~L~l~~~~~~~~~~~~------~~~~l~~L~l~~~~i  322 (466)
                      +.+-++|+..+++.- +++    .++       +.+.+|++|+..+++.|.+....|+.      ....+..|.+++|.+
T Consensus        54 ia~~~~L~vvnfsd~-ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGl  132 (388)
T COG5238          54 IANVRNLRVVNFSDA-FTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGL  132 (388)
T ss_pred             HhhhcceeEeehhhh-hhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCC
Confidence            344567777777654 332    122       33557888889999988877666642      224678888888877


Q ss_pred             cccC-----hh---------hhccCCCCeeeccccccccccc-----cccCCCCCCCEEEecCCCCCCCCC-----cccC
Q 012324          323 EELP-----SS---------IDRLRRLGYLNLSDCKRLKSLP-----SSLCKLKSLKVLNLCGCSNLQRLP-----ECLG  378 (466)
Q Consensus       323 ~~lp-----~~---------l~~l~~L~~L~l~~~~~~~~~p-----~~~~~l~~L~~L~l~~~~~~~~~p-----~~l~  378 (466)
                      ..+.     ..         ..+-+.|++.....|++ ...|     ..+.....|+++.+-.|.+.....     ..+.
T Consensus       133 Gp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRl-engs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~  211 (388)
T COG5238         133 GPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRL-ENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLF  211 (388)
T ss_pred             CccchhHHHHHHHHHHHHhhhccCCCceEEEeccchh-ccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHH
Confidence            7432     11         22346788777777653 2222     123333577888887655432211     1234


Q ss_pred             CCCCCcEEEccCCCccc-----cchhhhccCCCcEeecccCcCC
Q 012324          379 QLSSPIILNLAKTNIER-----IPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       379 ~l~~L~~L~l~~~~l~~-----lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      .+.+|+.|++..|-++.     +...+..++.|+.|.+..|.+.
T Consensus       212 y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls  255 (388)
T COG5238         212 YSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLS  255 (388)
T ss_pred             HhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhc
Confidence            56788888888887762     3334566777888888888644

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

Probab=96.51  E-value=0.0021  Score=57.07  Aligned_cols=83  Identities=28%  Similarity=0.263  Sum_probs=47.4

Q ss_pred             ccCCCCeeecccc--ccccccccccCCCCCCCEEEecCCCCCC-CCCcccCCCCCCcEEEccCCCccccch----hhhcc
Q 012324          331 RLRRLGYLNLSDC--KRLKSLPSSLCKLKSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERIPE----SIIQL  403 (466)
Q Consensus       331 ~l~~L~~L~l~~~--~~~~~~p~~~~~l~~L~~L~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~lp~----~l~~l  403 (466)
                      .+++|++|.++.|  ...+.++.-..++++|+++++++|.+.. .-...+..+.+|..|++..|..+.+-.    .+.-+
T Consensus        63 ~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll  142 (260)
T KOG2739|consen   63 KLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSVTNLDDYREKVFLLL  142 (260)
T ss_pred             CcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCCccccccHHHHHHHHh
Confidence            4556777777666  4444444444555777777777765432 111234556667777777666554322    34556


Q ss_pred             CCCcEeeccc
Q 012324          404 FVLRYLLLSY  413 (466)
Q Consensus       404 ~~L~~L~l~~  413 (466)
                      ++|.+|+-..
T Consensus       143 ~~L~~LD~~d  152 (260)
T KOG2739|consen  143 PSLKYLDGCD  152 (260)
T ss_pred             hhhccccccc
Confidence            7777776443

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

Probab=96.33  E-value=0.00031  Score=63.27  Aligned_cols=131  Identities=27%  Similarity=0.289  Sum_probs=80.1

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcc--cCcccccCcccCEEecCCCCCCCcc----CCCCCCcccEEeecCccCc----ccCh
Q 012324          258 MLMPRLNNLVILNLRSGKSLKS--LPSGIFNLEFLTKLDLSGCSKLKRL----PEISSGNVCWLFLRGTAIE----ELPS  327 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~--~~~~l~~l~~L~~L~l~~~~~~~~~----~~~~~~~l~~L~l~~~~i~----~lp~  327 (466)
                      ..+.+-.+|+.|++++|+-...  +.-.+.+|+.|..|+++.|......    -.++..+++.|+++|+.=.    .+..
T Consensus       228 ~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~t  307 (419)
T KOG2120|consen  228 NTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLST  307 (419)
T ss_pred             HHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHH
Confidence            3466778999999999864332  2233668999999999998765432    1245567778888774321    2222


Q ss_pred             hhhccCCCCeeecccccccc-ccccccCCCCCCCEEEecCCCCCCCCCc---ccCCCCCCcEEEccC
Q 012324          328 SIDRLRRLGYLNLSDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRLPE---CLGQLSSPIILNLAK  390 (466)
Q Consensus       328 ~l~~l~~L~~L~l~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~p~---~l~~l~~L~~L~l~~  390 (466)
                      -..++++|..||++.|..+. .....+-+++.|++|.++.|+..  .|+   .+...+.|..|++.+
T Consensus       308 L~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i--~p~~~~~l~s~psl~yLdv~g  372 (419)
T KOG2120|consen  308 LVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDI--IPETLLELNSKPSLVYLDVFG  372 (419)
T ss_pred             HHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCC--ChHHeeeeccCcceEEEEecc
Confidence            33567777777777764332 22234566777777777766532  233   344555566665543

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.29  E-value=0.00018  Score=64.08  Aligned_cols=99  Identities=24%  Similarity=0.151  Sum_probs=65.7

Q ss_pred             CCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccCh--hhhccCCCCeeec
Q 012324          263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPS--SIDRLRRLGYLNL  340 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~--~l~~l~~L~~L~l  340 (466)
                      +.+.+.|++.||.+.+. . ...+++.|++|.|+-|.+..--|-.-+..|+.|||..|.|..+.+  -+.++++|+.|.|
T Consensus        18 l~~vkKLNcwg~~L~DI-s-ic~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDI-S-ICEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHHhhhhcccCCCccHH-H-HHHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhh
Confidence            34556666666643332 1 134677777777777766655555556667777777788876654  4678889999988


Q ss_pred             cccccccccccc-----cCCCCCCCEEE
Q 012324          341 SDCKRLKSLPSS-----LCKLKSLKVLN  363 (466)
Q Consensus       341 ~~~~~~~~~p~~-----~~~l~~L~~L~  363 (466)
                      ..|.-.+..++.     +.-+++|+.|+
T Consensus        96 ~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   96 DENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             ccCCcccccchhHHHHHHHHcccchhcc
Confidence            888777766543     45577888875

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

Probab=96.24  E-value=0.0028  Score=56.27  Aligned_cols=89  Identities=20%  Similarity=0.153  Sum_probs=63.6

Q ss_pred             hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCC--CCCCCCCcccCCCCCCcEEEccCCCcccc--chhhhcc
Q 012324          328 SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGC--SNLQRLPECLGQLSSPIILNLAKTNIERI--PESIIQL  403 (466)
Q Consensus       328 ~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~--~~~~~~p~~l~~l~~L~~L~l~~~~l~~l--p~~l~~l  403 (466)
                      ..-.+..|+.|.+.++..+..  ..+-.+++|++|.++.|  ...+.++--...+++|+++++++|++..+  ...+..+
T Consensus        38 l~d~~~~le~ls~~n~gltt~--~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l  115 (260)
T KOG2739|consen   38 LTDEFVELELLSVINVGLTTL--TNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKEL  115 (260)
T ss_pred             ccccccchhhhhhhccceeec--ccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhh
Confidence            334556677777766543322  23567889999999998  44555655556679999999999998832  1246788


Q ss_pred             CCCcEeecccCcCCC
Q 012324          404 FVLRYLLLSYSERFQ  418 (466)
Q Consensus       404 ~~L~~L~l~~~~~~~  418 (466)
                      .+|..|++.+|.-.+
T Consensus       116 ~nL~~Ldl~n~~~~~  130 (260)
T KOG2739|consen  116 ENLKSLDLFNCSVTN  130 (260)
T ss_pred             cchhhhhcccCCccc
Confidence            899999999987554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.98  E-value=0.00028  Score=62.91  Aligned_cols=88  Identities=25%  Similarity=0.149  Sum_probs=57.8

Q ss_pred             cCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch--hhhccCCCcEe
Q 012324          332 LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE--SIIQLFVLRYL  409 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~--~l~~l~~L~~L  409 (466)
                      +.+...|+..+|.+. .+ .-..+|+.|+.|.++-|.+..-  ..+..|++|+.|+|..|.|.++-+  .+.++|+|+.|
T Consensus        18 l~~vkKLNcwg~~L~-DI-sic~kMp~lEVLsLSvNkIssL--~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLD-DI-SICEKMPLLEVLSLSVNKISSL--APLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HHHhhhhcccCCCcc-HH-HHHHhcccceeEEeeccccccc--hhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhH
Confidence            445555666665532 22 1134677777777777554432  246677888888888888876543  56788888899


Q ss_pred             ecccCcCCCcCCCC
Q 012324          410 LLSYSERFQSLPKP  423 (466)
Q Consensus       410 ~l~~~~~~~~~p~~  423 (466)
                      +|..|+=.+.-+..
T Consensus        94 WL~ENPCc~~ag~n  107 (388)
T KOG2123|consen   94 WLDENPCCGEAGQN  107 (388)
T ss_pred             hhccCCcccccchh
Confidence            98888877666654

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

Probab=95.94  E-value=0.0037  Score=55.80  Aligned_cols=159  Identities=15%  Similarity=0.071  Sum_probs=110.3

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCc----ccccCcccCEEecCCCCCCCccCC----------------CCCCcccEEeecC
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPS----GIFNLEFLTKLDLSGCSKLKRLPE----------------ISSGNVCWLFLRG  319 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~----~l~~l~~L~~L~l~~~~~~~~~~~----------------~~~~~l~~L~l~~  319 (466)
                      +-+|++|+.++|++|.+....|.    .+++-+.|.+|.+.+|.. |.+..                ...+.+++..+..
T Consensus        88 Llkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGl-Gp~aG~rigkal~~la~nKKaa~kp~Le~vicgr  166 (388)
T COG5238          88 LLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGL-GPIAGGRIGKALFHLAYNKKAADKPKLEVVICGR  166 (388)
T ss_pred             HhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCC-CccchhHHHHHHHHHHHHhhhccCCCceEEEecc
Confidence            57899999999999987766553    456678899999998753 32221                1123568888888


Q ss_pred             ccCcccChh-----hhccCCCCeeeccccccccc-----cccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcE
Q 012324          320 TAIEELPSS-----IDRLRRLGYLNLSDCKRLKS-----LPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPII  385 (466)
Q Consensus       320 ~~i~~lp~~-----l~~l~~L~~L~l~~~~~~~~-----~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~  385 (466)
                      |++...|..     +..-..|.++.+..|.+--.     +..++..+++|+.|++..|.++..    +...++.++.|+.
T Consensus       167 NRlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrE  246 (388)
T COG5238         167 NRLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRE  246 (388)
T ss_pred             chhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhh
Confidence            988866542     33335788888888764322     112455678999999999887643    3345678889999


Q ss_pred             EEccCCCcc--c---cchhhh--ccCCCcEeecccCcCCCc
Q 012324          386 LNLAKTNIE--R---IPESII--QLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       386 L~l~~~~l~--~---lp~~l~--~l~~L~~L~l~~~~~~~~  419 (466)
                      |.+..|-++  .   +...+.  ..|+|..|...+|.+-+.
T Consensus       247 L~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~  287 (388)
T COG5238         247 LRLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRGG  287 (388)
T ss_pred             ccccchhhccccHHHHHHHhhhhcCCCccccccchhhhcCc
Confidence            999988877  2   222233  357889999988865443

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=95.78  E-value=0.0084  Score=57.30  Aligned_cols=154  Identities=14%  Similarity=0.062  Sum_probs=88.2

Q ss_pred             CcEEEEEeCChhhHhhcC--cceEEEccCCChhhHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCceeehhhhhhccc
Q 012324           29 VSRIIITTRNKQVLRNWG--VRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYE  106 (466)
Q Consensus        29 gs~IlvTTR~~~v~~~~~--~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~  106 (466)
                      .+-|..|||...+.....  ....+++++++.++..+++.+.+......  -..+.+..|++.|+|.|-.+..+...+  
T Consensus       151 ~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~--~~~~~~~~ia~~~~G~pR~a~~~l~~~--  226 (328)
T PRK00080        151 FTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVE--IDEEGALEIARRSRGTPRIANRLLRRV--  226 (328)
T ss_pred             ceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHcCCCchHHHHHHHHH--
Confidence            345666777554332211  13578999999999999999887543221  224678899999999995443333221  


Q ss_pred             CCHHHHHHHHH--HHHhccchhHHHHHHHHHhcCchhhhhhhc-eeeccCCC-ccHHHHHHHHHhcCCCccchhh-hhhc
Q 012324          107 REKEVSESAIN--KLQRILHPSILEVLKISYDSLDNKEKNIFL-DVACFFQG-EDVNLVMKFLNASGFYPEIGIS-VLVD  181 (466)
Q Consensus       107 ~~~~~w~~~~~--~l~~~~~~~~~~~l~~sy~~L~~~~~~~~~-~~~~fp~~-~~~~~l~~~~~~~~~~~~~~~~-~L~~  181 (466)
                         ..|.....  .+....-......+...+..|++..+..+. ....|+.+ .....+...+..+....+..++ .|++
T Consensus       227 ---~~~a~~~~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~  303 (328)
T PRK00080        227 ---RDFAQVKGDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQ  303 (328)
T ss_pred             ---HHHHHHcCCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHH
Confidence               11111100  000011122334455666777777777665 55556554 5566666666444444444455 8888


Q ss_pred             ccceEEcC
Q 012324          182 KSLIAIGS  189 (466)
Q Consensus       182 ~sl~~~~~  189 (466)
                      .++++...
T Consensus       304 ~~li~~~~  311 (328)
T PRK00080        304 QGFIQRTP  311 (328)
T ss_pred             cCCcccCC
Confidence            88887543

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=95.66  E-value=0.061  Score=55.84  Aligned_cols=197  Identities=15%  Similarity=0.164  Sum_probs=117.3

Q ss_pred             eEEEEEeCCCChHh---HHHHHhcCCCCCCCcEEEEEeCChhh---HhhcCcceEEEcc----CCChhhHHHHHHHhhcC
Q 012324            2 KVLIVFDDVTCFSQ---LESIIRSLDWLTPVSRIIITTRNKQV---LRNWGVRKIYEIE----ALENHHALELFSRHAFK   71 (466)
Q Consensus         2 r~LlvlDd~~~~~~---~~~l~~~~~~~~~gs~IlvTTR~~~v---~~~~~~~~~~~l~----~L~~~~~~~Lf~~~~~~   71 (466)
                      ...+||||.--..+   -..+.-.++....+=..|||||+.--   +..---....+++    .++.+|+-++|..... 
T Consensus       130 pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~-  208 (894)
T COG2909         130 PLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGS-  208 (894)
T ss_pred             ceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCC-
Confidence            46899999743221   22222223334567789999999832   2211111233333    5889999999987541 


Q ss_pred             CCCCCchHHHHHHHHHHHhCCCceeehhhhhhcccC-CHHHHHHHHHHHHhccchhHHH-HHHHHHhcCchhhhhhhcee
Q 012324           72 RNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYER-EKEVSESAINKLQRILHPSILE-VLKISYDSLDNKEKNIFLDV  149 (466)
Q Consensus        72 ~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~-~~~~w~~~~~~l~~~~~~~~~~-~l~~sy~~L~~~~~~~~~~~  149 (466)
                       .   +-.+.-++.+.+..+|.+-|+..++=.++.+ +.++-...++..    .+.+.. ...-.++.||++.|..++-+
T Consensus       209 -l---~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~LsG~----~~~l~dYL~eeVld~Lp~~l~~FLl~~  280 (894)
T COG2909         209 -L---PLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLSGA----ASHLSDYLVEEVLDRLPPELRDFLLQT  280 (894)
T ss_pred             -C---CCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhccch----HHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence             1   1224456788889999999998888777732 333222222211    111111 12335689999999999988


Q ss_pred             eccCCCccHHHHHHHHHhcCCCccchhhhhhcccceEE---cCCCeEEecHHHHHHHHHHHhhh
Q 012324          150 ACFFQGEDVNLVMKFLNASGFYPEIGISVLVDKSLIAI---GSYNKIRMHDLLQELGREIVRQE  210 (466)
Q Consensus       150 ~~fp~~~~~~~l~~~~~~~~~~~~~~~~~L~~~sl~~~---~~~~~~~~hdlv~~~~~~~~~~~  210 (466)
                      ++++.-.  ..+...... .-.....++.|.+++++-.   +....|+.|.++.+|.+.....+
T Consensus       281 svl~~f~--~eL~~~Ltg-~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~  341 (894)
T COG2909         281 SVLSRFN--DELCNALTG-EENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRE  341 (894)
T ss_pred             HhHHHhh--HHHHHHHhc-CCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhccc
Confidence            8885311  112222222 1223334788888887652   24678999999999998777653

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=95.44  E-value=0.052  Score=48.77  Aligned_cols=95  Identities=23%  Similarity=0.280  Sum_probs=50.7

Q ss_pred             eEEEEEeCCCChH-----------hHHHHHhcCCCCCCCcEEEEEeCChhhHhh--------cCcceEEEccCCChhhHH
Q 012324            2 KVLIVFDDVTCFS-----------QLESIIRSLDWLTPVSRIIITTRNKQVLRN--------WGVRKIYEIEALENHHAL   62 (466)
Q Consensus         2 r~LlvlDd~~~~~-----------~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~--------~~~~~~~~l~~L~~~~~~   62 (466)
                      +++||+||+....           .+..+........+.+ +|+++.+..+...        .+....+.+++|+.++++
T Consensus       119 ~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~  197 (234)
T PF01637_consen  119 KVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS-IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAR  197 (234)
T ss_dssp             CEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE-EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHH
T ss_pred             cEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce-EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHH
Confidence            5899999985444           1222333333333444 5555555555433        122346999999999999


Q ss_pred             HHHHHhhcCCCCCCchHHHHHHHHHHHhCCCceeeh
Q 012324           63 ELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALK   98 (466)
Q Consensus        63 ~Lf~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~   98 (466)
                      +++...+-..... +......++|...+||.|..+.
T Consensus       198 ~~~~~~~~~~~~~-~~~~~~~~~i~~~~gG~P~~l~  232 (234)
T PF01637_consen  198 EFLKELFKELIKL-PFSDEDIEEIYSLTGGNPRYLQ  232 (234)
T ss_dssp             HHHHHHHHCC-------HHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHhhcc-cCCHHHHHHHHHHhCCCHHHHh
Confidence            9999876333111 1235566899999999996543

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=95.40  E-value=0.034  Score=52.58  Aligned_cols=154  Identities=17%  Similarity=0.102  Sum_probs=88.4

Q ss_pred             CcEEEEEeCChhhHhhc--CcceEEEccCCChhhHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCceeehhhhhhccc
Q 012324           29 VSRIIITTRNKQVLRNW--GVRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYE  106 (466)
Q Consensus        29 gs~IlvTTR~~~v~~~~--~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~  106 (466)
                      .+-|..||+...+....  .....+++++++.+|..+++.+.+......  -..+.+..|++.|+|.|-.+..+...+  
T Consensus       130 ~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~--~~~~al~~ia~~~~G~pR~~~~ll~~~--  205 (305)
T TIGR00635       130 FTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVE--IEPEAALEIARRSRGTPRIANRLLRRV--  205 (305)
T ss_pred             eEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCC--cCHHHHHHHHHHhCCCcchHHHHHHHH--
Confidence            45556677765443321  113478999999999999999887532221  225567889999999996654444322  


Q ss_pred             CCHHHHHHHHHH----HHhccchhHHHHHHHHHhcCchhhhhhhc-eeeccCCC-ccHHHHHHHHHhcCCCccchhh-hh
Q 012324          107 REKEVSESAINK----LQRILHPSILEVLKISYDSLDNKEKNIFL-DVACFFQG-EDVNLVMKFLNASGFYPEIGIS-VL  179 (466)
Q Consensus       107 ~~~~~w~~~~~~----l~~~~~~~~~~~l~~sy~~L~~~~~~~~~-~~~~fp~~-~~~~~l~~~~~~~~~~~~~~~~-~L  179 (466)
                           |..+...    +....-......+...|..++.+.+..+. ....++.+ ..+..+...+..........++ .|
T Consensus       206 -----~~~a~~~~~~~it~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~L  280 (305)
T TIGR00635       206 -----RDFAQVRGQKIINRDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYL  280 (305)
T ss_pred             -----HHHHHHcCCCCcCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHH
Confidence                 1111000    00000012222245567778777766665 44555443 5566666666554444455466 69


Q ss_pred             hcccceEEcCCC
Q 012324          180 VDKSLIAIGSYN  191 (466)
Q Consensus       180 ~~~sl~~~~~~~  191 (466)
                      +++++++....+
T Consensus       281 i~~~li~~~~~g  292 (305)
T TIGR00635       281 LQIGFLQRTPRG  292 (305)
T ss_pred             HHcCCcccCCch
Confidence            999999755433

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

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.38  E-value=0.0063  Score=55.06  Aligned_cols=113  Identities=26%  Similarity=0.278  Sum_probs=70.3

Q ss_pred             CcccEEeecCccCc---ccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCC-CCcccCCCCCCcE
Q 012324          310 GNVCWLFLRGTAIE---ELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQR-LPECLGQLSSPII  385 (466)
Q Consensus       310 ~~l~~L~l~~~~i~---~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~-~p~~l~~l~~L~~  385 (466)
                      ..++.|++.+|.|+   ++..-+.++++|++|+++.|.....+...=..+.+|+.|-+.|..+... .-..+..+++++.
T Consensus        71 ~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vte  150 (418)
T KOG2982|consen   71 TDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTE  150 (418)
T ss_pred             hhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhh
Confidence            45688999998887   4455567889999999998875444322113567888888877554332 2234566778888


Q ss_pred             EEccCCCcccc--ch-----------hhhccCCCcEeecccCcCCCcCCC
Q 012324          386 LNLAKTNIERI--PE-----------SIIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       386 L~l~~~~l~~l--p~-----------~l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                      |.++.|+++.+  -.           .+..++++..++.+-|+..+..|.
T Consensus       151 lHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpn  200 (418)
T KOG2982|consen  151 LHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPN  200 (418)
T ss_pred             hhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhccc
Confidence            88887765411  11           123344555555555565666665

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

Probab=95.31  E-value=0.0078  Score=31.78  Aligned_cols=19  Identities=32%  Similarity=0.431  Sum_probs=9.8

Q ss_pred             CcEEEccCCCccccchhhh
Q 012324          383 PIILNLAKTNIERIPESII  401 (466)
Q Consensus       383 L~~L~l~~~~l~~lp~~l~  401 (466)
                      |+.|++++|+++.+|.+|+
T Consensus         2 L~~Ldls~n~l~~ip~~~~   20 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFS   20 (22)
T ss_dssp             ESEEEETSSEESEEGTTTT
T ss_pred             ccEEECCCCcCEeCChhhc
Confidence            4555555555555554443

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 ....

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

Probab=95.06  E-value=0.3  Score=45.15  Aligned_cols=103  Identities=14%  Similarity=0.198  Sum_probs=64.3

Q ss_pred             CeEEEEEeCCCChH--hHHHHHhcCC---CCCCCcEEEEEeCChhhHhhcC----------cceEEEccCCChhhHHHHH
Q 012324            1 MKVLIVFDDVTCFS--QLESIIRSLD---WLTPVSRIIITTRNKQVLRNWG----------VRKIYEIEALENHHALELF   65 (466)
Q Consensus         1 kr~LlvlDd~~~~~--~~~~l~~~~~---~~~~gs~IlvTTR~~~v~~~~~----------~~~~~~l~~L~~~~~~~Lf   65 (466)
                      ++.++|+||++...  .++.+.....   +......|++|... +......          ....+++++++.+|..+++
T Consensus       123 ~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~-~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l  201 (269)
T TIGR03015       123 KRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQP-EFRETLQSPQLQQLRQRIIASCHLGPLDREETREYI  201 (269)
T ss_pred             CCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCH-HHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHH
Confidence            46799999998754  4555543211   11122234555443 3221111          1246889999999999998


Q ss_pred             HHhhcCCC-C-CCchHHHHHHHHHHHhCCCceeehhhhhhc
Q 012324           66 SRHAFKRN-H-PDVGYEKLSSKVMKYAQGVPLALKVLGCFL  104 (466)
Q Consensus        66 ~~~~~~~~-~-~~~~~~~~~~~i~~~c~glPlai~~~~~~l  104 (466)
                      ........ . ...-..+..+.|++.++|.|..|..++..+
T Consensus       202 ~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       202 EHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            87763211 1 112235788899999999999998888665

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

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

Probab=94.88  E-value=0.13  Score=41.31  Aligned_cols=37  Identities=14%  Similarity=0.093  Sum_probs=13.3

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCC
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSG  297 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~  297 (466)
                      |.++++|+.+.+... ....-...+..+.+|+.+.+..
T Consensus         8 F~~~~~l~~i~~~~~-~~~I~~~~F~~~~~l~~i~~~~   44 (129)
T PF13306_consen    8 FYNCSNLESITFPNT-IKKIGENAFSNCTSLKSINFPN   44 (129)
T ss_dssp             TTT-TT--EEEETST---EE-TTTTTT-TT-SEEEESS
T ss_pred             HhCCCCCCEEEECCC-eeEeChhhcccccccccccccc
Confidence            455555666555432 2222222344444555555543

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

Probab=94.71  E-value=0.014  Score=30.73  Aligned_cols=17  Identities=35%  Similarity=0.587  Sum_probs=7.3

Q ss_pred             cEEeecCccCcccChhh
Q 012324          313 CWLFLRGTAIEELPSSI  329 (466)
Q Consensus       313 ~~L~l~~~~i~~lp~~l  329 (466)
                      ++|++++|+++.+|+++
T Consensus         3 ~~Ldls~n~l~~ip~~~   19 (22)
T PF00560_consen    3 EYLDLSGNNLTSIPSSF   19 (22)
T ss_dssp             SEEEETSSEESEEGTTT
T ss_pred             cEEECCCCcCEeCChhh
Confidence            33444444444444443

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

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

Probab=94.33  E-value=0.15  Score=41.02  Aligned_cols=96  Identities=14%  Similarity=0.200  Sum_probs=40.2

Q ss_pred             hhccCCCCeeeccccccccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCC
Q 012324          329 IDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVL  406 (466)
Q Consensus       329 l~~l~~L~~L~l~~~~~~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L  406 (466)
                      +..+++|+.+.+..+  ...++ ..+..+++|+.+.+.+ .....-...+..+++|+.+.+..+ +..++. .+.+. +|
T Consensus        31 F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~~~~-~~~i~~~~f~~~-~l  105 (129)
T PF13306_consen   31 FSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNIDIPSN-ITEIGSSSFSNC-NL  105 (129)
T ss_dssp             TTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEEETTT--BEEHTTTTTT--T-
T ss_pred             ccccccccccccccc--ccccceeeeecccccccccccc-cccccccccccccccccccccCcc-ccEEchhhhcCC-Cc
Confidence            555666777776652  33333 3355666777777754 332222345666777777777654 554443 45555 77


Q ss_pred             cEeecccCcCCCcCCCCeEeccCCCCc
Q 012324          407 RYLLLSYSERFQSLPKPLFLARGCLAL  433 (466)
Q Consensus       407 ~~L~l~~~~~~~~~p~~~~~l~~~~~L  433 (466)
                      +.+.+..+  ...++...  ..+|++|
T Consensus       106 ~~i~~~~~--~~~i~~~~--F~~~~~l  128 (129)
T PF13306_consen  106 KEINIPSN--ITKIEENA--FKNCTKL  128 (129)
T ss_dssp             -EEE-TTB---SS----G--GG-----
T ss_pred             eEEEECCC--ccEECCcc--ccccccC
Confidence            77766542  33444332  2355444

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

Probab=93.50  E-value=0.051  Score=26.54  Aligned_cols=13  Identities=15%  Similarity=0.261  Sum_probs=4.2

Q ss_pred             CcEEEccCCCccc
Q 012324          383 PIILNLAKTNIER  395 (466)
Q Consensus       383 L~~L~l~~~~l~~  395 (466)
                      |+.|++++|+++.
T Consensus         3 L~~L~l~~n~L~~   15 (17)
T PF13504_consen    3 LRTLDLSNNRLTS   15 (17)
T ss_dssp             -SEEEETSS--SS
T ss_pred             cCEEECCCCCCCC
Confidence            4444444444433

...

>COG3903 Predicted ATPase [General function prediction only]

Probab=93.33  E-value=0.03  Score=53.28  Aligned_cols=204  Identities=19%  Similarity=0.228  Sum_probs=128.7

Q ss_pred             CeEEEEEeCCCChHh-HHHHHhcCCCCCCCcEEEEEeCChhhHhhcCcceEEEccCCChh-hHHHHHHHhhcCCC---CC
Q 012324            1 MKVLIVFDDVTCFSQ-LESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENH-HALELFSRHAFKRN---HP   75 (466)
Q Consensus         1 kr~LlvlDd~~~~~~-~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~~~~~~~~l~~L~~~-~~~~Lf~~~~~~~~---~~   75 (466)
                      +|.++|+||.-..-+ ...+.-.+-.+...-.|+.|+|+...   ........++.|+.- ++.++|.-.+....   ..
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l  164 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWL  164 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccceee
Confidence            356778887754332 22222222223444568888887743   344567888888776 78899877663211   11


Q ss_pred             CchHHHHHHHHHHHhCCCceeehhhhhhcccCCHHHHHHHHHH----HHhc------cchhHHHHHHHHHhcCchhhhhh
Q 012324           76 DVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINK----LQRI------LHPSILEVLKISYDSLDNKEKNI  145 (466)
Q Consensus        76 ~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~~----l~~~------~~~~~~~~l~~sy~~L~~~~~~~  145 (466)
                      ...-...+.+|.++.+|.|++|...++..++......-..++.    ++..      ........+.+||.-|+.-.+..
T Consensus       165 ~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe~~~  244 (414)
T COG3903         165 TDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWERAL  244 (414)
T ss_pred             cCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHHHHH
Confidence            2233567788999999999999999988887543332222221    2222      13556788999999999999999


Q ss_pred             hceeeccCCCccHHHHHHHHHhcCCCc--cch-----hhhhhcccceEEcC---CCeEEecHHHHHHHHHHHhh
Q 012324          146 FLDVACFFQGEDVNLVMKFLNASGFYP--EIG-----ISVLVDKSLIAIGS---YNKIRMHDLLQELGREIVRQ  209 (466)
Q Consensus       146 ~~~~~~fp~~~~~~~l~~~~~~~~~~~--~~~-----~~~L~~~sl~~~~~---~~~~~~hdlv~~~~~~~~~~  209 (466)
                      |.-++.|...|+..  ...|.+.|-..  ..+     +-.+++++++....   ...|+.-+.+|.|+.....+
T Consensus       245 ~~rLa~~~g~f~~~--l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r  316 (414)
T COG3903         245 FGRLAVFVGGFDLG--LALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHR  316 (414)
T ss_pred             hcchhhhhhhhccc--HHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            99999998887766  33444444332  222     55667777776442   23567777777777655543

>PRK09087 hypothetical protein; Validated

Probab=93.32  E-value=0.36  Score=43.28  Aligned_cols=91  Identities=11%  Similarity=0.119  Sum_probs=58.3

Q ss_pred             EEEEeCCCC----hHhHHHHHhcCCCCCCCcEEEEEeCC---------hhhHhhcCcceEEEccCCChhhHHHHHHHhhc
Q 012324            4 LIVFDDVTC----FSQLESIIRSLDWLTPVSRIIITTRN---------KQVLRNWGVRKIYEIEALENHHALELFSRHAF   70 (466)
Q Consensus         4 LlvlDd~~~----~~~~~~l~~~~~~~~~gs~IlvTTR~---------~~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~   70 (466)
                      ++++||+..    .+++-.+.....  ..|..||+|++.         ++....+....+++++++++++-..++++.+-
T Consensus        90 ~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~  167 (226)
T PRK09087         90 PVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFA  167 (226)
T ss_pred             eEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHH
Confidence            688999943    233333333333  346678988873         44555566778999999999999999998874


Q ss_pred             CCCCCCchHHHHHHHHHHHhCCCceeeh
Q 012324           71 KRNHPDVGYEKLSSKVMKYAQGVPLALK   98 (466)
Q Consensus        71 ~~~~~~~~~~~~~~~i~~~c~glPlai~   98 (466)
                      ...-  .-.+++..-|++.+.|-.-++.
T Consensus       168 ~~~~--~l~~ev~~~La~~~~r~~~~l~  193 (226)
T PRK09087        168 DRQL--YVDPHVVYYLVSRMERSLFAAQ  193 (226)
T ss_pred             HcCC--CCCHHHHHHHHHHhhhhHHHHH
Confidence            3211  1125566667777766554433

>COG3899 Predicted ATPase [General function prediction only]

Probab=91.97  E-value=0.59  Score=50.55  Aligned_cols=118  Identities=14%  Similarity=0.170  Sum_probs=87.4

Q ss_pred             cceEEEccCCChhhHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCceeehhhhhhcccC-------CHHHHHHHHHHH
Q 012324           47 VRKIYEIEALENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYER-------EKEVSESAINKL  119 (466)
Q Consensus        47 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~-------~~~~w~~~~~~l  119 (466)
                      ....+.+.+|+..+...+..........   ...+....|++|-.|.|+-+..+-..+...       +...|+.-...+
T Consensus       210 ~i~~I~L~PL~~~d~~~lV~~~l~~~~~---~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i  286 (849)
T COG3899         210 NITTITLAPLSRADTNQLVAATLGCTKL---LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASL  286 (849)
T ss_pred             ceeEEecCcCchhhHHHHHHHHhCCccc---ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhc
Confidence            3468999999999999999887633222   235567889999999999998887777652       355566555444


Q ss_pred             Hhcc-chhHHHHHHHHHhcCchhhhhhhceeeccCCCccHHHHHHHHHh
Q 012324          120 QRIL-HPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNA  167 (466)
Q Consensus       120 ~~~~-~~~~~~~l~~sy~~L~~~~~~~~~~~~~fp~~~~~~~l~~~~~~  167 (466)
                      .... .+.+...+..-.+.||...+......|++...++.+-+...+..
T Consensus       287 ~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~AA~iG~~F~l~~La~l~~~  335 (849)
T COG3899         287 GILATTDAVVEFLAARLQKLPGTTREVLKAAACIGNRFDLDTLAALAED  335 (849)
T ss_pred             CCchhhHHHHHHHHHHHhcCCHHHHHHHHHHHHhCccCCHHHHHHHHhh
Confidence            3332 23356678889999999999999999999988887766665543

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=91.80  E-value=0.43  Score=42.74  Aligned_cols=95  Identities=14%  Similarity=0.245  Sum_probs=54.3

Q ss_pred             EEEEeCCCChH---hH-HHHHhcCCC-CCCCcEEEEEeCChh---------hHhhcCcceEEEccCCChhhHHHHHHHhh
Q 012324            4 LIVFDDVTCFS---QL-ESIIRSLDW-LTPVSRIIITTRNKQ---------VLRNWGVRKIYEIEALENHHALELFSRHA   69 (466)
Q Consensus         4 LlvlDd~~~~~---~~-~~l~~~~~~-~~~gs~IlvTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~   69 (466)
                      +|||||+....   +| +.+...+.. ...+.+||+||+...         +...+.....++++++++++...++.+.+
T Consensus        93 lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~  172 (226)
T TIGR03420        93 LVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRA  172 (226)
T ss_pred             EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHH
Confidence            78999997543   23 233332221 123347888887532         22223334689999999999999987755


Q ss_pred             cCCCCCCchHHHHHHHHHHHhCCCceeehhh
Q 012324           70 FKRNHPDVGYEKLSSKVMKYAQGVPLALKVL  100 (466)
Q Consensus        70 ~~~~~~~~~~~~~~~~i~~~c~glPlai~~~  100 (466)
                      -.....  -..+..+.+++.+.|.|..+..+
T Consensus       173 ~~~~~~--~~~~~l~~L~~~~~gn~r~L~~~  201 (226)
T TIGR03420       173 ARRGLQ--LPDEVADYLLRHGSRDMGSLMAL  201 (226)
T ss_pred             HHcCCC--CCHHHHHHHHHhccCCHHHHHHH
Confidence            221111  12344566666677776554433

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

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

Probab=91.41  E-value=0.037  Score=55.92  Aligned_cols=126  Identities=27%  Similarity=0.263  Sum_probs=59.0

Q ss_pred             cCcccCEEecCCCCCCCcc---CC-CCCCcccEEeecCc--cCccc----ChhhhccCCCCeeeccccccccc-cccccC
Q 012324          286 NLEFLTKLDLSGCSKLKRL---PE-ISSGNVCWLFLRGT--AIEEL----PSSIDRLRRLGYLNLSDCKRLKS-LPSSLC  354 (466)
Q Consensus       286 ~l~~L~~L~l~~~~~~~~~---~~-~~~~~l~~L~l~~~--~i~~l----p~~l~~l~~L~~L~l~~~~~~~~-~p~~~~  354 (466)
                      .+++|+.|.+.+|......   +. .....++.|+++++  .+...    ......+.+|+.|++.++...+. .-..+.
T Consensus       186 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~  265 (482)
T KOG1947|consen  186 SCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALA  265 (482)
T ss_pred             hCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHH
Confidence            4688888888887655431   21 22345666666652  11111    12234456666666666552221 111122


Q ss_pred             -CCCCCCEEEecCCCC-CCCC-CcccCCCCCCcEEEccCCCcc---ccchhhhccCCCcEeec
Q 012324          355 -KLKSLKVLNLCGCSN-LQRL-PECLGQLSSPIILNLAKTNIE---RIPESIIQLFVLRYLLL  411 (466)
Q Consensus       355 -~l~~L~~L~l~~~~~-~~~~-p~~l~~l~~L~~L~l~~~~l~---~lp~~l~~l~~L~~L~l  411 (466)
                       .+++|+.|.+.+|.. +... -.....+++|++|+++.+...   .+.....++++|+.|.+
T Consensus       266 ~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~  328 (482)
T KOG1947|consen  266 SRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKL  328 (482)
T ss_pred             hhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhh
Confidence             255666666555542 2211 112234555666666644432   23223333444554443

>PRK08727 hypothetical protein; Validated

Probab=91.27  E-value=0.73  Score=41.55  Aligned_cols=90  Identities=10%  Similarity=0.056  Sum_probs=53.2

Q ss_pred             EEEEEeCCCCh---HhHHHH-HhcCCC-CCCCcEEEEEeCCh---------hhHhhcCcceEEEccCCChhhHHHHHHHh
Q 012324            3 VLIVFDDVTCF---SQLESI-IRSLDW-LTPVSRIIITTRNK---------QVLRNWGVRKIYEIEALENHHALELFSRH   68 (466)
Q Consensus         3 ~LlvlDd~~~~---~~~~~l-~~~~~~-~~~gs~IlvTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~   68 (466)
                      -+|||||+...   .+|... ...+.. ...|..||+||+..         ++.+.+....+++++++++++-.++++++
T Consensus        95 dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~  174 (233)
T PRK08727         95 SLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRER  174 (233)
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHH
Confidence            37999998633   223322 221111 12455699999843         22333334568999999999999999987


Q ss_pred             hcCCCCCCchHHHHHHHHHHHhCCCc
Q 012324           69 AFKRNHPDVGYEKLSSKVMKYAQGVP   94 (466)
Q Consensus        69 ~~~~~~~~~~~~~~~~~i~~~c~glP   94 (466)
                      +....-  .-..+...-|++.++|-.
T Consensus       175 a~~~~l--~l~~e~~~~La~~~~rd~  198 (233)
T PRK08727        175 AQRRGL--ALDEAAIDWLLTHGEREL  198 (233)
T ss_pred             HHHcCC--CCCHHHHHHHHHhCCCCH
Confidence            743221  112445566666666443

>PF13173 AAA_14: AAA domain

Probab=90.77  E-value=0.39  Score=38.68  Aligned_cols=60  Identities=22%  Similarity=0.216  Sum_probs=46.0

Q ss_pred             eEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhhc------CcceEEEccCCChhhH
Q 012324            2 KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNW------GVRKIYEIEALENHHA   61 (466)
Q Consensus         2 r~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~------~~~~~~~l~~L~~~~~   61 (466)
                      +.+++||++....+|......+.+..+..+|++|+.+.......      +-...++|.+|+-.|.
T Consensus        62 ~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   62 KKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            46899999999888888887777666678999999988766331      1224789999987763

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=90.58  E-value=2.2  Score=36.90  Aligned_cols=87  Identities=16%  Similarity=0.305  Sum_probs=61.2

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCCh-hhHhhc-CcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+|++...  +..+.+...+.+....+.+|++|++. .+.... .....+++.+++.++..+.+.+.   +  .+ 
T Consensus        97 ~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~---g--i~-  170 (188)
T TIGR00678        97 RRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ---G--IS-  170 (188)
T ss_pred             eEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc---C--CC-
Confidence            347899998643  35778888877666677777777654 222211 22358999999999999888876   1  22 


Q ss_pred             hHHHHHHHHHHHhCCCcee
Q 012324           78 GYEKLSSKVMKYAQGVPLA   96 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPla   96 (466)
                        ++.+..|++.++|.|..
T Consensus       171 --~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       171 --EEAAELLLALAGGSPGA  187 (188)
T ss_pred             --HHHHHHHHHHcCCCccc
Confidence              45688899999998853

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK06620 hypothetical protein; Validated

Probab=89.99  E-value=1.9  Score=38.30  Aligned_cols=84  Identities=8%  Similarity=0.102  Sum_probs=50.6

Q ss_pred             EEEEeCCCChH--hHHHHHhcCCCCCCCcEEEEEeCCh-------hhHhhcCcceEEEccCCChhhHHHHHHHhhcCC-C
Q 012324            4 LIVFDDVTCFS--QLESIIRSLDWLTPVSRIIITTRNK-------QVLRNWGVRKIYEIEALENHHALELFSRHAFKR-N   73 (466)
Q Consensus         4 LlvlDd~~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~-------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~-~   73 (466)
                      ++++||+....  ..-.+...+.  ..|..||+|++..       +..+.+...-+++++++++++-..++++.+-.. -
T Consensus        88 ~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l  165 (214)
T PRK06620         88 AFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISSV  165 (214)
T ss_pred             EEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcCC
Confidence            68899996432  2222322222  3466789988754       233334555689999999999888888776321 1


Q ss_pred             CCCchHHHHHHHHHHHhCC
Q 012324           74 HPDVGYEKLSSKVMKYAQG   92 (466)
Q Consensus        74 ~~~~~~~~~~~~i~~~c~g   92 (466)
                      ..+   +++..-|++.+.|
T Consensus       166 ~l~---~ev~~~L~~~~~~  181 (214)
T PRK06620        166 TIS---RQIIDFLLVNLPR  181 (214)
T ss_pred             CCC---HHHHHHHHHHccC
Confidence            112   4555556665544

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=89.91  E-value=1.7  Score=41.20  Aligned_cols=89  Identities=12%  Similarity=0.221  Sum_probs=62.1

Q ss_pred             EEEEeCC--CChHhHHHHHhcCCCCCCCcEEEEEeCChhhH-hh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCchH
Q 012324            4 LIVFDDV--TCFSQLESIIRSLDWLTPVSRIIITTRNKQVL-RN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDVGY   79 (466)
Q Consensus         4 LlvlDd~--~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~-~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~   79 (466)
                      ++|+|++  .+.+.++.++..+.+-..++.+|++|.+.+.. .. ..-...++++++++++....+.+.. .  ..+   
T Consensus        96 v~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~-~--~~~---  169 (313)
T PRK05564         96 VIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYKY-N--DIK---  169 (313)
T ss_pred             EEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHHh-c--CCC---
Confidence            4555554  56667999999998888899999998766422 11 1223689999999999988776653 1  111   


Q ss_pred             HHHHHHHHHHhCCCceeeh
Q 012324           80 EKLSSKVMKYAQGVPLALK   98 (466)
Q Consensus        80 ~~~~~~i~~~c~glPlai~   98 (466)
                      .+.+++++..++|.|..+.
T Consensus       170 ~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        170 EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             HHHHHHHHHHcCCCHHHHH
Confidence            3446778899999886543

>PRK08084 DNA replication initiation factor; Provisional

Probab=89.83  E-value=1.2  Score=40.21  Aligned_cols=89  Identities=19%  Similarity=0.279  Sum_probs=54.0

Q ss_pred             EEEEeCCCCh---HhHHHHH-hcCCC-CCCC-cEEEEEeCCh---------hhHhhcCcceEEEccCCChhhHHHHHHHh
Q 012324            4 LIVFDDVTCF---SQLESII-RSLDW-LTPV-SRIIITTRNK---------QVLRNWGVRKIYEIEALENHHALELFSRH   68 (466)
Q Consensus         4 LlvlDd~~~~---~~~~~l~-~~~~~-~~~g-s~IlvTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~~   68 (466)
                      +++|||+...   .+|+... ..+.. ...| .++|+||+..         ++.+.+....+++++++++++-.++++++
T Consensus       100 lliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~  179 (235)
T PRK08084        100 LVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLR  179 (235)
T ss_pred             EEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHH
Confidence            7899999542   3344322 11111 1233 3688888754         44455566679999999999999999886


Q ss_pred             hcCCCCCCchHHHHHHHHHHHhCCCc
Q 012324           69 AFKRNHPDVGYEKLSSKVMKYAQGVP   94 (466)
Q Consensus        69 ~~~~~~~~~~~~~~~~~i~~~c~glP   94 (466)
                      +....-  .-.+++..-|++.+.|-.
T Consensus       180 a~~~~~--~l~~~v~~~L~~~~~~d~  203 (235)
T PRK08084        180 ARLRGF--ELPEDVGRFLLKRLDREM  203 (235)
T ss_pred             HHHcCC--CCCHHHHHHHHHhhcCCH
Confidence            643221  122455666766666543

>smart00370 LRR Leucine-rich repeats, outliers

Probab=89.39  E-value=0.35  Score=26.48  Aligned_cols=20  Identities=20%  Similarity=0.406  Sum_probs=13.3

Q ss_pred             CCCCcEEEccCCCccccchh
Q 012324          380 LSSPIILNLAKTNIERIPES  399 (466)
Q Consensus       380 l~~L~~L~l~~~~l~~lp~~  399 (466)
                      +++|+.|++++|.++.+|..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            35667777777777776654

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

Probab=89.39  E-value=0.35  Score=26.48  Aligned_cols=20  Identities=20%  Similarity=0.406  Sum_probs=13.3

Q ss_pred             CCCCcEEEccCCCccccchh
Q 012324          380 LSSPIILNLAKTNIERIPES  399 (466)
Q Consensus       380 l~~L~~L~l~~~~l~~lp~~  399 (466)
                      +++|+.|++++|.++.+|..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            35667777777777776654

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

Probab=88.71  E-value=0.096  Score=52.85  Aligned_cols=156  Identities=26%  Similarity=0.324  Sum_probs=82.4

Q ss_pred             CCCCcEEEcCCCCCCcc--cCcccccCcccCEEecCCC-CCCCccC------CCCCCcccEEeecCcc-Cccc-Chhh-h
Q 012324          263 LNNLVILNLRSGKSLKS--LPSGIFNLEFLTKLDLSGC-SKLKRLP------EISSGNVCWLFLRGTA-IEEL-PSSI-D  330 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~--~~~~l~~l~~L~~L~l~~~-~~~~~~~------~~~~~~l~~L~l~~~~-i~~l-p~~l-~  330 (466)
                      ++.|+.+.+.++.....  +-.....+++|+.|++++| ......+      .....+++.|+++++. ++.. -..+ .
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            45666666665543332  2233445666777776662 2222111      1122355666666655 4422 1222 3


Q ss_pred             ccCCCCeeecccccc-ccc-cccccCCCCCCCEEEecCCCCCCC--CCcccCCCCCCcEEEccCCC----cccc-chhhh
Q 012324          331 RLRRLGYLNLSDCKR-LKS-LPSSLCKLKSLKVLNLCGCSNLQR--LPECLGQLSSPIILNLAKTN----IERI-PESII  401 (466)
Q Consensus       331 ~l~~L~~L~l~~~~~-~~~-~p~~~~~l~~L~~L~l~~~~~~~~--~p~~l~~l~~L~~L~l~~~~----l~~l-p~~l~  401 (466)
                      .+++|++|.+.+|.. ... +-.....+++|++|++++|.....  +.....++++|+.|.+....    ++.. -..+.
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~~~~~c~~l~~~~l~~~~  346 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLLSLNGCPSLTDLSLSGLL  346 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhhhcCCCccHHHHHHHHhh
Confidence            478999999888763 222 122235688899999999877532  23334557777776654332    2211 01122


Q ss_pred             ccC--CCcEeecccCcCCC
Q 012324          402 QLF--VLRYLLLSYSERFQ  418 (466)
Q Consensus       402 ~l~--~L~~L~l~~~~~~~  418 (466)
                      ...  .+..+.+.+|+.++
T Consensus       347 ~~~~d~~~~~~~~~~~~l~  365 (482)
T KOG1947|consen  347 TLTSDDLAELILRSCPKLT  365 (482)
T ss_pred             ccCchhHhHHHHhcCCCcc
Confidence            222  56677777776543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=87.94  E-value=6.9  Score=37.89  Aligned_cols=92  Identities=9%  Similarity=0.122  Sum_probs=61.4

Q ss_pred             EEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChhh-Hhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCch
Q 012324            3 VLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQV-LRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDVG   78 (466)
Q Consensus         3 ~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~v-~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~   78 (466)
                      -++|+||+...  ...+.|...+.+-..++.+|++|.+.+. ... ..-...+.+.+++.++..+.+......   ..  
T Consensus       143 kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~--  217 (365)
T PRK07471        143 RVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LP--  217 (365)
T ss_pred             EEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CC--
Confidence            47899998644  3467777776655566777777776642 211 222468999999999999999875411   11  


Q ss_pred             HHHHHHHHHHHhCCCceeehhh
Q 012324           79 YEKLSSKVMKYAQGVPLALKVL  100 (466)
Q Consensus        79 ~~~~~~~i~~~c~glPlai~~~  100 (466)
                       .+....+++.++|.|.....+
T Consensus       218 -~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        218 -DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             -HHHHHHHHHHcCCCHHHHHHH
Confidence             122267889999999865444

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

Probab=87.69  E-value=0.25  Score=47.17  Aligned_cols=105  Identities=18%  Similarity=0.167  Sum_probs=60.3

Q ss_pred             hccCCCCeeeccccccccc--cccccCCCCCCCEEEecCCCCCCCC-----CcccCCCCCCcEEEccCCCcc--ccchhh
Q 012324          330 DRLRRLGYLNLSDCKRLKS--LPSSLCKLKSLKVLNLCGCSNLQRL-----PECLGQLSSPIILNLAKTNIE--RIPESI  400 (466)
Q Consensus       330 ~~l~~L~~L~l~~~~~~~~--~p~~~~~l~~L~~L~l~~~~~~~~~-----p~~l~~l~~L~~L~l~~~~l~--~lp~~l  400 (466)
                      .+.++|+.+++..|.....  +..--.+++.|+.+.+++|......     ...-..+..|+.+.+.++...  ...+.+
T Consensus       343 rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l  422 (483)
T KOG4341|consen  343 RNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHL  422 (483)
T ss_pred             cCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHH
Confidence            3566777777776643322  2222346677888877777654322     223344567777777777665  344556


Q ss_pred             hccCCCcEeecccCcCCCcCCCCeEeccCCCCccc
Q 012324          401 IQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEP  435 (466)
Q Consensus       401 ~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~  435 (466)
                      ...++|+.+++-.|.....-|..-+ -.+|++++.
T Consensus       423 ~~c~~Leri~l~~~q~vtk~~i~~~-~~~lp~i~v  456 (483)
T KOG4341|consen  423 SICRNLERIELIDCQDVTKEAISRF-ATHLPNIKV  456 (483)
T ss_pred             hhCcccceeeeechhhhhhhhhHHH-HhhCcccee
Confidence            6777888887777754433332211 235555554

>PRK05642 DNA replication initiation factor; Validated

Probab=87.67  E-value=2.1  Score=38.61  Aligned_cols=89  Identities=10%  Similarity=0.243  Sum_probs=52.6

Q ss_pred             EEEEeCCCCh---HhHHH-HHhcCCC-CCCCcEEEEEeCChh---------hHhhcCcceEEEccCCChhhHHHHHHHhh
Q 012324            4 LIVFDDVTCF---SQLES-IIRSLDW-LTPVSRIIITTRNKQ---------VLRNWGVRKIYEIEALENHHALELFSRHA   69 (466)
Q Consensus         4 LlvlDd~~~~---~~~~~-l~~~~~~-~~~gs~IlvTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~Lf~~~~   69 (466)
                      ++|+||+...   .+|+. +...+.. ...|..||+||+...         +.+.+....+++++++++++-..++++++
T Consensus       100 ~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka  179 (234)
T PRK05642        100 LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRA  179 (234)
T ss_pred             EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHH
Confidence            6889999532   24443 3333211 134667888887542         12223345689999999999999998766


Q ss_pred             cCCCCCCchHHHHHHHHHHHhCCCc
Q 012324           70 FKRNHPDVGYEKLSSKVMKYAQGVP   94 (466)
Q Consensus        70 ~~~~~~~~~~~~~~~~i~~~c~glP   94 (466)
                      ....- . -.+++..-|++.+.|-.
T Consensus       180 ~~~~~-~-l~~ev~~~L~~~~~~d~  202 (234)
T PRK05642        180 SRRGL-H-LTDEVGHFILTRGTRSM  202 (234)
T ss_pred             HHcCC-C-CCHHHHHHHHHhcCCCH
Confidence            43211 1 11455666666665543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=86.26  E-value=2.9  Score=41.36  Aligned_cols=97  Identities=13%  Similarity=0.196  Sum_probs=59.4

Q ss_pred             CeEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEE--eCChhhH---hhcCcceEEEccCCChhhHHHHHHHhhcCC-
Q 012324            1 MKVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIIT--TRNKQVL---RNWGVRKIYEIEALENHHALELFSRHAFKR-   72 (466)
Q Consensus         1 kr~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvT--TR~~~v~---~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~-   72 (466)
                      ++.++++|+++..  .+.+.+...+.   .|..+++.  |.+....   ....-...+.+++++.++...++.+..... 
T Consensus        92 ~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~  168 (413)
T PRK13342         92 RRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALEDKE  168 (413)
T ss_pred             CceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHHHHhh
Confidence            3568999999854  35666666654   35555553  3433211   111223589999999999999998865321 


Q ss_pred             CCCCchHHHHHHHHHHHhCCCceeehhh
Q 012324           73 NHPDVGYEKLSSKVMKYAQGVPLALKVL  100 (466)
Q Consensus        73 ~~~~~~~~~~~~~i~~~c~glPlai~~~  100 (466)
                      .....-..+..+.|++.|+|-+..+..+
T Consensus       169 ~~~i~i~~~al~~l~~~s~Gd~R~aln~  196 (413)
T PRK13342        169 RGLVELDDEALDALARLANGDARRALNL  196 (413)
T ss_pred             cCCCCCCHHHHHHHHHhCCCCHHHHHHH
Confidence            1110122456777888999988665443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=85.04  E-value=5.9  Score=40.15  Aligned_cols=94  Identities=13%  Similarity=0.189  Sum_probs=63.1

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEE-EeCChhhHhhc-CcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIII-TTRNKQVLRNW-GVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~Ilv-TTR~~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+|+++..  ..++.|...+.+....+++|+ ||+...+.... .....+++++++.++..+.+.+.+-..+..  
T Consensus       129 ~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~--  206 (507)
T PRK06645        129 HKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLK--  206 (507)
T ss_pred             cEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCC--
Confidence            457899999864  458888877776556666655 44444544332 223579999999999999999887433221  


Q ss_pred             hHHHHHHHHHHHhCCCceee
Q 012324           78 GYEKLSSKVMKYAQGVPLAL   97 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai   97 (466)
                      -..+....|++.++|-+-.+
T Consensus       207 ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        207 TDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             CCHHHHHHHHHHcCCCHHHH
Confidence            12455677888898876443

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=84.28  E-value=14  Score=36.19  Aligned_cols=141  Identities=13%  Similarity=0.126  Sum_probs=73.1

Q ss_pred             eEEEEEeCCCChH------hHHHHHhcCCCCCCCcE--EEEEeCChhhHhhcC-------cceEEEccCCChhhHHHHHH
Q 012324            2 KVLIVFDDVTCFS------QLESIIRSLDWLTPVSR--IIITTRNKQVLRNWG-------VRKIYEIEALENHHALELFS   66 (466)
Q Consensus         2 r~LlvlDd~~~~~------~~~~l~~~~~~~~~gs~--IlvTTR~~~v~~~~~-------~~~~~~l~~L~~~~~~~Lf~   66 (466)
                      ..+||||+++...      .+..+...+.. ..+++  ||.++...++.....       ....+.+++++.++..+++.
T Consensus       139 ~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~  217 (394)
T PRK00411        139 VLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILK  217 (394)
T ss_pred             EEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHH
Confidence            4789999997632      24444433322 22333  566666654433221       12467999999999999998


Q ss_pred             HhhcC---CCCCC-chHHHHHHHHHHHhCCCceeehhhhhhc--c---cC---CHHHHHHHHHHHHhccchhHHHHHHHH
Q 012324           67 RHAFK---RNHPD-VGYEKLSSKVMKYAQGVPLALKVLGCFL--Y---ER---EKEVSESAINKLQRILHPSILEVLKIS  134 (466)
Q Consensus        67 ~~~~~---~~~~~-~~~~~~~~~i~~~c~glPlai~~~~~~l--~---~~---~~~~w~~~~~~l~~~~~~~~~~~l~~s  134 (466)
                      .++-.   ....+ ...+.+++......|..+.|+..+-...  +   +.   +.+....+.+.+.       .....-.
T Consensus       218 ~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~-------~~~~~~~  290 (394)
T PRK00411        218 DRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSE-------IVHLSEV  290 (394)
T ss_pred             HHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHH-------HHHHHHH
Confidence            87632   11222 2222233333232444666655443221  1   11   3344444444431       1233456


Q ss_pred             HhcCchhhhhhhceee
Q 012324          135 YDSLDNKEKNIFLDVA  150 (466)
Q Consensus       135 y~~L~~~~~~~~~~~~  150 (466)
                      +..||.+.|..+.-++
T Consensus       291 ~~~L~~~~k~~L~ai~  306 (394)
T PRK00411        291 LRTLPLHEKLLLRAIV  306 (394)
T ss_pred             HhcCCHHHHHHHHHHH
Confidence            7788887776655443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=84.03  E-value=6.4  Score=38.16  Aligned_cols=93  Identities=11%  Similarity=0.173  Sum_probs=62.0

Q ss_pred             EEEEEeCCCChH--hHHHHHhcCCCCCCCcEEEEEeCChh-hHhhc-CcceEEEccCCChhhHHHHHHHhhcCCCCCCch
Q 012324            3 VLIVFDDVTCFS--QLESIIRSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEIEALENHHALELFSRHAFKRNHPDVG   78 (466)
Q Consensus         3 ~LlvlDd~~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~   78 (466)
                      -++|+|++....  .++.+...+.+.....++|++|.+.+ +.... +-...+++++++.++..+.+.+.+-.....  -
T Consensus       121 kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~--i  198 (363)
T PRK14961        121 KVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESID--T  198 (363)
T ss_pred             eEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCC--C
Confidence            379999997554  47778877766566667777775542 32221 223589999999999999888766332211  1


Q ss_pred             HHHHHHHHHHHhCCCceee
Q 012324           79 YEKLSSKVMKYAQGVPLAL   97 (466)
Q Consensus        79 ~~~~~~~i~~~c~glPlai   97 (466)
                      ..+.+..|++.++|-|-.+
T Consensus       199 ~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        199 DEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             CHHHHHHHHHHcCCCHHHH
Confidence            2456677888899877543

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=83.87  E-value=2.5  Score=37.67  Aligned_cols=85  Identities=12%  Similarity=0.222  Sum_probs=47.6

Q ss_pred             EEEEeCCCChH---hHHH----HHhcCCCCCCCcEEEEEeCCh---------hhHhhcCcceEEEccCCChhhHHHHHHH
Q 012324            4 LIVFDDVTCFS---QLES----IIRSLDWLTPVSRIIITTRNK---------QVLRNWGVRKIYEIEALENHHALELFSR   67 (466)
Q Consensus         4 LlvlDd~~~~~---~~~~----l~~~~~~~~~gs~IlvTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~Lf~~   67 (466)
                      +++|||+....   .|..    +...+.  ..|.+||+|++..         +..+.+...-+++++++++++-..++.+
T Consensus       100 lL~iDDi~~l~~~~~~q~~lf~l~n~~~--~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~  177 (219)
T PF00308_consen  100 LLIIDDIQFLAGKQRTQEELFHLFNRLI--ESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQK  177 (219)
T ss_dssp             EEEEETGGGGTTHHHHHHHHHHHHHHHH--HTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHH
T ss_pred             EEEEecchhhcCchHHHHHHHHHHHHHH--hhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHH
Confidence            68999996432   2322    222222  3467899999544         2233344566999999999999999999


Q ss_pred             hhcCCCCCCchHHHHHHHHHHHhCC
Q 012324           68 HAFKRNHPDVGYEKLSSKVMKYAQG   92 (466)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~i~~~c~g   92 (466)
                      .+-...-.  -.++++.-|++.+.+
T Consensus       178 ~a~~~~~~--l~~~v~~~l~~~~~~  200 (219)
T PF00308_consen  178 KAKERGIE--LPEEVIEYLARRFRR  200 (219)
T ss_dssp             HHHHTT----S-HHHHHHHHHHTTS
T ss_pred             HHHHhCCC--CcHHHHHHHHHhhcC
Confidence            88432221  124555556665543

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=83.21  E-value=7  Score=39.68  Aligned_cols=94  Identities=11%  Similarity=0.157  Sum_probs=62.4

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCC-hhhHhhc-CcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRN-KQVLRNW-GVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~-~~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+|+++..  ..++.+...+.+......+|++|.+ ..+.... .....+++.+++.++..+.+.+.+-..+..  
T Consensus       117 ~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~--  194 (504)
T PRK14963        117 RKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGRE--  194 (504)
T ss_pred             CeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCC--
Confidence            347899998754  4578888777665555555555543 3433222 224589999999999999999877433221  


Q ss_pred             hHHHHHHHHHHHhCCCceee
Q 012324           78 GYEKLSSKVMKYAQGVPLAL   97 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai   97 (466)
                      -..+....|++.++|.+--+
T Consensus       195 i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        195 AEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             CCHHHHHHHHHHcCCCHHHH
Confidence            12456778889999877544

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=82.65  E-value=5.7  Score=38.26  Aligned_cols=96  Identities=9%  Similarity=0.161  Sum_probs=60.9

Q ss_pred             eEEEEEeCCCChH--hHHHHHhcCCCCCCCcEEEEEeCCh-hhHhhc-CcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCFS--QLESIIRSLDWLTPVSRIIITTRNK-QVLRNW-GVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~-~v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+|++....  ..+.|+..+.+-.....+|++|... .+.... .-...+++.+++.++..+.+.+.... ..   
T Consensus       142 ~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~-~~---  217 (351)
T PRK09112        142 WRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS-QG---  217 (351)
T ss_pred             ceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc-cC---
Confidence            3478999987543  4666766665544555555555444 222111 12358999999999999999874321 11   


Q ss_pred             hHHHHHHHHHHHhCCCceeehhhh
Q 012324           78 GYEKLSSKVMKYAQGVPLALKVLG  101 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~~~~  101 (466)
                      -..+.+..+++.++|.|.....+.
T Consensus       218 ~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        218 SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            113446788999999998655443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=82.05  E-value=9.8  Score=36.64  Aligned_cols=95  Identities=11%  Similarity=0.133  Sum_probs=61.8

Q ss_pred             EEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChh-hHhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCch
Q 012324            3 VLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQ-VLRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDVG   78 (466)
Q Consensus         3 ~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~   78 (466)
                      =++|+|++...  ...+.+...+.+....+.+|++|.+.+ +... ......+++++++.++..+.+...+-.....  -
T Consensus       119 ~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~--i  196 (355)
T TIGR02397       119 KVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK--I  196 (355)
T ss_pred             eEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC--C
Confidence            37889988543  457777777755455666677775554 2222 2223578899999999998888876332211  1


Q ss_pred             HHHHHHHHHHHhCCCceeehh
Q 012324           79 YEKLSSKVMKYAQGVPLALKV   99 (466)
Q Consensus        79 ~~~~~~~i~~~c~glPlai~~   99 (466)
                      ..+.+..+++.++|-|..+..
T Consensus       197 ~~~a~~~l~~~~~g~~~~a~~  217 (355)
T TIGR02397       197 EDEALELIARAADGSLRDALS  217 (355)
T ss_pred             CHHHHHHHHHHcCCChHHHHH
Confidence            146677888999998865543

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=81.58  E-value=17  Score=38.63  Aligned_cols=90  Identities=13%  Similarity=0.197  Sum_probs=61.3

Q ss_pred             EEEEeCCCChH--hHHHHHhcCCCCCCCcEEEEEeCChh-hHhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCchH
Q 012324            4 LIVFDDVTCFS--QLESIIRSLDWLTPVSRIIITTRNKQ-VLRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDVGY   79 (466)
Q Consensus         4 LlvlDd~~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~   79 (466)
                      ++|||++....  .++.|+..+.+-....++|++|.+.. +..- ..-...++++.++.++..+.+++..-.+.-.  -.
T Consensus       122 VIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~--id  199 (830)
T PRK07003        122 VYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA--FE  199 (830)
T ss_pred             EEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC--CC
Confidence            68899997554  48888877766566778888777653 2211 1223589999999999999998876432211  12


Q ss_pred             HHHHHHHHHHhCCCce
Q 012324           80 EKLSSKVMKYAQGVPL   95 (466)
Q Consensus        80 ~~~~~~i~~~c~glPl   95 (466)
                      .+..+.|++.++|-.-
T Consensus       200 ~eAL~lIA~~A~GsmR  215 (830)
T PRK07003        200 PQALRLLARAAQGSMR  215 (830)
T ss_pred             HHHHHHHHHHcCCCHH
Confidence            4566778888888553

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=81.21  E-value=7.4  Score=37.13  Aligned_cols=92  Identities=14%  Similarity=0.127  Sum_probs=56.7

Q ss_pred             EEEEeCCCChH--hHHHHHhcCCCCCCCcEEEEEeCChh-hHhhc-CcceEEEccCCChhhHHHHHHHhhcCCCCCCchH
Q 012324            4 LIVFDDVTCFS--QLESIIRSLDWLTPVSRIIITTRNKQ-VLRNW-GVRKIYEIEALENHHALELFSRHAFKRNHPDVGY   79 (466)
Q Consensus         4 LlvlDd~~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~~~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~   79 (466)
                      ++|+||+....  ..+.+...+......+++|+||.... +.... .....+++.+++.++....+.+.+-.....  -.
T Consensus       128 vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~--~~  205 (337)
T PRK12402        128 TILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD--YD  205 (337)
T ss_pred             EEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC--CC
Confidence            79999986442  34455544443345567877775432 22211 223578999999999999998876432211  12


Q ss_pred             HHHHHHHHHHhCCCceee
Q 012324           80 EKLSSKVMKYAQGVPLAL   97 (466)
Q Consensus        80 ~~~~~~i~~~c~glPlai   97 (466)
                      .+....+++.++|.+-.+
T Consensus       206 ~~al~~l~~~~~gdlr~l  223 (337)
T PRK12402        206 DDGLELIAYYAGGDLRKA  223 (337)
T ss_pred             HHHHHHHHHHcCCCHHHH
Confidence            556777888887765443

---

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	466
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-29
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-29
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-27
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-22
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-27
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-23
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-19
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-05
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-25
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	8e-23
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-17
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	6e-16
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-14
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-13
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-15
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-15
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-06
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-15
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-07
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-14
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-08
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	8e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-13
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	9e-12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-12
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-12
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-11
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-10
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-10
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-12
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-06
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-10
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-10
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	9e-12
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	3e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-11
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-10
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	5e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-11
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	8e-10
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-09
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-09
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-09
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-07
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-11
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-11
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-11
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-11
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	8e-11
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-10
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	9e-08
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-08
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-08
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-10
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	3e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-09
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	7e-07
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	4e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-09
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-07
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-09
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	3e-09
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-09
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-07
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-09
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	5e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-09
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	6e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	6e-05
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-07
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	8e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-08
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-05
3e6j_A	229	Variable lymphocyte receptor diversity region; var	9e-08
3e6j_A	229	Variable lymphocyte receptor diversity region; var	4e-07
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	9e-08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-07
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	7e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-07
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	4e-07
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-06
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-05
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	7e-07
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	1e-06
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	1e-06
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-06
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	2e-06
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-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-06
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-06
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-06
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	6e-06
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	7e-04
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	3e-05
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	8e-05
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	1e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	2e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	4e-04
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	4e-04
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	5e-04

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

 Score =  116 bits (293), Expect = 2e-29
 Identities = 42/189 (22%), Positives = 76/189 (40%), Gaps = 17/189 (8%)

Query: 247 CNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNL--EFLTKLDLSGCSKLKRL 304
            N    +  +       NN   +  R+G++LK+    + +        L+L     L + 
Sbjct: 39  YNADRNRWHSAWRQANSNNP-QIETRTGRALKATADLLEDATQPGRVALELRSV-PLPQF 96

Query: 305 PEISSG--NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVL 362
           P+ +    ++  + +    + ELP ++ +   L  L L+    L++LP+S+  L  L+ L
Sbjct: 97  PDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNP-LRALPASIASLNRLREL 155

Query: 363 NLCGCSNLQRLPECLGQLSSPI---------ILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           ++  C  L  LPE L    +            L L  T I  +P SI  L  L+ L +  
Sbjct: 156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRN 215

Query: 414 SERFQSLPK 422
           S    +L  
Sbjct: 216 S-PLSALGP 223

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

 Score =  115 bits (290), Expect = 4e-29
 Identities = 47/172 (27%), Positives = 76/172 (44%), Gaps = 13/172 (7%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEF---------LTKLDLSGCSKLKRLP-EISS-G 310
            LN L  L++R+   L  LP  + + +          L  L L   + ++ LP  I++  
Sbjct: 148 SLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLE-WTGIRSLPASIANLQ 206

Query: 311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL 370
           N+  L +R + +  L  +I  L +L  L+L  C  L++ P        LK L L  CSNL
Sbjct: 207 NLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNL 266

Query: 371 QRLPECLGQLSSPIILNLAK-TNIERIPESIIQLFVLRYLLLSYSERFQSLP 421
             LP  + +L+    L+L    N+ R+P  I QL     +L+    + Q   
Sbjct: 267 LTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQ 318

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

 Score =  110 bits (278), Expect = 2e-27
 Identities = 30/162 (18%), Positives = 55/162 (33%), Gaps = 6/162 (3%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
            +    L  +   +L+     +   +     D +      R    +  N       G A+
Sbjct: 11  SSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSN--NPQIETRTGRAL 68

Query: 323 EELPSSIDRLRRLG--YLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQL 380
           +     ++   + G   L L     L   P    +L  L+ + +     L  LP+ + Q 
Sbjct: 69  KATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAAG-LMELPDTMQQF 126

Query: 381 SSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPK 422
           +    L LA+  +  +P SI  L  LR L +        LP+
Sbjct: 127 AGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPE 168

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

 Score = 95.0 bits (237), Expect = 8e-22
 Identities = 34/125 (27%), Positives = 52/125 (41%), Gaps = 6/125 (4%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFLR 318
            L NL  L +     L +L   I +L  L +LDL GC+ L+  P    G       L L+
Sbjct: 204 NLQNLKSLKI-RNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP-IFGGRAPLKRLILK 261

Query: 319 G-TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL 377
             + +  LP  I RL +L  L+L  C  L  LPS + +L +  ++ +      Q      
Sbjct: 262 DCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHRP 321

Query: 378 GQLSS 382
               +
Sbjct: 322 VARPA 326

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

 Score = 60.0 bits (146), Expect = 4e-10
 Identities = 13/122 (10%), Positives = 31/122 (25%), Gaps = 22/122 (18%)

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL----------------- 364
           +               L       L+     L + +     +                  
Sbjct: 1   MGSSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQI 60

Query: 365 --CGCSNLQRLPECLGQLSSP--IILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSL 420
                  L+   + L   + P  + L L    + + P+   +L  L+++ +  +     L
Sbjct: 61  ETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA-GLMEL 119

Query: 421 PK 422
           P 
Sbjct: 120 PD 121

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

 Score =  108 bits (271), Expect = 1e-25
 Identities = 45/288 (15%), Positives = 95/288 (32%), Gaps = 36/288 (12%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNW-GVRKIYEIEALENHH 60
             L VFDDV      E  IR    L    R ++TTR+ ++        +  E+ +LE   
Sbjct: 244 NTLFVFDDV----VQEETIRWAQELR--LRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 297

Query: 61  ALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQ 120
             +    +       +   E + +K ++ + G P  L +       +  E      NKL+
Sbjct: 298 CYDFLEAYGMPMPVGEK-EEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLE 356

Query: 121 RIL-----------HPSILEVLKISYDSLDNKEKNIFLDVACFFQGED--VNLVMKFLNA 167
                         + S+   L+   + L +++++          G D  V L    +  
Sbjct: 357 SRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPV 416

Query: 168 SGFYPEIG---------ISVLVDKSLIAIGSYNKI---RMHDLLQELGREIVRQESINPG 215
                E           +  L  +  +  G    +   ++  ++    + +V  ++I  G
Sbjct: 417 DICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTIANG 476

Query: 216 NRSRLWHHEDIYE--VLTYNTHY-SKLNQIIHTACNKLIAKTPNPMLM 260
                    +I    V     H  S   +   ++ +++  KT    ++
Sbjct: 477 ISILEQRLLEIGNNNVSVPERHIPSHFQKFRRSSASEMYPKTTEETVI 524

>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 =  106 bits (264), Expect = 2e-24
 Identities = 35/267 (13%), Positives = 86/267 (32%), Gaps = 52/267 (19%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEI------EA 55
             L+V  +V    Q      + +      +I++TTR KQV           I        
Sbjct: 245 NCLLVLLNV----QNAKAWNAFN---LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 56  LENHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESA 115
           L       L  ++       D   + L  +V+      P  L ++   + +       + 
Sbjct: 298 LTPDEVKSLLLKYL------DCRPQDLPREVLT---TNPRRLSIIAESIRDG-----LAT 343

Query: 116 INKLQRILHPSILEVLKISYDSLDNKE-KNIFLDVACFFQGEDVNLVMKFL-----NASG 169
            +  + +    +  +++ S + L+  E + +F  ++ F      ++    L     +   
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF--PPSAHIPTILLSLIWFDVIK 401

Query: 170 FYPEIGISVLVDKSLIAIGSYN-KIRMHDLLQELGREIVRQES-----INPGNRSRLWHH 223
               + ++ L   SL+        I +  +  EL  ++  + +     ++  N  + +  
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461

Query: 224 ED---------IYEVLTYNTHYSKLNQ 241
           +D          Y  + +  H   +  
Sbjct: 462 DDLIPPYLDQYFYSHIGH--HLKNIEH 486

>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 = 69.9 bits (170), Expect = 7e-13
 Identities = 85/524 (16%), Positives = 175/524 (33%), Gaps = 140/524 (26%)

Query: 15  QLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIEALENHHALELFSRHAFKRNH 74
           +++ II S D ++   R+  T  +KQ      V+K  E E L  ++   L S    ++  
Sbjct: 50  EIDHIIMSKDAVSGTLRLFWTLLSKQ---EEMVQKFVE-EVLRINYKF-LMSPIKTEQRQ 104

Query: 75  PDVGYEKLSSKVMKYAQGVPLALK--VLGCFLYEREKEVSE--SAINKLQR----ILH-- 124
           P +       +  +      +  K  V       R +   +   A+ +L+     ++   
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNV------SRLQPYLKLRQALLELRPAKNVLIDGV 158

Query: 125 ----PSIL--EVLKISYDSLDNKEKNIF-LDVACFFQGEDVNLVMKFLNASGFYPEIGIS 177
                + +  +V   SY      +  IF L++           V++ L          + 
Sbjct: 159 LGSGKTWVALDVCL-SYKVQCKMDFKIFWLNLK---NCNSPETVLEMLQK--------LL 206

Query: 178 VLVDKSLIAIGSYN---KIRMHDLLQELGREIVRQESINPGNRSRL-----WHHEDIYEV 229
             +D +  +   ++   K+R+H +  EL R +++ +   P     L      + +     
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAEL-RRLLKSK---PYENCLLVLLNVQNAKAW-NA 261

Query: 230 LTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSL-PSGIFNLE 288
              +             C K++  T    +   L+     ++       +L P  + +L 
Sbjct: 262 FNLS-------------C-KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL- 306

Query: 289 FLTKLDLSGCSKLKRLP-EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLK 347
            L  LD     + + LP E+ + N   L +   +I +  ++ D  + +      +C +L 
Sbjct: 307 LLKYLDC----RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV------NCDKLT 356

Query: 348 SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS-----SPI---ILNLAKTN-IERIPE 398
           ++  S     SL VL         R  +   +LS     + I   +L+L   + I+    
Sbjct: 357 TIIES-----SLNVLE----PAEYR--KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405

Query: 399 SIIQLFVLRYLLLSYSERFQ-SLPKPLFLARGCLALEPFL--GIIE----------DTQR 445
            ++       L+    +    S+P      +  L  E  L   I++          D   
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465

Query: 446 IPHSD---------HMLAID----------------W--QKIRK 462
            P+ D         H+  I+                +  QKIR 
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRH 509

>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 = 59.1 bits (142), Expect = 2e-09
 Identities = 78/484 (16%), Positives = 139/484 (28%), Gaps = 158/484 (32%)

Query: 58  NHHALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSE---S 114
           +HH ++      F+       Y+ +   +  +       +    C      K+V +   S
Sbjct: 3   HHHHMD------FETGEHQYQYKDI---LSVFEDAF---VDNFDC------KDVQDMPKS 44

Query: 115 AINK--LQRILH-PSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFY 171
            ++K  +  I+     +      + +L +K++ +   V  F   E + +  KFL  S   
Sbjct: 45  ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM---VQKFV-EEVLRINYKFL-MSPIK 99

Query: 172 PEIGISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLT 231
            E         S++    Y  I   D L          +     N SRL  +  + + L 
Sbjct: 100 TE-----QRQPSMMTR-MY--IEQRDRLYNDN------QVFAKYNVSRLQPYLKLRQAL- 144

Query: 232 YNTHYSKLNQ----IIH--TACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIF 285
                 +L      +I       K                + +    S K    +   IF
Sbjct: 145 -----LELRPAKNVLIDGVLGSGKTW--------------VALDVCLSYKVQCKMDFKIF 185

Query: 286 NLEFLTKLDLSGCSK-------LKRLPEISSGNVCWLFLRGTAIEELPSSI-DRLRRL-- 335
                  L+L  C+        L++L      N        + I+    SI   LRRL  
Sbjct: 186 ------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239

Query: 336 ------GYLNLSD-------------CK----------------------RLKSLPSSLC 354
                   L L +             CK                       L     +L 
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299

Query: 355 KLKSLKVLNLC-GCSNLQRLPE--CLGQLSSPIILNLAKTNIERIPESIIQLFVLR--YL 409
             +   +L     C   Q LP         +P  L++       I ESI    +      
Sbjct: 300 PDEVKSLLLKYLDCR-PQDLPREVLTT---NPRRLSI-------IAESIRD-GLATWDNW 347

Query: 410 LLSYSERFQSLPKPLFLARGCLALEP------F--LGIIEDTQRIPHSDHMLAIDWQKIR 461
                ++  ++ +   L      LEP      F  L +   +  IP    +L++ W  + 
Sbjct: 348 KHVNCDKLTTIIE-SSLN----VLEPAEYRKMFDRLSVFPPSAHIP--TILLSLIWFDVI 400

Query: 462 KNVC 465
           K+  
Sbjct: 401 KSDV 404

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

 Score =  100 bits (250), Expect = 8e-23
 Identities = 45/229 (19%), Positives = 85/229 (37%), Gaps = 33/229 (14%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWG--VRKIYEIEALENH 59
           + L++ DDV            L       +I++TTR+K V  +       +    +L   
Sbjct: 237 RSLLILDDV-------WDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 289

Query: 60  HALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKL 119
             LE+ S         D    + +  ++K  +G PL + ++G  L +      E  + +L
Sbjct: 290 KGLEILSLFVN-MKKAD--LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRW-EYYLKQL 345

Query: 120 QRIL-----------HPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFL--- 165
           Q              + ++ E + IS + L    K+ + D++     +DV +  K L   
Sbjct: 346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSIL--QKDVKVPTKVLCIL 403

Query: 166 -NASGFYPEIGISVLVDKSLIAIGSYNKI---RMHDLLQELGREIVRQE 210
            +      E  +   V+KSL+      K     +HDL  +   E    +
Sbjct: 404 WDMETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQ 452

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

 Score = 83.0 bits (205), Expect = 4e-17
 Identities = 29/170 (17%), Positives = 60/170 (35%), Gaps = 19/170 (11%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
            L +L  + L +  ++  LP  +++L  L  L+++   +     ++ +            
Sbjct: 489 NLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACN-RGISAAQLKAD----------- 536

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSS--LCKLKSLKVLNLCGCSNLQRLPECLGQ 379
              L    D   ++    +     L+  P+S  L K+  L +L+      ++ L    G 
Sbjct: 537 WTRLADDEDTGPKIQIFYMGYNN-LEEFPASASLQKMVKLGLLDCVHN-KVRHLEA-FGT 593

Query: 380 LSSPIILNLAKTNIERIPESIIQLF-VLRYLLLSYSERFQSLPKPLFLAR 428
                 L L    IE IPE        +  L  S++ + + +P       
Sbjct: 594 NVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHN-KLKYIPNIFNAKS 642

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

 Score = 71.1 bits (174), Expect = 3e-13
 Identities = 31/211 (14%), Positives = 62/211 (29%), Gaps = 39/211 (18%)

Query: 255 PNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG---- 310
                   L   +    +    +      +   + L   DL     + R PE+       
Sbjct: 363 GRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLL-QDAINRNPEMKPIKKDS 421

Query: 311 ----NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCK-------------------RLK 347
                   +      I  +  +I RL +L  +  ++                     + +
Sbjct: 422 RISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYE 481

Query: 348 SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLA----------KTNIERIP 397
           +   S   LK L  + L  C N+ +LP+ L  L     LN+A          K +  R+ 
Sbjct: 482 NEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLA 541

Query: 398 ESIIQLFVLRYLLLSYSERFQSLPKPLFLAR 428
           +       ++   + Y+   +  P    L +
Sbjct: 542 DDEDTGPKIQIFYMGYN-NLEEFPASASLQK 571

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

 Score = 69.9 bits (171), Expect = 7e-13
 Identities = 29/173 (16%), Positives = 59/173 (34%), Gaps = 24/173 (13%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF--------NLEFLTKLDLSGCSKLKRLP-EISSGNV 312
             + +  + L S   + S+P            N   LT +DL    KL  L  +  +  +
Sbjct: 695 TGSPISTIIL-SNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFN-KLTSLSDDFRATTL 752

Query: 313 C---WLFLRGTAIEELPSSIDRLRRLGYLNL------SDCKRLKSLPSSLCKLKSLKVLN 363
                + +        P+      +L    +         + L+  P+ +    SL  L 
Sbjct: 753 PYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQ 812

Query: 364 LCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSE 415
           + G ++++++ E L       IL++A      I   S+         +L Y +
Sbjct: 813 I-GSNDIRKVDEKL--TPQLYILDIADNPNISIDVTSVCPYIEAGMYVLLYDK 862

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

 Score = 69.5 bits (170), Expect = 1e-12
 Identities = 26/183 (14%), Positives = 50/183 (27%), Gaps = 23/183 (12%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC----WLFL 317
              L  L L     ++ +P       + +  L  S   KLK +P I +         +  
Sbjct: 594 NVKLTDLKL-DYNQIEEIPEDFCAFTDQVEGLGFSHN-KLKYIPNIFNAKSVYVMGSVDF 651

Query: 318 RGTAIEELPSSI------DRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS--- 368
               I     +I       +      + LS  +  K           +  + L       
Sbjct: 652 SYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTS 711

Query: 369 ----NLQRLPECLGQLSSPIILNLAKTNIERIPESII--QLFVLRYLLLSYSERFQSLPK 422
               +L+              ++L    +  + +      L  L  + +SY+  F S P 
Sbjct: 712 IPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYN-CFSSFPT 770

Query: 423 PLF 425
              
Sbjct: 771 QPL 773

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

 Score = 67.2 bits (164), Expect = 5e-12
 Identities = 30/192 (15%), Positives = 70/192 (36%), Gaps = 26/192 (13%)

Query: 255 PNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGN 311
           P    + ++  L +L+      ++ L +       LT L L    +++ +PE     +  
Sbjct: 564 PASASLQKMVKLGLLDC-VHNKVRHLEA-FGTNVKLTDLKLDYN-QIEEIPEDFCAFTDQ 620

Query: 312 VCWLFLRGTAIEELPS--SIDRLRRLGYLNLSDCKRLKSLPSSL------CKLKSLKVLN 363
           V  L      ++ +P+  +   +  +G ++ S   ++ S   ++       K  +   + 
Sbjct: 621 VEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYN-KIGSEGRNISCSMDDYKGINASTVT 679

Query: 364 LCGCSNLQRLP-ECLGQLSSPIILNLAKTNIERIPE--------SIIQLFVLRYLLLSYS 414
           L     +Q+ P E     S    + L+   +  IPE        +    ++L  + L ++
Sbjct: 680 LSYN-EIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFN 738

Query: 415 ERFQSLPKPLFL 426
            +  SL      
Sbjct: 739 -KLTSLSDDFRA 749

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

 Score = 48.7 bits (116), Expect = 3e-06
 Identities = 30/197 (15%), Positives = 70/197 (35%), Gaps = 4/197 (2%)

Query: 218 SRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSL 277
           S +W     Y+V+ Y T YS+          + +      ++  +L     + ++  ++ 
Sbjct: 207 SAVWLPAGTYQVVAYTT-YSQSGIKRSELETQSVRGESFTVIDNKLTKDANVPIQLKETA 265

Query: 278 KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI--EELPSSIDRLRRL 335
           + +            LD             +  ++ W F +   +  ++    +D   R+
Sbjct: 266 EYIKDYKALKAIWEALDGKNWRYYSGTINNTIHSLNWNFNKELDMWGDQPGVDLDNNGRV 325

Query: 336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIER 395
             L+L+       +P ++ +L  LKVL+  G  +        G       ++  + +  R
Sbjct: 326 TGLSLAGFGAKGRVPDAIGQLTELKVLSF-GTHSETVSGRLFGDEELTPDMSEERKHRIR 384

Query: 396 IPESIIQLFVLRYLLLS 412
           +    + L   + L LS
Sbjct: 385 MHYKKMFLDYDQRLNLS 401

>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 = 79.2 bits (195), Expect = 6e-16
 Identities = 37/149 (24%), Positives = 57/149 (38%), Gaps = 17/149 (11%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
                L  L + SG  L SLP     L  L+       + L  LP      +C L++ G 
Sbjct: 78  ALPPELRTLEV-SGNQLTSLPVLPPGLLELSIFSNPL-THLPALPS----GLCKLWIFGN 131

Query: 321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQL 380
            +  LP     L+    L++SD  +L SLP+   +L  L   N      L  LP     L
Sbjct: 132 QLTSLPVLPPGLQ---ELSVSDN-QLASLPALPSELCKLWAYNN----QLTSLPMLPSGL 183

Query: 381 SSPIILNLAKTNIERIPESIIQLFVLRYL 409
                L+++   +  +P    +L+ L   
Sbjct: 184 QE---LSVSDNQLASLPTLPSELYKLWAY 209

>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 = 73.0 bits (179), Expect = 5e-14
 Identities = 44/175 (25%), Positives = 60/175 (34%), Gaps = 14/175 (8%)

Query: 259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLR 318
           L    + L  L++ S   L SLP+    L  L   +     +L  LP      +  L + 
Sbjct: 176 LPMLPSGLQELSV-SDNQLASLPTLPSELYKLWAYNN----RLTSLPA-LPSGLKELIVS 229

Query: 319 GTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG 378
           G  +  LP     L+    L +S   RL SLP     L SL V      + L RLPE L 
Sbjct: 230 GNRLTSLPVLPSELK---ELMVSGN-RLTSLPMLPSGLLSLSVYR----NQLTRLPESLI 281

Query: 379 QLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLAL 433
            LSS   +NL    +       ++             RF             L L
Sbjct: 282 HLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIRFDMAGASAPRETRALHL 336

>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 = 70.3 bits (172), Expect = 4e-13
 Identities = 28/149 (18%), Positives = 49/149 (32%), Gaps = 28/149 (18%)

Query: 290 LTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSL 349
              L++     L  LP+    ++  L +    +  LP+    LR    L +S   +L SL
Sbjct: 42  NAVLNVGES-GLTTLPDCLPAHITTLVIPDNNLTSLPALPPELR---TLEVSGN-QLTSL 96

Query: 350 PSSLCKLKSLKVLNL----------------CGCSNLQRLPECLGQLSSPIILNLAKTNI 393
           P     L  L + +                    + L  LP     L     L+++   +
Sbjct: 97  PVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQE---LSVSDNQL 153

Query: 394 ERIPESIIQLFVLRYLLLSYSERFQSLPK 422
             +P    +   L  L    + +  SLP 
Sbjct: 154 ASLPALPSE---LCKLWAYNN-QLTSLPM 178

>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 = 56.4 bits (136), Expect = 1e-08
 Identities = 23/120 (19%), Positives = 47/120 (39%), Gaps = 7/120 (5%)

Query: 301 LKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLK 360
           ++++    +     L +  + +  LP  +     +  L + D   L SLP+   +L++L+
Sbjct: 31  VQKMRACLNNGNAVLNVGESGLTTLPDCL--PAHITTLVIPDN-NLTSLPALPPELRTLE 87

Query: 361 VLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSL 420
           V        L  LP     L    I +   T++  +P  + +L++    L S       L
Sbjct: 88  VSGN----QLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGL 143

>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 = 55.3 bits (133), Expect = 3e-08
 Identities = 29/153 (18%), Positives = 45/153 (29%), Gaps = 26/153 (16%)

Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEF-----------------LTKLDLSGCS 299
           P L   L  L   N R    L SLP+    L+                  L +L +SG  
Sbjct: 197 PTLPSELYKLWAYNNR----LTSLPALPSGLKELIVSGNRLTSLPVLPSELKELMVSGN- 251

Query: 300 KLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSL 359
           +L  LP      +  L +    +  LP S+  L     +NL     L          + +
Sbjct: 252 RLTSLPM-LPSGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGN-PLSERTLQAL--REI 307

Query: 360 KVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN 392
                     ++              L+LA  +
Sbjct: 308 TSAPGYSGPIIRFDMAGASAPRETRALHLAAAD 340

>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 = 78.2 bits (193), Expect = 1e-15
 Identities = 25/168 (14%), Positives = 59/168 (35%), Gaps = 19/168 (11%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
            L +L  + + +  +L  LP+ +  L  +  ++++   +     ++              
Sbjct: 247 NLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACN-RGISGEQLKDDW---------- 295

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSL--PSSLCKLKSLKVLNLCGCSNLQRLPECLGQ 379
             +  +      ++  + +     LK+    +SL K+K L +L       L+      G 
Sbjct: 296 --QALADAPVGEKIQIIYIGYNN-LKTFPVETSLQKMKKLGMLECLYN-QLEGKLPAFGS 351

Query: 380 LSSPIILNLAKTNIERIPESIIQLFV-LRYLLLSYSERFQSLPKPLFL 426
                 LNLA   I  IP +       +  L  +++ + + +P     
Sbjct: 352 EIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHN-KLKYIPNIFDA 398

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 77.8 bits (192), Expect = 2e-15
 Identities = 28/198 (14%), Positives = 61/198 (30%), Gaps = 31/198 (15%)

Query: 255 PNPMLMPRLNNLVILNLR-------SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI 307
           PN      ++ +  ++          GK+   L    F    ++ ++LS   ++ + P+ 
Sbjct: 393 PNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKFPKE 451

Query: 308 SSGN---VCWLFLRGTAIEELP--------SSIDRLRRLGYLNLSDCKRLKSLPSSL--C 354
                  +  + L G  + E+P         +      L  ++L   K L  L       
Sbjct: 452 LFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNK-LTKLSDDFRAT 510

Query: 355 KLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNI-------ERIPESIIQLFVLR 407
            L  L  ++L    +  + P      S+     +               PE I     L 
Sbjct: 511 TLPYLVGIDLSYN-SFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLT 569

Query: 408 YLLLSYSERFQSLPKPLF 425
            L +  +   + + + + 
Sbjct: 570 QLQIGSN-DIRKVNEKIT 586

>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 = 73.2 bits (180), Expect = 6e-14
 Identities = 28/210 (13%), Positives = 63/210 (30%), Gaps = 33/210 (15%)

Query: 249 KLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEF--LTKLDLSGCSKLKRLPE 306
           K+  +   P  +    +            K+        +F  L K  ++   + K + +
Sbjct: 118 KVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKK 177

Query: 307 ISSGNV--CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCK-------------------R 345
            S   +    +      I  +  ++ RL +L    + +                     +
Sbjct: 178 SSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQ 237

Query: 346 LKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE------- 398
            K+       LK L  + +  C NL +LP  L  L    ++N+A        +       
Sbjct: 238 YKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQA 297

Query: 399 --SIIQLFVLRYLLLSYSERFQSLPKPLFL 426
                    ++ + + Y+   ++ P    L
Sbjct: 298 LADAPVGEKIQIIYIGYN-NLKTFPVETSL 326

>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 = 71.2 bits (175), Expect = 2e-13
 Identities = 32/190 (16%), Positives = 64/190 (33%), Gaps = 30/190 (15%)

Query: 263 LNNLVILNLRS-------GKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-EISSGNVC- 313
            + L  +NL           SLK       N   LT +DL    KL +L  +  +  +  
Sbjct: 456 GSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFN-KLTKLSDDFRATTLPY 514

Query: 314 --WLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRL------KSLPSSLCKLKSLKVLNLC 365
              + L   +  + P+       L    + + +        +  P  +    SL  L + 
Sbjct: 515 LVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIG 574

Query: 366 GCSNLQRLPECLGQLSSPIILNLAKTNIERIP-ESIIQLFVLRYLLLSYSERFQSLPKPL 424
              +++++ E +    +  +L++       I    +         +L Y  + Q +    
Sbjct: 575 SN-DIRKVNEKI--TPNISVLDIKDNPNISIDLSYVCPYIEAGMYMLFYD-KTQDI---- 626

Query: 425 FLARGCLALE 434
              RGC AL+
Sbjct: 627 ---RGCDALD 633

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 67.8 bits (166), Expect = 3e-12
 Identities = 28/193 (14%), Positives = 65/193 (33%), Gaps = 25/193 (12%)

Query: 255 PNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGN 311
           P    + ++  L +L       L+       +   L  L+L+   ++  +P      +  
Sbjct: 321 PVETSLQKMKKLGMLEC-LYNQLEGKLPAFGSEIKLASLNLAYN-QITEIPANFCGFTEQ 378

Query: 312 VCWLFLRGTAIEELPS--SIDRLRRLGYLNLS-------DCKRLKSLPSSLCKLKSLKVL 362
           V  L      ++ +P+      +  +  ++ S       D K    L  +  K  ++  +
Sbjct: 379 VENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSI 438

Query: 363 NLCGCSNLQRLP-ECLGQLSSPIILNLA--------KTNIERIPESIIQLFVLRYLLLSY 413
           NL     + + P E     S    +NL         K +++   E+    ++L  + L +
Sbjct: 439 NLSNN-QISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRF 497

Query: 414 SERFQSLPKPLFL 426
           + +   L      
Sbjct: 498 N-KLTKLSDDFRA 509

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 67.8 bits (166), Expect = 3e-12
 Identities = 20/181 (11%), Positives = 42/181 (23%), Gaps = 20/181 (11%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
               +  L+L    +   +P  I  L  L  L L                      +   
Sbjct: 79  SNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHG-----------------EKVNE 121

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSN--LQRLPECLGQ 379
               P  I                 K+      +     ++  C  S+   + + +    
Sbjct: 122 RLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRI 181

Query: 380 LSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGI 439
                 +     NI  + +++++L  LR   +  S  F +                    
Sbjct: 182 TLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNS-PFVAENICEAWENENSEYAQQYKT 240

Query: 440 I 440
            
Sbjct: 241 E 241

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 48.1 bits (115), Expect = 4e-06
 Identities = 13/101 (12%), Positives = 33/101 (32%), Gaps = 5/101 (4%)

Query: 328 SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCG----CSNLQRLPECLGQLSSP 383
           S++   R+  L+L        +P ++ +L  L+VL L       +     P+ +    S 
Sbjct: 76  SLNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSD 135

Query: 384 IILNLAKTNIER-IPESIIQLFVLRYLLLSYSERFQSLPKP 423
                 + + ++   +   +      +    +   Q     
Sbjct: 136 EQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIK 176

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

 Score = 75.0 bits (185), Expect = 3e-15
 Identities = 41/189 (21%), Positives = 70/189 (37%), Gaps = 18/189 (9%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI 307
           N L  K           +L  L+L S   + ++ S    LE L  LD      LK++ E 
Sbjct: 62  NGLSFKGCCSQSDFGTTSLKYLDL-SFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEF 119

Query: 308 SS----GNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKV 361
           S      N+ +L +  T      + I + L  L  L ++     ++       +L++L  
Sbjct: 120 SVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTF 179

Query: 362 LNLCGCSNLQRLPE----CLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSYSER 416
           L+L  C  L++L       L  L     LN++  N   +     + L  L+ L  S +  
Sbjct: 180 LDLSQC-QLEQLSPTAFNSLSSLQV---LNMSHNNFFSLDTFPYKCLNSLQVLDYSLN-H 234

Query: 417 FQSLPKPLF 425
             +  K   
Sbjct: 235 IMTSKKQEL 243

>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 = 57.3 bits (139), Expect = 3e-09
 Identities = 37/162 (22%), Positives = 67/162 (41%), Gaps = 14/162 (8%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRG---TAIEELP 326
           + K L S+P+GI      T+L+L    KL+ LP         +  L L     +      
Sbjct: 15  NSKGLTSVPTGIP--SSATRLELESN-KLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCS 71

Query: 327 SSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPEC--LGQLSSPI 384
            S      L YL+LS    + ++ S+   L+ L+ L+     NL+++ E      L + I
Sbjct: 72  QSDFGTTSLKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLI 129

Query: 385 ILNLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
            L+++ T+       I   L  L  L ++ +   ++    +F
Sbjct: 130 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF 171

>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 = 75.1 bits (185), Expect = 1e-14
 Identities = 44/174 (25%), Positives = 73/174 (41%), Gaps = 13/174 (7%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI 307
           N L  K           +L  L+L S   + ++ S    LE L  LD      LK++ E 
Sbjct: 357 NGLSFKGCCSQSDFGTTSLKYLDL-SFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEF 414

Query: 308 SS----GNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKS--LPSSLCKLKSLK 360
           S      N+ +L +  T      + I + L  L  L ++     +   LP    +L++L 
Sbjct: 415 SVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN-SFQENFLPDIFTELRNLT 473

Query: 361 VLNLCGCSNLQRLPE-CLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLS 412
            L+L  C  L++L       LSS  +LN+A   ++ +P+ I   L  L+ + L 
Sbjct: 474 FLDLSQC-QLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH 526

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

 Score = 64.0 bits (156), Expect = 5e-11
 Identities = 35/176 (19%), Positives = 71/176 (40%), Gaps = 16/176 (9%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFL 317
               L +L+L S   ++++  G + +L  L+ L L+G + ++ L         ++  L  
Sbjct: 50  SFPELQVLDL-SRCEIQTIEDGAYQSLSHLSTLILTG-NPIQSLALGAFSGLSSLQKLVA 107

Query: 318 RGTAIEELPS-SIDRLRRLGYLNLSDCKRLKSL--PSSLCKLKSLKVLNLCGCSNLQRLP 374
             T +  L +  I  L+ L  LN++    ++S   P     L +L+ L+L     +Q + 
Sbjct: 108 VETNLASLENFPIGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLDLSSN-KIQSIY 165

Query: 375 E----CLGQLSSPII-LNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
                 L Q+    + L+L+   +  I     +   L  L L  +    ++ K   
Sbjct: 166 CTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCI 221

>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 = 58.2 bits (141), Expect = 3e-09
 Identities = 39/161 (24%), Positives = 60/161 (37%), Gaps = 14/161 (8%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFLRGTAIEELPS-S 328
              +   +P  +        LDLS    L+ L   S  +      L L    I+ +   +
Sbjct: 15  MELNFYKIPDNLPF--STKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGA 71

Query: 329 IDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIIL 386
              L  L  L L+    ++SL   +   L SL+ L      NL  L    +G L +   L
Sbjct: 72  YQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKEL 129

Query: 387 NLAKTNIERI--PESIIQLFVLRYLLLSYSERFQSLPKPLF 425
           N+A   I+    PE    L  L +L LS + + QS+     
Sbjct: 130 NVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCTDL 169

>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 = 52.4 bits (126), Expect = 2e-07
 Identities = 33/197 (16%), Positives = 68/197 (34%), Gaps = 14/197 (7%)

Query: 233 NTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGK---SLKSLPSGIFNLEF 289
                +L          L  +  +   +  L NL I   R       L  +      L  
Sbjct: 226 GLEVHRLVLGEFRNEGNL--EKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTN 283

Query: 290 LTKLDLSGCSKLKRLPEIS-SGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKS 348
           ++   L   + ++R+ + S +     L L      + P+   +L+ L  L  +  K   +
Sbjct: 284 VSSFSLVSVT-IERVKDFSYNFGWQHLELVNCKFGQFPT--LKLKSLKRLTFTSNK-GGN 339

Query: 349 LPSSLCKLKSLKVLNLCGC--SNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVL 406
             S +  L SL+ L+L     S      +     +S   L+L+   +  +  + + L  L
Sbjct: 340 AFSEV-DLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQL 398

Query: 407 RYLLLSYSERFQSLPKP 423
            +L   +S   + + + 
Sbjct: 399 EHLDFQHS-NLKQMSEF 414

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 74.6 bits (183), Expect = 2e-14
 Identities = 32/172 (18%), Positives = 61/172 (35%), Gaps = 18/172 (10%)

Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFN-LEFLTKLDLSGCSK---LKRLPEISSGNV 312
            +++P  NN  +       ++    +  F+  +   K  L G ++   +  L E      
Sbjct: 2   SIMLPINNNFSLSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQF 61

Query: 313 CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQR 372
             L L    +  LP ++    ++  L ++    L SLP     L+ L   +      L  
Sbjct: 62  SELQLNRLNLSSLPDNL--PPQITVLEITQN-ALISLPELPASLEYLDACDN----RLST 114

Query: 373 LPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
           LPE    L     L++    +  +PE       L Y+    + +   LP+  
Sbjct: 115 LPELPASLKH---LDVDNNQLTMLPELPAL---LEYINADNN-QLTMLPELP 159

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 70.8 bits (173), Expect = 3e-13
 Identities = 28/167 (16%), Positives = 54/167 (32%), Gaps = 13/167 (7%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
               +L  L++     L  LP     LE    ++     +L  LPE    ++  L +R  
Sbjct: 117 ELPASLKHLDV-DNNQLTMLPELPALLE---YINADNN-QLTMLPE-LPTSLEVLSVRNN 170

Query: 321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL---CGCSNLQRLPECL 377
            +  LP   + L  L   ++S    L+SLP+   +    +   +   C  + +  +PE +
Sbjct: 171 QLTFLPELPESLEAL---DVSTN-LLESLPAVPVRNHHSEETEIFFRCRENRITHIPENI 226

Query: 378 GQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
             L     + L    +       +     +         F       
Sbjct: 227 LSLDPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQ 273

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

 Score = 70.9 bits (174), Expect = 2e-13
 Identities = 50/174 (28%), Positives = 79/174 (45%), Gaps = 18/174 (10%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG------NVCW 314
            L +L IL L     ++++  G F  L  L  L+L       RL  I +G       +  
Sbjct: 86  HLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFDN----RLTTIPNGAFVYLSKLKE 140

Query: 315 LFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQR 372
           L+LR   IE +PS   +R+  L  L+L + KRL  +   +   L +L+ LNL  C NL+ 
Sbjct: 141 LWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC-NLRE 199

Query: 373 LPECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
           +P  L  L     L+L+  ++  I     Q L  L+ L +  S + Q + +  F
Sbjct: 200 IPN-LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAF 251

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

 Score = 54.8 bits (132), Expect = 3e-08
 Identities = 42/181 (23%), Positives = 70/181 (38%), Gaps = 32/181 (17%)

Query: 273 SGKSLKSLPSGIF----------------------NLEFLTKLDLSGCSKLKRLPE---I 307
             K+L+ +P GI                       +L  L  L LS    ++ +      
Sbjct: 51  VRKNLREVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN-HIRTIEIGAFN 109

Query: 308 SSGNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLC 365
              N+  L L    +  +P+     L +L  L L +   ++S+PS    ++ SL+ L+L 
Sbjct: 110 GLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNN-PIESIPSYAFNRIPSLRRLDLG 168

Query: 366 GCSNLQRLPE-CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
               L  + E     LS+   LNLA  N+  IP ++  L  L  L LS +    ++    
Sbjct: 169 ELKRLSYISEGAFEGLSNLRYLNLAMCNLREIP-NLTPLIKLDELDLSGN-HLSAIRPGS 226

Query: 425 F 425
           F
Sbjct: 227 F 227

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

 Score = 40.5 bits (95), Expect = 8e-04
 Identities = 32/143 (22%), Positives = 48/143 (33%), Gaps = 26/143 (18%)

Query: 298 CSK--LKRLPEISSGNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPSSLC 354
           C +  L+ +P+  S N   L L    I+ +  +    LR L  L LS    ++++     
Sbjct: 50  CVRKNLREVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRN-HIRTIEIGA- 107

Query: 355 KLKSLKVLNLCGCSNLQRL-----------PECLGQLSSPIILNLAKTNIERIPESIIQ- 402
                      G +NL  L                 LS    L L    IE IP      
Sbjct: 108 ---------FNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNR 158

Query: 403 LFVLRYLLLSYSERFQSLPKPLF 425
           +  LR L L   +R   + +  F
Sbjct: 159 IPSLRRLDLGELKRLSYISEGAF 181

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 69.6 bits (171), Expect = 5e-13
 Identities = 41/194 (21%), Positives = 74/194 (38%), Gaps = 21/194 (10%)

Query: 231 TYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFL 290
            Y   +S+  +       +      + +          L L +   L SLP    +LE  
Sbjct: 38  EYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELEL-NNLGLSSLPELPPHLE-- 94

Query: 291 TKLDLSGCSKLKRLPEISSG--NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKS 348
             L  S C+ L  LPE+     ++        A+ +LP        L YL +S+ + L+ 
Sbjct: 95  -SLVAS-CNSLTELPELPQSLKSLLVDNNNLKALSDLPPL------LEYLGVSNNQ-LEK 145

Query: 349 LPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRY 408
           LP  L     LK++++    +L++LP+    L     +      +E +PE +  L  L  
Sbjct: 146 LP-ELQNSSFLKIIDVDNN-SLKKLPDLPPSLEF---IAAGNNQLEELPE-LQNLPFLTA 199

Query: 409 LLLSYSERFQSLPK 422
           +    +   + LP 
Sbjct: 200 IYADNN-SLKKLPD 212

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 68.1 bits (167), Expect = 1e-12
 Identities = 31/151 (20%), Positives = 60/151 (39%), Gaps = 16/151 (10%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
             +L  L   S  SL  LP    +L+ L   + +    L  LP      + +L +    +
Sbjct: 90  PPHLESLVA-SCNSLTELPELPQSLKSLLVDNNN-LKALSDLPP----LLEYLGVSNNQL 143

Query: 323 EELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS 382
           E+LP  +     L  +++ +   LK LP     L+ +   N    + L+ LPE L  L  
Sbjct: 144 EKLPE-LQNSSFLKIIDVDNNS-LKKLPDLPPSLEFIAAGN----NQLEELPE-LQNLPF 196

Query: 383 PIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
              +     +++++P+  +    L  ++   
Sbjct: 197 LTAIYADNNSLKKLPDLPLS---LESIVAGN 224

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 68.1 bits (167), Expect = 2e-12
 Identities = 36/158 (22%), Positives = 63/158 (39%), Gaps = 10/158 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
             +L  +       L+ LP  + NL FLT +       LK+LP+    ++  +      +
Sbjct: 172 PPSLEFIAA-GNNQLEELPE-LQNLPFLTAIYADNN-SLKKLPD-LPLSLESIVAGNNIL 227

Query: 323 EELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS 382
           EELP  +  L  L  +   +   LK+LP     L++L V +      L  LPE    L+ 
Sbjct: 228 EELPE-LQNLPFLTTIYADNN-LLKTLPDLPPSLEALNVRDN----YLTDLPELPQSLTF 281

Query: 383 PIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSL 420
             +     + +  +P ++  L      + S  +   SL
Sbjct: 282 LDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSL 319

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 65.8 bits (161), Expect = 9e-12
 Identities = 32/149 (21%), Positives = 57/149 (38%), Gaps = 18/149 (12%)

Query: 259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLR 318
           L     NL  LN  S   ++SL     +LE   +L++S   KL  LP      +  L   
Sbjct: 292 LSELPPNLYYLNA-SSNEIRSLCDLPPSLE---ELNVSNN-KLIELPA-LPPRLERLIAS 345

Query: 319 GTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG 378
              + E+P     L+    L++     L+  P     ++ L++ +     +L  +PE   
Sbjct: 346 FNHLAEVPELPQNLK---QLHVEYN-PLREFPDIPESVEDLRMNS-----HLAEVPELPQ 396

Query: 379 QLSSPIILNLAKTNIERIPESIIQLFVLR 407
            L     L++    +   P+    +  LR
Sbjct: 397 NLKQ---LHVETNPLREFPDIPESVEDLR 422

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 64.6 bits (158), Expect = 2e-11
 Identities = 31/136 (22%), Positives = 51/136 (37%), Gaps = 13/136 (9%)

Query: 270 NLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSI 329
            LR   +L  +P    N++  T+   +     +  P  +         R  A+  L    
Sbjct: 16  PLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGN------GEQREMAVSRLRDC- 68

Query: 330 DRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLA 389
              R+   L L++   L SLP     L+SL       C++L  LPE    L S ++ N  
Sbjct: 69  -LDRQAHELELNNLG-LSSLPELPPHLESLVA----SCNSLTELPELPQSLKSLLVDNNN 122

Query: 390 KTNIERIPESIIQLFV 405
              +  +P  +  L V
Sbjct: 123 LKALSDLPPLLEYLGV 138

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 58.5 bits (142), Expect = 2e-09
 Identities = 32/166 (19%), Positives = 56/166 (33%), Gaps = 25/166 (15%)

Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLF 316
           P L   L  L +           L     NL     L+ S   +++ L +    ++  L 
Sbjct: 273 PELPQSLTFLDVSEN----IFSGLSELPPNL---YYLNASSN-EIRSLCD-LPPSLEELN 323

Query: 317 LRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPEC 376
           +    + ELP+   RL RL     S    L  +P     LK L V        L+  P+ 
Sbjct: 324 VSNNKLIELPALPPRLERL---IASFN-HLAEVPELPQNLKQLHVEYN----PLREFPDI 375

Query: 377 LGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPK 422
              +    + +    ++  +PE       L+ L +  +   +  P 
Sbjct: 376 PESVEDLRMNS----HLAEVPELPQN---LKQLHVETN-PLREFPD 413

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 57.7 bits (140), Expect = 4e-09
 Identities = 20/123 (16%), Positives = 36/123 (29%), Gaps = 18/123 (14%)

Query: 315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSL-------------CKLKSLKV 361
                + + E+P   + ++       +  +  ++ P                C  +    
Sbjct: 16  PLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHE 75

Query: 362 LNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLP 421
           L L     L  LPE    L S   L  +  ++  +PE    L  L     +       LP
Sbjct: 76  LELNNL-GLSSLPELPPHLES---LVASCNSLTELPELPQSLKSLLVDNNNLKA-LSDLP 130

Query: 422 KPL 424
             L
Sbjct: 131 PLL 133

>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 = 67.8 bits (166), Expect = 2e-12
 Identities = 45/174 (25%), Positives = 75/174 (43%), Gaps = 18/174 (10%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG------NVCW 314
            L++L +L L     ++ +  G F  L  L  L+L        L  I SG       +  
Sbjct: 97  HLHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLELFDN----WLTVIPSGAFEYLSKLRE 151

Query: 315 LFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQR 372
           L+LR   IE +PS   +R+  L  L+L + K+L+ +   +   L +LK LNL  C N++ 
Sbjct: 152 LWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC-NIKD 210

Query: 373 LPECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
           +P  L  L     L ++  +   I       L  L+ L +  S +   + +  F
Sbjct: 211 MPN-LTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAF 262

>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 = 60.1 bits (146), Expect = 5e-10
 Identities = 34/131 (25%), Positives = 56/131 (42%), Gaps = 8/131 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGT 320
           + +L+ L+L   K L+ +  G F  L  L  L+L  C  +K +P ++    +  L + G 
Sbjct: 170 VPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC-NIKDMPNLTPLVGLEELEMSGN 228

Query: 321 AIEELPS-SIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPE-CL 377
              E+   S   L  L  L + +  ++  +   +   L SL  LNL    NL  LP    
Sbjct: 229 HFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAFDGLASLVELNLAHN-NLSSLPHDLF 286

Query: 378 GQLSSPIILNL 388
             L   + L+L
Sbjct: 287 TPLRYLVELHL 297

>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 = 53.2 bits (128), Expect = 8e-08
 Identities = 40/184 (21%), Positives = 70/184 (38%), Gaps = 38/184 (20%)

Query: 273 SGKSLKSLPSGIF----------------------NLEFLTKLDLSGCSKLKRLPEISSG 310
           + + L  +P GI                       +L  L  L L        + +I  G
Sbjct: 62  TRRGLSEVPQGIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN----SIRQIEVG 117

Query: 311 ------NVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVL 362
                 ++  L L    +  +PS   + L +L  L L +   ++S+PS +  ++ SL  L
Sbjct: 118 AFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNN-PIESIPSYAFNRVPSLMRL 176

Query: 363 NLCGCSNLQRLPE-CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLP 421
           +L     L+ + E     L +   LNL   NI+ +P ++  L  L  L +S +  F  + 
Sbjct: 177 DLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMP-NLTPLVGLEELEMSGN-HFPEIR 234

Query: 422 KPLF 425
              F
Sbjct: 235 PGSF 238

>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 = 47.0 bits (112), Expect = 7e-06
 Identities = 32/143 (22%), Positives = 52/143 (36%), Gaps = 10/143 (6%)

Query: 298 CSK--LKRLPEISSGNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SL 353
           C++  L  +P+    N  +L L    I+ + +     L  L  L L     ++ +   + 
Sbjct: 61  CTRRGLSEVPQGIPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAF 119

Query: 354 CKLKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLL 411
             L SL  L L     L  +P      LS    L L    IE IP      +  L  L L
Sbjct: 120 NGLASLNTLELFDN-WLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDL 178

Query: 412 SYSERFQSLPKPLFLARGCLALE 434
              ++ + + +  F   G   L+
Sbjct: 179 GELKKLEYISEGAF--EGLFNLK 199

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

 Score = 67.2 bits (165), Expect = 2e-12
 Identities = 31/153 (20%), Positives = 67/153 (43%), Gaps = 9/153 (5%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGT 320
            L ++  L + +G+ + S+  GI  L  L  L+L+G  ++  +  +S+   +  L++   
Sbjct: 42  ELESITKLVV-AGEKVASIQ-GIEYLTNLEYLNLNGN-QITDISPLSNLVKLTNLYIGTN 98

Query: 321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQL 380
            I ++  ++  L  L  L L++   +  +   L  L  +  LNL    +       L  +
Sbjct: 99  KITDIS-ALQNLTNLRELYLNEDN-ISDIS-PLANLTKMYSLNLGAN-HNLSDLSPLSNM 154

Query: 381 SSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           +    L + ++ ++ +   I  L  L  L L+Y
Sbjct: 155 TGLNYLTVTESKVKDVTP-IANLTDLYSLSLNY 186

>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 = 62.6 bits (153), Expect = 6e-11
 Identities = 35/152 (23%), Positives = 60/152 (39%), Gaps = 9/152 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L NL  LNL +G  +  +   + NL  LT L +    K+  +  + +  N+  L+L    
Sbjct: 65  LTNLEYLNL-NGNQITDISP-LSNLVKLTNLYIGTN-KITDISALQNLTNLRELYLNEDN 121

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I ++   +  L ++  LNL       S  S L  +  L  L +     ++ +   +  L+
Sbjct: 122 ISDISP-LANLTKMYSLNLGAN-HNLSDLSPLSNMTGLNYLTVTES-KVKDVTP-IANLT 177

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L+L    IE I   +  L  L Y     
Sbjct: 178 DLYSLSLNYNQIEDI-SPLASLTSLHYFTAYV 208

>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 = 61.4 bits (150), Expect = 2e-10
 Identities = 32/152 (21%), Positives = 58/152 (38%), Gaps = 9/152 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L  +  LNL       S  S + N+  L  L ++   K+K +  I++  ++  L L    
Sbjct: 131 LTKMYSLNL-GANHNLSDLSPLSNMTGLNYLTVTES-KVKDVTPIANLTDLYSLSLNYNQ 188

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           IE++ S +  L  L Y      + +  +   +  +  L  L +     +  L   L  LS
Sbjct: 189 IEDI-SPLASLTSLHYFTAYVNQ-ITDITP-VANMTRLNSLKIGNN-KITDLSP-LANLS 243

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L +    I  I  ++  L  L+ L +  
Sbjct: 244 QLTWLEIGTNQISDIN-AVKDLTKLKMLNVGS 274

>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 = 52.2 bits (126), Expect = 1e-07
 Identities = 28/152 (18%), Positives = 58/152 (38%), Gaps = 8/152 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L +L          +  +   + N+  L  L +    K+  L  +++   + WL +    
Sbjct: 198 LTSLHYFTA-YVNQITDITP-VANMTRLNSLKIGNN-KITDLSPLANLSQLTWLEIGTNQ 254

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I ++ + +  L +L  LN+   + +  + S L  L  L  L L          E +G L+
Sbjct: 255 ISDINA-VKDLTKLKMLNVGSNQ-ISDI-SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLT 311

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           +   L L++ +I  I   +  L  +     + 
Sbjct: 312 NLTTLFLSQNHITDIRP-LASLSKMDSADFAN 342

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

 Score = 51.8 bits (125), Expect = 2e-07
 Identities = 24/134 (17%), Positives = 52/134 (38%), Gaps = 7/134 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           +  L  L +     +  L   + NL  LT L++    ++  +  +     +  L +    
Sbjct: 220 MTRLNSLKI-GNNKITDLS-PLANLSQLTWLEIGTN-QISDINAVKDLTKLKMLNVGSNQ 276

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I ++ S ++ L +L  L L++ +        +  L +L  L L    ++  +   L  LS
Sbjct: 277 ISDI-SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-HITDIRP-LASLS 333

Query: 382 SPIILNLAKTNIER 395
                + A   I++
Sbjct: 334 KMDSADFANQVIKK 347

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

 Score = 51.0 bits (123), Expect = 3e-07
 Identities = 33/157 (21%), Positives = 58/157 (36%), Gaps = 15/157 (9%)

Query: 275 KSLKSLPSGI------FNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTAIEELPS 327
            +L +LP+ I       +L    +  L     +  +       ++  L + G  +  +  
Sbjct: 3   ATLATLPAPINQIFPDADLAEGIRAVLQKA-SVTDVVTQEELESITKLVVAGEKVASIQ- 60

Query: 328 SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILN 387
            I+ L  L YLNL+   ++  +   L  L  L  L +   +N       L  L++   L 
Sbjct: 61  GIEYLTNLEYLNLNGN-QITDIS-PLSNLVKLTNLYI--GTNKITDISALQNLTNLRELY 116

Query: 388 LAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
           L + NI  I   +  L  +  L L  +    S   PL
Sbjct: 117 LNEDNISDIS-PLANLTKMYSLNLGAN-HNLSDLSPL 151

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

 Score = 66.6 bits (163), Expect = 3e-12
 Identities = 21/158 (13%), Positives = 51/158 (32%), Gaps = 12/158 (7%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFL 317
               ++  L+  +  ++  +            + L+   K+  L ++  G      +L L
Sbjct: 96  LVGPSIETLHA-ANNNISRVSCSRGQG--KKNIYLANN-KITMLRDLDEGCRSRVQYLDL 151

Query: 318 RGTAIEELP--SSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE 375
           +   I+ +           L +LNL     +  +   +     LK L+L     L  +  
Sbjct: 152 KLNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVV-FAKLKTLDLSSN-KLAFMGP 208

Query: 376 CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
                +    ++L    +  I +++     L +  L  
Sbjct: 209 EFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRG 246

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

 Score = 63.1 bits (154), Expect = 3e-11
 Identities = 24/176 (13%), Positives = 52/176 (29%), Gaps = 26/176 (14%)

Query: 251 IAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG 310
           I       L    + L  LNL     +  +   +     L  LDLS              
Sbjct: 156 IDTVNFAELAASSDTLEHLNL-QYNFIYDVKGQVV-FAKLKTLDLSSNK----------- 202

Query: 311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL 370
                      +  +         + +++L + K L  +  +L   ++L+  +L G    
Sbjct: 203 -----------LAFMGPEFQSAAGVTWISLRNNK-LVLIEKALRFSQNLEHFDLRGN-GF 249

Query: 371 QRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFL 426
                      +  +  +AK  ++++     +   +  L    +   + LP P   
Sbjct: 250 HCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFAD 305

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

 Score = 61.9 bits (151), Expect = 1e-10
 Identities = 19/169 (11%), Positives = 44/169 (26%), Gaps = 11/169 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC----WLFL 317
                 + L +   +  L          +  LDL    ++  +              L L
Sbjct: 119 GQGKKNIYL-ANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAASSDTLEHLNL 176

Query: 318 RGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL 377
           +   I ++   +    +L  L+LS   +L  +         +  ++L     L  + + L
Sbjct: 177 QYNFIYDVKGQVV-FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNN-KLVLIEKAL 233

Query: 378 GQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFL 426
               +    +L                  R   ++     + L      
Sbjct: 234 RFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQ-TVKKLTGQNEE 281

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

 Score = 59.2 bits (144), Expect = 6e-10
 Identities = 29/175 (16%), Positives = 60/175 (34%), Gaps = 17/175 (9%)

Query: 259 LMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC---W 314
           +    N   I  +     LK   + +  +   + +LDLSG   L ++             
Sbjct: 5   IKQNGNRYKIEKVTDSS-LKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLEL 62

Query: 315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP 374
           L L    + E    ++ L  L  L+L++   ++ L        S++ L+     N+ R+ 
Sbjct: 63  LNLSSNVLYETL-DLESLSTLRTLDLNNN-YVQELLV----GPSIETLHAANN-NISRVS 115

Query: 375 ECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLAR 428
               +      + LA   I  + +        ++YL L  +    ++      A 
Sbjct: 116 --CSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAAS 167

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

 Score = 50.8 bits (122), Expect = 3e-07
 Identities = 32/151 (21%), Positives = 55/151 (36%), Gaps = 15/151 (9%)

Query: 279 SLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELP-SSIDRLRR 334
           ++     N        ++    LK+       S+ NV  L L G  + ++  + +    +
Sbjct: 1   AIHEIKQNGNRYKIEKVTDS-SLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTK 59

Query: 335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE 394
           L  LNLS    L      L  L +L+ L+L     +Q L        S   L+ A  NI 
Sbjct: 60  LELLNLSSNV-LYETL-DLESLSTLRTLDLNNN-YVQELL----VGPSIETLHAANNNIS 112

Query: 395 RIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
           R+  S  Q    + + L+ + +   L     
Sbjct: 113 RVSCSRGQG--KKNIYLANN-KITMLRDLDE 140

>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 = 67.0 bits (164), Expect = 4e-12
 Identities = 41/173 (23%), Positives = 63/173 (36%), Gaps = 17/173 (9%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG------NVCWL 315
           L NL  L +     L  +    F  L  L +L L  C     L  I +        +  L
Sbjct: 127 LYNLKSLEV-GDNDLVYISHRAFSGLNSLEQLTLEKC----NLTSIPTEALSHLHGLIVL 181

Query: 316 FLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP 374
            LR   I  +      RL RL  L +S    L ++  +     +L  L++  C NL  +P
Sbjct: 182 RLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVP 240

Query: 375 EC-LGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
              +  L     LNL+   I  I  S++  L  L+ + L    +   +    F
Sbjct: 241 YLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGG-QLAVVEPYAF 292

>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 = 49.7 bits (119), Expect = 1e-06
 Identities = 31/154 (20%), Positives = 57/154 (37%), Gaps = 26/154 (16%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
           RL  L +L +     L ++         LT L ++ C  L  +P                
Sbjct: 198 RLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVP---------------- 240

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPEC-LGQ 379
                 ++  L  L +LNLS    + ++    L +L  L+ + L G   L  +       
Sbjct: 241 ----YLAVRHLVYLRFLNLSYNP-ISTIEGSMLHELLRLQEIQLVGG-QLAVVEPYAFRG 294

Query: 380 LSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLS 412
           L+   +LN++   +  + ES+   +  L  L+L 
Sbjct: 295 LNYLRVLNVSGNQLTTLEESVFHSVGNLETLILD 328

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

 Score = 43.6 bits (103), Expect = 1e-04
 Identities = 25/134 (18%), Positives = 51/134 (38%), Gaps = 9/134 (6%)

Query: 298 CS--KLKRLPEISSGNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SL 353
           C   +   +PE        L L    I+ L          L  L L++   + ++   + 
Sbjct: 18  CHRKRFVAVPEGIPTETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAF 76

Query: 354 CKLKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLL 411
             L +L+ L L     L+ +P      LS+   L++++  I  + + + Q L+ L+ L +
Sbjct: 77  NNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEV 135

Query: 412 SYSERFQSLPKPLF 425
             +     +    F
Sbjct: 136 GDN-DLVYISHRAF 148

>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 = 67.3 bits (165), Expect = 4e-12
 Identities = 38/182 (20%), Positives = 73/182 (40%), Gaps = 12/182 (6%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEIS---SGNVCWLFL 317
           R + L  L++    ++  L   +   L  L  L+L    +L +L + +     N+  L L
Sbjct: 47  RYSQLTSLDV-GFNTISKLEPELCQKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELHL 104

Query: 318 RGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSL-PSSLCKLKSLKVLNLCGC--SNLQRL 373
              +I+++  +   + + L  L+LS    L S    +  +L++L+ L L       L+  
Sbjct: 105 MSNSIQKIKNNPFVKQKNLITLDLSHNG-LSSTKLGTQVQLENLQELLLSNNKIQALKSE 163

Query: 374 PECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLA 432
              +   SS   L L+   I+   P     +  L  L L+  +   SL + L L     +
Sbjct: 164 ELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTS 223

Query: 433 LE 434
           + 
Sbjct: 224 IR 225

>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 = 62.3 bits (152), Expect = 2e-10
 Identities = 39/163 (23%), Positives = 67/163 (41%), Gaps = 13/163 (7%)

Query: 263 LNNLVILNLRS-GKSLKSLPSGIF---NLEFLTKLDLSGCSKLKRLPEISSGNVC---WL 315
           L NL  L+L +   SL++L +  F       L  L+L+   K+ ++   +   +     L
Sbjct: 352 LINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKN-KISKIESDAFSWLGHLEVL 410

Query: 316 FLRGTAIEEL--PSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGC--SNLQ 371
            L    I +         L  +  + LS  K L+   +S   + SL+ L L      N+ 
Sbjct: 411 DLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVD 470

Query: 372 RLPECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSY 413
             P     L +  IL+L+  NI  I + +++ L  L  L L +
Sbjct: 471 SSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQH 513

>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 = 61.2 bits (149), Expect = 3e-10
 Identities = 40/195 (20%), Positives = 67/195 (34%), Gaps = 50/195 (25%)

Query: 265 NLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEE 324
           +  + +  S   L  +P  +     +T L+L+   +L+RLP                   
Sbjct: 5   SHEVADC-SHLKLTQVPDDLPT--NITVLNLTHN-QLRRLP------------------- 41

Query: 325 LPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL-------------CGCSNLQ 371
             ++  R  +L  L++      K  P    KL  LKVLNL               C+NL 
Sbjct: 42  -AANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLT 100

Query: 372 RL-----------PECLGQLSSPIILNLAKTNIERIPESII-QLFVLRYLLLSYSERFQS 419
            L                +  + I L+L+   +         QL  L+ LLLS + + Q+
Sbjct: 101 ELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNN-KIQA 159

Query: 420 LPKPLFLARGCLALE 434
           L           +L+
Sbjct: 160 LKSEELDIFANSSLK 174

>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 = 56.2 bits (136), Expect = 1e-08
 Identities = 38/176 (21%), Positives = 59/176 (33%), Gaps = 16/176 (9%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFLR 318
             NL  L+L    S++ + +  F   + L  LDLS    L      +   +     L L 
Sbjct: 96  CTNLTELHL-MSNSIQKIKNNPFVKQKNLITLDLSHN-GLSSTKLGTQVQLENLQELLLS 153

Query: 319 GTAIEELPS---SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE 375
              I+ L S    I     L  L LS  +  +  P     +  L  L L        L E
Sbjct: 154 NNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTE 213

Query: 376 CLG---QLSSPIILNLAKTNIERIPESII---QLFVLRYLLLSYSERFQSLPKPLF 425
            L      +S   L+L+ + +     +     +   L  L LSY+     +    F
Sbjct: 214 KLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYN-NLNVVGNDSF 268

>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 = 54.6 bits (132), Expect = 4e-08
 Identities = 35/170 (20%), Positives = 54/170 (31%), Gaps = 20/170 (11%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF---NLEFLTKLDLSGCSKLKRLPEISSGNVCW----- 314
           +  L  L L + +   SL   +        +  L LS    L      +   + W     
Sbjct: 194 IGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQ-LSTTSNTTFLGLKWTNLTM 252

Query: 315 LFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRL 373
           L L    +  +   S   L +L Y  L           SL  L +++ LNL      Q +
Sbjct: 253 LDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSI 312

Query: 374 ---------PECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSY 413
                          L     LN+   +I  I  ++   L  L+YL LS 
Sbjct: 313 SLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSN 362

>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 = 53.1 bits (128), Expect = 1e-07
 Identities = 39/179 (21%), Positives = 64/179 (35%), Gaps = 20/179 (11%)

Query: 241 QIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCS 299
           Q +      L     +P     L NL IL+L S  ++ ++   +   LE L  LDL    
Sbjct: 457 QRLMLRRVALKNVDSSPSPFQPLRNLTILDL-SNNNIANINDDMLEGLEKLEILDLQHN- 514

Query: 300 KLKRLPEISSGNVCWLFLRG-TAIEEL-----------PSSIDRLRRLGYLNLSDCKRLK 347
            L RL + ++      FL+G + +  L                 L  L  ++L     L 
Sbjct: 515 NLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLN-NLN 573

Query: 348 SL-PSSLCKLKSLKVLNLCGCSNLQRLPE--CLGQLSSPIILNLAKTNIERIPESIIQL 403
           +L  S      SLK LNL   + +  + +        +   L++     +   ESI   
Sbjct: 574 TLPASVFNNQVSLKSLNLQK-NLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWF 631

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 64.9 bits (159), Expect = 9e-12
 Identities = 35/158 (22%), Positives = 63/158 (39%), Gaps = 28/158 (17%)

Query: 262 RLNNLVILNLRSGKSL---KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLR 318
           +   +  L+L SG +L     +PS + NL +L  L + G + L        G        
Sbjct: 48  QTYRVNNLDL-SGLNLPKPYPIPSSLANLPYLNFLYIGGINNL-------VG-------- 91

Query: 319 GTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ-RLPECL 377
                 +P +I +L +L YL ++      ++P  L ++K+L  L+      L   LP  +
Sbjct: 92  -----PIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYN-ALSGTLPPSI 145

Query: 378 GQLSSPIILNLAKTNIE-RIPESIIQLFVL-RYLLLSY 413
             L + + +      I   IP+S      L   + +S 
Sbjct: 146 SSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISR 183

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 57.2 bits (139), Expect = 3e-09
 Identities = 31/186 (16%), Positives = 62/186 (33%), Gaps = 41/186 (22%)

Query: 262 RLNNLVILNLR----SGKSLKSLPSGIFNLEFLTKLDLSG-------------CSKLKRL 304
           +L  L  L +     SG    ++P  +  ++ L  LD S                 L  +
Sbjct: 99  KLTQLHYLYITHTNVSG----AIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGI 154

Query: 305 ------------PEIS--SGNVCWLFLRGTAIE-ELPSSIDRLRRLGYLNLSDCKRLKSL 349
                             S     + +    +  ++P +   L  L +++LS        
Sbjct: 155 TFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDA 213

Query: 350 PSSLCKLKSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLR 407
                  K+ + ++L    +L   L + +G   +   L+L    I   +P+ + QL  L 
Sbjct: 214 SVLFGSDKNTQKIHLAKN-SLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLH 271

Query: 408 YLLLSY 413
            L +S+
Sbjct: 272 SLNVSF 277

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 63.8 bits (156), Expect = 1e-11
 Identities = 37/176 (21%), Positives = 76/176 (43%), Gaps = 17/176 (9%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLP-EISSG--NVCWLFL 317
               L +L+L S   ++++  G + +L  L+ L L+G + ++ L     SG  ++  L  
Sbjct: 50  SFPELQVLDL-SRCEIQTIEDGAYQSLSHLSTLILTG-NPIQSLALGAFSGLSSLQKLVA 107

Query: 318 RGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPSS--LCKLKSLKVLNLCGCSNLQRLP 374
             T +  L +     L+ L  LN++    ++S         L +L+ L+L     +Q + 
Sbjct: 108 VETNLASLENFPIGHLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIY 165

Query: 375 EC----LGQLSSPII-LNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
                 L Q+    + L+L+   +  I     +   L+ L L  + + +S+P  +F
Sbjct: 166 CTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALD-TNQLKSVPDGIF 220

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 53.8 bits (130), Expect = 3e-08
 Identities = 36/189 (19%), Positives = 61/189 (32%), Gaps = 42/189 (22%)

Query: 273 SGKSLKSLPSGIF----------------------NLEFLTKLDLSGCSKLKRLPE---I 307
              +   +P  +                       +   L  LDLS C +++ + +    
Sbjct: 15  MELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQ 73

Query: 308 SSGNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLC 365
           S  ++  L L G  I+ L       L  L  L   +   L SL +     LK+LK LN+ 
Sbjct: 74  SLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNV- 131

Query: 366 GCSNLQRLPEC-----LGQLSSPIILNLAKTNIERIPESI----IQLFVLRYLLLSYSER 416
             + +Q          L  L     L+L+   I+ I  +      Q+ +L   L      
Sbjct: 132 AHNLIQSFKLPEYFSNLTNLE---HLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNP 188

Query: 417 FQSLPKPLF 425
              +    F
Sbjct: 189 MNFIQPGAF 197

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 64.5 bits (157), Expect = 2e-11
 Identities = 33/167 (19%), Positives = 59/167 (35%), Gaps = 25/167 (14%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
             +L  + +     L+ + + +F NL  L ++ +   + L  +                 
Sbjct: 53  FGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYIN---------------- 96

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPECL--G 378
               P +   L  L YL +S+   +K LP           +L++    N+  +      G
Sbjct: 97  ----PEAFQNLPNLQYLLISNTG-IKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVG 151

Query: 379 QLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
                +IL L K  I+ I  S      L  L LS +   + LP  +F
Sbjct: 152 LSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVF 198

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 60.6 bits (147), Expect = 3e-10
 Identities = 41/167 (24%), Positives = 67/167 (40%), Gaps = 12/167 (7%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLR 318
           L  L  + +    +L  +    F NL  L  L +S    +K LP+   I S     L ++
Sbjct: 78  LPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQ 136

Query: 319 G-TAIEELPS-SIDRLR-RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE 375
               I  +   S   L      L L+    ++ + +S      L  LNL   +NL+ LP 
Sbjct: 137 DNINIHTIERNSFVGLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSDNNNLEELPN 195

Query: 376 -CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLP 421
                 S P+IL++++T I  +P     L  L+ L    +   + LP
Sbjct: 196 DVFHGASGPVILDISRTRIHSLPSYG--LENLKKLRARSTYNLKKLP 240

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 53.7 bits (129), Expect = 5e-08
 Identities = 22/139 (15%), Positives = 46/139 (33%), Gaps = 5/139 (3%)

Query: 291 TKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSL 349
                   SK+  +P     N   L    T +  +          L  + +S    L+ +
Sbjct: 12  RVFLCQE-SKVTEIPSDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVI 70

Query: 350 PSS-LCKLKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAKTNIERIPESI-IQLFVL 406
            +     L  L  + +   +NL  +  E    L +   L ++ T I+ +P+   I     
Sbjct: 71  EADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQK 130

Query: 407 RYLLLSYSERFQSLPKPLF 425
             L +  +    ++ +  F
Sbjct: 131 VLLDIQDNINIHTIERNSF 149

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 26/125 (20%), Positives = 50/125 (40%), Gaps = 12/125 (9%)

Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIF-NLEF-LTKLDLSGCSKLKRLPE---ISSGN 311
            +        V+L+++   ++ ++    F  L F    L L+    ++ +       +  
Sbjct: 121 DVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKN-GIQEIHNSAFNGTQL 179

Query: 312 VCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSN 369
                     +EELP+ +         L++S   R+ SLPS  L  LK L+  +     N
Sbjct: 180 DELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLPSYGLENLKKLRARST---YN 235

Query: 370 LQRLP 374
           L++LP
Sbjct: 236 LKKLP 240

>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 = 64.9 bits (158), Expect = 2e-11
 Identities = 21/158 (13%), Positives = 52/158 (32%), Gaps = 12/158 (7%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFL 317
               ++  L+  +  ++  +            + L+   K+  L ++  G      +L L
Sbjct: 96  LVGPSIETLHA-ANNNISRVSCSRGQ--GKKNIYLANN-KITMLRDLDEGCRSRVQYLDL 151

Query: 318 RGTAIEELPSS--IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE 375
           +   I+ +  +        L +LNL     +  +   +     LK L+L     L  +  
Sbjct: 152 KLNEIDTVNFAELAASSDTLEHLNLQYN-FIYDVKGQVV-FAKLKTLDLSSN-KLAFMGP 208

Query: 376 CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
                +    ++L    +  I +++     L +  L  
Sbjct: 209 EFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRG 246

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 59.9 bits (145), Expect = 8e-10
 Identities = 23/199 (11%), Positives = 55/199 (27%), Gaps = 11/199 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC----WLFL 317
                 + L +   +  L          +  LDL   +++  +              L L
Sbjct: 119 GQGKKNIYL-ANNKITMLRDLDEGCRSRVQYLDLKL-NEIDTVNFAELAASSDTLEHLNL 176

Query: 318 RGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL 377
           +   I ++   +    +L  L+LS   +L  +         +  ++L     L  + + L
Sbjct: 177 QYNFIYDVKGQVV-FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNN-KLVLIEKAL 233

Query: 378 GQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFL 437
               +    +L                  R   ++     + L            L  + 
Sbjct: 234 RFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQ-TVKKLTGQNEEECTVPTLGHYG 292

Query: 438 GIIEDTQRIPHSDHMLAID 456
               +    P +D ++A+ 
Sbjct: 293 AYCCEDLPAPFADRLIALK 311

>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 = 57.5 bits (139), Expect = 4e-09
 Identities = 24/175 (13%), Positives = 52/175 (29%), Gaps = 26/175 (14%)

Query: 251 IAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG 310
           I       L    + L  LNL     +  +   +     L  LDLS              
Sbjct: 156 IDTVNFAELAASSDTLEHLNL-QYNFIYDVKGQVV-FAKLKTLDLSSNK----------- 202

Query: 311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL 370
                      +  +         + +++L + K L  +  +L   ++L+  +L G    
Sbjct: 203 -----------LAFMGPEFQSAAGVTWISLRNNK-LVLIEKALRFSQNLEHFDLRGN-GF 249

Query: 371 QRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
                      +  +  +AK  ++++     +   +  L    +   + LP P  
Sbjct: 250 HCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFA 304

>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 = 57.2 bits (138), Expect = 5e-09
 Identities = 30/170 (17%), Positives = 61/170 (35%), Gaps = 17/170 (10%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFLR 318
            N   I  + +  SLK   + +  +   + +LDLSG   L ++             L L 
Sbjct: 9   GNRYKIEKV-TDSSLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAPFTKLELLNLS 66

Query: 319 GTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG 378
              + E    ++ L  L  L+L++   ++ L        S++ L+     N+ R+     
Sbjct: 67  SNVLYETL-DLESLSTLRTLDLNNN-YVQELLV----GPSIETLHAANN-NISRVSC--S 117

Query: 379 QLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLA 427
           +      + LA   I  + +        ++YL L  +    ++      A
Sbjct: 118 RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELAA 166

>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 = 45.2 bits (107), Expect = 3e-05
 Identities = 32/139 (23%), Positives = 53/139 (38%), Gaps = 14/139 (10%)

Query: 279 SLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEEL-PSSIDRLRR 334
           ++     N        ++  S LK+       S+ NV  L L G  + ++  + +    +
Sbjct: 1   AIHEIKQNGNRYKIEKVTD-SSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTK 59

Query: 335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE 394
           L  LNLS    L      L  L +L+ L+L     +Q L        S   L+ A  NI 
Sbjct: 60  LELLNLSSN-VLYETL-DLESLSTLRTLDLNNN-YVQELL----VGPSIETLHAANNNIS 112

Query: 395 RIPESIIQLFVLRYLLLSY 413
           R+  S  Q    + + L+ 
Sbjct: 113 RVSCSRGQG--KKNIYLAN 129

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 19/176 (10%), Positives = 49/176 (27%), Gaps = 10/176 (5%)

Query: 251 IAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSK-----LKRLP 305
                      +   +  +  ++ K L         +  L       C         RL 
Sbjct: 249 FHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRLI 308

Query: 306 EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCK-LKSLKVLNL 364
            +       L  +G+  E L    +   R   ++     + +++   +    ++   L  
Sbjct: 309 ALKRKEHALLSGQGSETERLECERENQARQREIDALKE-QYRTVIDQVTLRKQAKITLEQ 367

Query: 365 CG---CSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERF 417
                   +        +L   +   + +  ++   E    L +LR ++  Y E +
Sbjct: 368 KKKALDEQVSNGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEMY 423

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 64.7 bits (158), Expect = 3e-11
 Identities = 35/178 (19%), Positives = 69/178 (38%), Gaps = 16/178 (8%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEIS---SGNVCWLFL 317
             + L  L+L S   ++++    +  L  L+ L L+G   ++     S     ++  L  
Sbjct: 54  NFSELQWLDL-SRCEIETIEDKAWHGLHHLSNLILTGN-PIQSFSPGSFSGLTSLENLVA 111

Query: 318 RGTAIEELPS-SIDRLRRLGYLNLSDCKRLKS--LPSSLCKLKSLKVLNLCGCSNLQRLP 374
             T +  L S  I +L  L  LN++    + S  LP+    L +L  ++L     +Q + 
Sbjct: 112 VETKLASLESFPIGQLITLKKLNVAHN-FIHSCKLPAYFSNLTNLVHVDLSYN-YIQTIT 169

Query: 375 EC----LGQLSSPII-LNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLA 427
                 L +     + L+++   I+ I +   Q   L  L L  +    ++ K     
Sbjct: 170 VNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQN 227

>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 = 62.4 bits (152), Expect = 2e-10
 Identities = 38/180 (21%), Positives = 60/180 (33%), Gaps = 24/180 (13%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI 307
           N L             N+L  L+L S      + +    LE L  LD    S LKR+ E 
Sbjct: 360 NALSFSGCCSYSDLGTNSLRHLDL-SFNGAIIMSANFMGLEELQHLDFQH-STLKRVTE- 416

Query: 308 SSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGC 367
                              S+   L +L YL++S              L SL  L + G 
Sbjct: 417 ------------------FSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGN 458

Query: 368 SNLQRLPEC-LGQLSSPIILNLAKTNIERIPESIIQLFV-LRYLLLSYSERFQSLPKPLF 425
           S             ++   L+L+K  +E+I   +      L+ L +S++     L    +
Sbjct: 459 SFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSHY 517

>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 = 55.4 bits (134), Expect = 2e-08
 Identities = 31/156 (19%), Positives = 50/156 (32%), Gaps = 25/156 (16%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRL 332
             + L  +P  I +      +DLS    LK L                       S    
Sbjct: 19  MDQKLSKVPDDIPS--STKNIDLSFN-PLKILK--------------------SYSFSNF 55

Query: 333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN 392
             L +L+LS C+       +   L  L  L L G       P     L+S   L   +T 
Sbjct: 56  SELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETK 115

Query: 393 IERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLFLA 427
           +  +    I  L  L+ L ++++    S   P + +
Sbjct: 116 LASLESFPIGQLITLKKLNVAHN-FIHSCKLPAYFS 150

>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 = 54.7 bits (132), Expect = 4e-08
 Identities = 41/220 (18%), Positives = 70/220 (31%), Gaps = 32/220 (14%)

Query: 233 NTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLR-SGKSLKSLPSGIF-NLEFL 290
             H  +L          L  +   P +M  L ++ I   R +  +  S     F  L  +
Sbjct: 230 GLHVHRLILGEFKDERNL--EIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANV 287

Query: 291 TKLDLSGCS---------------------KLKRLPEISSGNVCWLFLRGTAIEELPSSI 329
           + + L+G S                     +LK+ P +    +  L L           +
Sbjct: 288 SAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSISFKKV 347

Query: 330 DRLRRLGYLNLSDCK--RLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILN 387
             L  L YL+LS            S     SL+ L+L        +      L     L+
Sbjct: 348 A-LPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFN-GAIIMSANFMGLEELQHLD 405

Query: 388 LAKTNIERIPESII--QLFVLRYLLLSYSERFQSLPKPLF 425
              + ++R+ E      L  L YL +SY+   +     +F
Sbjct: 406 FQHSTLKRVTEFSAFLSLEKLLYLDISYT-NTKIDFDGIF 444

>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 = 48.1 bits (115), Expect = 4e-06
 Identities = 26/176 (14%), Positives = 61/176 (34%), Gaps = 22/176 (12%)

Query: 264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFLRGT 320
              + L++ S   +  +    F    L +L L G      + +    N+       L   
Sbjct: 181 QVNLSLDM-SLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILG 239

Query: 321 AIEEL-------PSSIDRLRRLGY--LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ 371
             ++        PS ++ L  +      L+              L ++  ++L G  +++
Sbjct: 240 EFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGV-SIK 298

Query: 372 RLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY-----SERFQSLPK 422
            L + + +      L++ +  +++ P     L  L+ L L+      S +  +LP 
Sbjct: 299 YLED-VPKHFKWQSLSIIRCQLKQFPTL--DLPFLKSLTLTMNKGSISFKKVALPS 351

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

 Score = 64.3 bits (157), Expect = 3e-11
 Identities = 49/172 (28%), Positives = 73/172 (42%), Gaps = 12/172 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGN---VCWLFLRG 319
            + L  L+L +   L  LPSG+  L  L KL LS   K + L +IS+ N   +  L ++G
Sbjct: 277 FSGLQELDL-TATHLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKG 334

Query: 320 TAI--EELPSSIDRLRRLGYLNLSDCK--RLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE 375
                E     ++ L  L  L+LS             L  L  L+ LNL     L    E
Sbjct: 335 NTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTE 394

Query: 376 CLGQLSSPIILNLAKTNIERI-PESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
              +     +L+LA T ++    +S  Q L +L+ L LS+S       + LF
Sbjct: 395 AFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHS-LLDISSEQLF 445

>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 = 61.2 bits (149), Expect = 4e-10
 Identities = 40/184 (21%), Positives = 62/184 (33%), Gaps = 29/184 (15%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE 306
           + +       + +  L++L  LNL S     SL +  F     L  LDL+   +LK    
Sbjct: 360 DDIETSDCCNLQLRNLSHLQSLNL-SYNEPLSLKTEAFKECPQLELLDLAFT-RLKVKDA 417

Query: 307 ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLC 365
                               S    L  L  LNLS    L          L +L+ LNL 
Sbjct: 418 -------------------QSPFQNLHLLKVLNLSHS-LLDISSEQLFDGLPALQHLNLQ 457

Query: 366 GCS---NLQRLPECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLP 421
           G        +    L  L    IL L+  ++  I +     L ++ ++ LS++ R  S  
Sbjct: 458 GNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHN-RLTSSS 516

Query: 422 KPLF 425
               
Sbjct: 517 IEAL 520

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

 Score = 58.5 bits (142), Expect = 3e-09
 Identities = 31/197 (15%), Positives = 60/197 (30%), Gaps = 37/197 (18%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC-----WLF 316
              L  L L     + S+        E L  LD      +  L +    ++       L 
Sbjct: 128 QKTLESLYL-GSNHISSIKLPKGFPTEKLKVLDFQNN-AIHYLSKEDMSSLQQATNLSLN 185

Query: 317 LRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSL--CKLKSLKVLNL---------- 364
           L G  I  +            LN    + L  +   L    ++SL +             
Sbjct: 186 LNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISP 245

Query: 365 -----CGCSNLQRL-----------PECLGQLSSPIILNLAKTNIERIPESIIQLFVLRY 408
                    +++ +                  S    L+L  T++  +P  ++ L  L+ 
Sbjct: 246 AVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKK 305

Query: 409 LLLSYSERFQSLPKPLF 425
           L+LS + +F++L +   
Sbjct: 306 LVLSAN-KFENLCQISA 321

>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 = 53.9 bits (130), Expect = 7e-08
 Identities = 22/135 (16%), Positives = 40/135 (29%), Gaps = 4/135 (2%)

Query: 293 LDLSGCSKLKRLPEISSGNVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPS 351
            +      L  +P     +   L      +  +  ++  RL  L +L+L+ C+       
Sbjct: 17  YNCENLG-LNEIPGTLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHED 75

Query: 352 SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLL 410
           +      L  L L     +      L    +   L   +T I  I    +     L  L 
Sbjct: 76  TFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLY 135

Query: 411 LSYSERFQSLPKPLF 425
           L  +    S+  P  
Sbjct: 136 LGSN-HISSIKLPKG 149

>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 = 53.1 bits (128), Expect = 1e-07
 Identities = 38/153 (24%), Positives = 54/153 (35%), Gaps = 24/153 (15%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
           L+ L +LNL S   L      +F  L  L  L+L G     +                  
Sbjct: 424 LHLLKVLNL-SHSLLDISSEQLFDGLPALQHLNLQGNH-FPKGNIQK------------- 468

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPECLGQL 380
                +S+  L RL  L LS C  L S+   +   LK +  ++L     L          
Sbjct: 469 ----TNSLQTLGRLEILVLSFC-DLSSIDQHAFTSLKMMNHVDLSHN-RLTSSSIEALSH 522

Query: 381 SSPIILNLAKTNIERIPESIIQ-LFVLRYLLLS 412
              I LNLA  +I  I  S++  L   R + L 
Sbjct: 523 LKGIYLNLASNHISIILPSLLPILSQQRTINLR 555

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

 Score = 63.9 bits (156), Expect = 3e-11
 Identities = 35/172 (20%), Positives = 72/172 (41%), Gaps = 14/172 (8%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG---NVCWLFL 317
            LNN  I+      +++ LP+ +  +   +  L+L+   +++ +   +      +  L++
Sbjct: 43  TLNNQKIVTF-KNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYM 100

Query: 318 RGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSNLQRLP- 374
              AI  LP  +   +  L  L L     L SLP  +      L  L++    NL+R+  
Sbjct: 101 GFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSNN-NLERIED 158

Query: 375 ECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFL 426
           +     +S   L L+   +  +  S+I    L +  +SY+    +L  P+ +
Sbjct: 159 DTFQATTSLQNLQLSSNRLTHVDLSLIPS--LFHANVSYN-LLSTLAIPIAV 207

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

 Score = 62.4 bits (152), Expect = 8e-11
 Identities = 26/164 (15%), Positives = 61/164 (37%), Gaps = 11/164 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
           + +L   N+ S   L +L         + +LD S    +  +    +  +  L L+   +
Sbjct: 185 IPSLFHANV-SYNLLSTLA----IPIAVEELDASHN-SINVVRGPVNVELTILKLQHNNL 238

Query: 323 EELPSSIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
            +    +     L  ++LS    L+ +      K++ L+ L +   + L  L      + 
Sbjct: 239 TDTAW-LLNYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISN-NRLVALNLYGQPIP 295

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
           +  +L+L+  ++  +  +  Q   L  L L ++    +L     
Sbjct: 296 TLKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLSTH 338

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

 Score = 64.5 bits (157), Expect = 4e-11
 Identities = 43/228 (18%), Positives = 86/228 (37%), Gaps = 31/228 (13%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNW--GVRKIYEIEALENH 59
           + L++ DDV        ++++ D      +I++TTR+K V  +       +     L   
Sbjct: 237 RSLLILDDV----WDPWVLKAFD---NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289

Query: 60  HALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYE----------REK 109
             LE+ S      N         +  ++K  +G PL + ++G  L +          + +
Sbjct: 290 KGLEILSLFV---NMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQ 346

Query: 110 EVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNL----VMKFL 165
                 I K     + ++ E + IS + L    K+ + D++     +DV +    +    
Sbjct: 347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSIL--QKDVKVPTKVLCVLW 404

Query: 166 NASGFYPEIGISVLVDKSLIAI---GSYNKIRMHDLLQELGREIVRQE 210
           +      E  +   V+KSL+     G      +HDL  +   E  R +
Sbjct: 405 DLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ 452

>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 = 63.4 bits (154), Expect = 6e-11
 Identities = 26/164 (15%), Positives = 61/164 (37%), Gaps = 11/164 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
           + +L   N+ S   L +L         + +LD S    +  +    +  +  L L+   +
Sbjct: 191 IPSLFHANV-SYNLLSTLA----IPIAVEELDASHN-SINVVRGPVNVELTILKLQHNNL 244

Query: 323 EELPSSIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
            +    +     L  ++LS    L+ +      K++ L+ L +   + L  L      + 
Sbjct: 245 TDTAW-LLNYPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYISN-NRLVALNLYGQPIP 301

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
           +  +L+L+  ++  +  +  Q   L  L L ++    +L     
Sbjct: 302 TLKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLSTH 344

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 61.7 bits (150), Expect = 8e-11
 Identities = 40/161 (24%), Positives = 62/161 (38%), Gaps = 18/161 (11%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
             ++L +LP  +      T L LS  + L        +    +  L L    + +L    
Sbjct: 18  DKRNLTALPPDLPKD--TTILHLSE-NLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD- 73

Query: 330 DRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE----CLGQLSSPII 385
             L  LG L+LS   +L+SLP     L +L VL++     L  LP      LG+L     
Sbjct: 74  GTLPVLGTLDLSH-NQLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQE--- 128

Query: 386 LNLAKTNIERIPESI-IQLFVLRYLLLSYSERFQSLPKPLF 425
           L L    ++ +P  +      L  L L+ +     LP  L 
Sbjct: 129 LYLKGNELKTLPPGLLTPTPKLEKLSLANN-NLTELPAGLL 168

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 60.5 bits (147), Expect = 2e-10
 Identities = 46/170 (27%), Positives = 70/170 (41%), Gaps = 18/170 (10%)

Query: 265 NLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTAI 322
           +  IL+L S   L +           LT+L+L    +L +L    +   +  L L    +
Sbjct: 32  DTTILHL-SENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQVDGTLPVLGTLDLSHNQL 89

Query: 323 EELPSSIDRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSN-LQRLPE----C 376
           + LP     L  L  L++S  + L SLP      L  L+ L L G  N L+ LP      
Sbjct: 90  QSLPLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKG--NELKTLPPGLLTP 146

Query: 377 LGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
             +L     L+LA  N+  +P  ++  L  L  LLL       ++PK  F
Sbjct: 147 TPKLE---KLSLANNNLTELPAGLLNGLENLDTLLLQ-ENSLYTIPKGFF 192

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 52.4 bits (126), Expect = 9e-08
 Identities = 34/123 (27%), Positives = 51/123 (41%), Gaps = 14/123 (11%)

Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNV 312
           P+L   L  L +L++   + L SLP G    L  L +L L G ++LK LP      +  +
Sbjct: 93  PLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKL 150

Query: 313 CWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL------C 365
             L L    + ELP+ + + L  L  L L +   L ++P        L    L      C
Sbjct: 151 EKLSLANNNLTELPAGLLNGLENLDTLLLQE-NSLYTIPKGFFGSHLLPFAFLHGNPWLC 209

Query: 366 GCS 368
            C 
Sbjct: 210 NCE 212

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 60.8 bits (148), Expect = 1e-10
 Identities = 29/171 (16%), Positives = 62/171 (36%), Gaps = 12/171 (7%)

Query: 265 NLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGT 320
           +   L L     L+++PS  F NL  ++++ +S    L++L      +   V  + +R T
Sbjct: 32  STQTLKLIETH-LRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNT 90

Query: 321 -AIEELPSSI-DRLRRLGYLNLSDCKRLKSLP--SSLCKLKSLKVLNLCGCSNLQRLPEC 376
             +  +       L  L +L + +   LK  P  + +       +L +     +  +P  
Sbjct: 91  RNLTYIDPDALKELPLLKFLGIFNT-GLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVN 149

Query: 377 L--GQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
              G  +  + L L       +         L  + L+ ++    + K  F
Sbjct: 150 AFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAF 200

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 53.1 bits (128), Expect = 4e-08
 Identities = 25/158 (15%), Positives = 55/158 (34%), Gaps = 13/158 (8%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEIS-----SGNVCWLF 316
           L+ +  + +R+ ++L  +       L  L  L +     LK  P+++             
Sbjct: 79  LSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNT-GLKMFPDLTKVYSTDIFFILEI 137

Query: 317 LRGTAIEELPS-SIDRLRR-LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP 374
                +  +P  +   L      L L +     S+         L  + L     L  + 
Sbjct: 138 TDNPYMTSIPVNAFQGLCNETLTLKLYNN-GFTSVQGYAFNGTKLDAVYLNKNKYLTVID 196

Query: 375 ECL--GQLSSPIILNLAKTNIERIPESIIQ-LFVLRYL 409
           +    G  S P +L++++T++  +P   ++ L  L   
Sbjct: 197 KDAFGGVYSGPSLLDVSQTSVTALPSKGLEHLKELIAR 234

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 24/127 (18%), Positives = 38/127 (29%), Gaps = 22/127 (17%)

Query: 239 LNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGC 298
           +  I+    N  +   P        N  + L L       S+    FN   L  + L+  
Sbjct: 131 IFFILEITDNPYMTSIPVNAFQGLCNETLTLKL-YNNGFTSVQGYAFNGTKLDAVYLNKN 189

Query: 299 SKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLK 357
             L  + +              A   + S          L++S    + +LPS  L  LK
Sbjct: 190 KYLTVIDK-------------DAFGGVYSG------PSLLDVSQT-SVTALPSKGLEHLK 229

Query: 358 SLKVLNL 364
            L   N 
Sbjct: 230 ELIARNT 236

>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 = 62.2 bits (152), Expect = 2e-10
 Identities = 36/159 (22%), Positives = 61/159 (38%), Gaps = 9/159 (5%)

Query: 262 RLNNLVILNLRSGKSLK-SLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
             + L  L++ SG  L       I     L  L++S    +  +P +   ++ +L L   
Sbjct: 221 DCSALQHLDI-SGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAEN 279

Query: 321 AIE-ELPSSID-RLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ-RLP-EC 376
               E+P  +      L  L+LS      ++P        L+ L L    N    LP + 
Sbjct: 280 KFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN-NFSGELPMDT 338

Query: 377 LGQLSSPIILNLAKTNIE-RIPESIIQLFV-LRYLLLSY 413
           L ++    +L+L+       +PES+  L   L  L LS 
Sbjct: 339 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSS 377

>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 = 61.8 bits (151), Expect = 2e-10
 Identities = 31/186 (16%), Positives = 57/186 (30%), Gaps = 56/186 (30%)

Query: 257 PMLMPRLNNLVILNLR----SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNV 312
           P  +  L+ L  L L      G     +P  +  ++ L  L L                 
Sbjct: 435 PSSLGSLSKLRDLKLWLNMLEG----EIPQELMYVKTLETLILDFND------------- 477

Query: 313 CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL-------- 364
               L G    E+PS +     L +++LS+ +    +P  + +L++L +L L        
Sbjct: 478 ----LTG----EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGN 529

Query: 365 -----CGCSNLQRL-----------PECLGQLSSPIILNLAKTNIERIPESIIQLFVLRY 408
                  C +L  L           P  + + S  I  N            I    + + 
Sbjct: 530 IPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGK---RYVYIKNDGMKKE 586

Query: 409 LLLSYS 414
              + +
Sbjct: 587 CHGAGN 592

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

 Score = 59.5 bits (145), Expect = 1e-09
 Identities = 35/156 (22%), Positives = 58/156 (37%), Gaps = 30/156 (19%)

Query: 262 RLNNLVILNLRSGKSLK-SLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
           R  NL  L++ S  +    +P  + +   L  LD+SG                   L G 
Sbjct: 198 RCVNLEFLDV-SSNNFSTGIPF-LGDCSALQHLDISGNK-----------------LSG- 237

Query: 321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ-RLPECL-G 378
              +   +I     L  LN+S  + +  +P     LKSL+ L+L         +P+ L G
Sbjct: 238 ---DFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAEN-KFTGEIPDFLSG 291

Query: 379 QLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSY 413
              +   L+L+  +    +P       +L  L LS 
Sbjct: 292 ACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSS 327

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

 Score = 59.2 bits (144), Expect = 2e-09
 Identities = 38/193 (19%), Positives = 64/193 (33%), Gaps = 44/193 (22%)

Query: 259 LMPRLNNLVILNLR----SGKSLKSLPSGIFNLEFLTKLDLSG--------------CSK 300
           L    + L  L+L      G    ++P    +   L  L LS                  
Sbjct: 289 LSGACDTLTGLDLSGNHFYG----AVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRG 344

Query: 301 LKRL------------PEIS--SGNVCWLFLRGTAIE-ELPSSI--DRLRRLGYLNLSDC 343
           LK L              ++  S ++  L L        +  ++  +    L  L L + 
Sbjct: 345 LKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNN 404

Query: 344 KRLK-SLPSSLCKLKSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIE-RIPESI 400
                 +P +L     L  L+L   + L   +P  LG LS    L L    +E  IP+ +
Sbjct: 405 -GFTGKIPPTLSNCSELVSLHL-SFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQEL 462

Query: 401 IQLFVLRYLLLSY 413
           + +  L  L+L +
Sbjct: 463 MYVKTLETLILDF 475

>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 = 56.5 bits (137), Expect = 1e-08
 Identities = 30/162 (18%), Positives = 56/162 (34%), Gaps = 14/162 (8%)

Query: 264 NNLVILNLRSG---KSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRG 319
           + +  ++L S        ++ S + +L  L  L LS       +       ++  L L  
Sbjct: 50  DKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSR 109

Query: 320 TAIE-ELPS--SIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCS---NLQR 372
            ++   + +  S+     L +LN+S          S   KL SL+VL+L   S       
Sbjct: 110 NSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVV 169

Query: 373 LPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSY 413
                        L ++   I   +  S  +   L +L +S 
Sbjct: 170 GWVLSDGCGELKHLAISGNKISGDVDVS--RCVNLEFLDVSS 209

>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 = 49.5 bits (119), Expect = 2e-06
 Identities = 31/176 (17%), Positives = 57/176 (32%), Gaps = 28/176 (15%)

Query: 240 NQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGC- 298
            Q    A N +  K    +    +           +        +  L      +++   
Sbjct: 560 KQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRV 619

Query: 299 ---------SKLKRLPEIS-SGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLK- 347
                         +  +  S N     L G     +P  I  +  L  LNL     +  
Sbjct: 620 YGGHTSPTFDNNGSMMFLDMSYN----MLSG----YIPKEIGSMPYLFILNLG-HNDISG 670

Query: 348 SLPSSLCKLKSLKVLNLCGCS--NLQ-RLPECLGQLSSPIILNLAKTNIE-RIPES 399
           S+P  +  L+ L +L+L   S   L  R+P+ +  L+    ++L+  N+   IPE 
Sbjct: 671 SIPDEVGDLRGLNILDL---SSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 723

>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 = 61.6 bits (150), Expect = 2e-10
 Identities = 36/182 (19%), Positives = 69/182 (37%), Gaps = 16/182 (8%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVC---WLFL 317
               L +L+L S   ++++  G + +L  L+ L L+G   ++ L   +   +     L  
Sbjct: 50  SFPELQVLDL-SRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKLVA 107

Query: 318 RGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSL--PSSLCKLKSLKVLNLCGCSNLQRL- 373
             T +  L    I  L+ L  LN++    ++S   P     L +L+ L+L     +Q + 
Sbjct: 108 VETNLASLENFPIGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLDLSSN-KIQSIY 165

Query: 374 PECLGQLSS----PIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARG 429
              L  L       + L+L+   +  I     +   L  L L  +    ++ K       
Sbjct: 166 CTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLA 225

Query: 430 CL 431
            L
Sbjct: 226 GL 227

>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 = 61.2 bits (149), Expect = 3e-10
 Identities = 41/198 (20%), Positives = 70/198 (35%), Gaps = 34/198 (17%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI 307
           N L  K           +L  L+L S   + ++ S    LE L  LD      LK++ E 
Sbjct: 357 NGLSFKGCCSQSDFGTTSLKYLDL-SFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEF 414

Query: 308 SSG----NVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSL-PSSLCKLKSLKV 361
           S      N+ +L +  T          + L  L  L ++     ++  P    +L++L  
Sbjct: 415 SVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTF 474

Query: 362 LNL-------------CGCSNLQRL-----------PECLGQLSSPIILNLAKTNIERIP 397
           L+L                S+LQ L                 L+S  +L+ +  +I    
Sbjct: 475 LDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSK 534

Query: 398 ESIIQLFV--LRYLLLSY 413
           +  +Q F   L +L L+ 
Sbjct: 535 KQELQHFPSSLAFLNLTQ 552

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

 Score = 57.7 bits (140), Expect = 4e-09
 Identities = 31/156 (19%), Positives = 47/156 (30%), Gaps = 25/156 (16%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRL 332
              +   +P  +        LDLS    L+ L                       S    
Sbjct: 15  MELNFYKIPDNLPF--STKNLDLSFN-PLRHLG--------------------SYSFFSF 51

Query: 333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN 392
             L  L+LS C+       +   L  L  L L G             LSS   L   +TN
Sbjct: 52  PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 111

Query: 393 IER-IPESIIQLFVLRYLLLSYSERFQSLPKPLFLA 427
           +       I  L  L+ L ++++   QS   P + +
Sbjct: 112 LASLENFPIGHLKTLKELNVAHN-LIQSFKLPEYFS 146

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

 Score = 57.0 bits (138), Expect = 8e-09
 Identities = 31/167 (18%), Positives = 59/167 (35%), Gaps = 11/167 (6%)

Query: 253 KTPNPMLMPRLNNLVILNLRSGK---SLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS- 308
           +  +   +  L NL I   R       L  +      L  ++   L   + ++R+ + S 
Sbjct: 244 EKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVT-IERVKDFSY 302

Query: 309 SGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL--CG 366
           +     L L      + P+    L+ L  L  +  K       S   L SL+ L+L   G
Sbjct: 303 NFGWQHLELVNCKFGQFPTLK--LKSLKRLTFTSNK--GGNAFSEVDLPSLEFLDLSRNG 358

Query: 367 CSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
            S      +     +S   L+L+   +  +  + + L  L +L   +
Sbjct: 359 LSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH 405

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

 Score = 56.6 bits (137), Expect = 1e-08
 Identities = 38/180 (21%), Positives = 68/180 (37%), Gaps = 20/180 (11%)

Query: 262 RLNNLVILNLRSGKSLKSL------PSGIFNLEFLTKLDLSGCSKLKRLPEISSG----- 310
           +      L L+S K L              +L  L  LDLS  + L      S       
Sbjct: 315 KFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSR-NGLSFKGCCSQSDFGTT 373

Query: 311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSL--PSSLCKLKSLKVLNLCGCS 368
           ++ +L L    +  + S+   L +L +L+      LK +   S    L++L  L++    
Sbjct: 374 SLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHT- 431

Query: 369 NLQRL-PECLGQLSSPIILNLAKTNIER--IPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
           + +         LSS  +L +A  + +   +P+   +L  L +L LS   + + L    F
Sbjct: 432 HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAF 490

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

 Score = 59.6 bits (145), Expect = 4e-10
 Identities = 42/161 (26%), Positives = 64/161 (39%), Gaps = 17/161 (10%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG------NVCWL 315
           L  L  L+L     L+S+    F  L  L  L L  C     L E+  G       + +L
Sbjct: 79  LALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC----GLQELGPGLFRGLAALQYL 134

Query: 316 FLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRL 373
           +L+  A++ LP      L  L +L L    R+ S+P  +   L SL  L L     +  +
Sbjct: 135 YLQDNALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQN-RVAHV 192

Query: 374 PE-CLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLS 412
                  L   + L L   N+  +P   +  L  L+YL L+
Sbjct: 193 HPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN 233

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

 Score = 58.5 bits (142), Expect = 1e-09
 Identities = 38/160 (23%), Positives = 72/160 (45%), Gaps = 12/160 (7%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
             + L+++P GI       ++ L G +++  +P     +  N+  L+L    +  + ++ 
Sbjct: 19  PQQGLQAVPVGIP--AASQRIFLHG-NRISHVPAASFRACRNLTILWLHSNVLARIDAAA 75

Query: 330 -DRLRRLGYLNLSDCKRLKSLPSS-LCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIIL 386
              L  L  L+LSD  +L+S+  +    L  L  L+L  C  LQ L       L++   L
Sbjct: 76  FTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQYL 134

Query: 387 NLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
            L    ++ +P+   + L  L +L L  + R  S+P+  F
Sbjct: 135 YLQDNALQALPDDTFRDLGNLTHLFLHGN-RISSVPERAF 173

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 60.6 bits (147), Expect = 4e-10
 Identities = 35/181 (19%), Positives = 71/181 (39%), Gaps = 13/181 (7%)

Query: 253 KTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFN-LEFLTKLDLSGCSKLKRLPEISSGN 311
             P   +    +N+ I N  +    + +     + +     LD S    L      + G+
Sbjct: 289 GFPQSYIYEIFSNMNIKNF-TVSGTRMVHMLCPSKISPFLHLDFSNN-LLTDTVFENCGH 346

Query: 312 VC---WLFLRGTAIEELPSSI---DRLRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNL 364
           +     L L+   ++EL        +++ L  L++S            C   KSL  LN+
Sbjct: 347 LTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNM 406

Query: 365 CGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPL 424
                   +  CL       +L+L    I+ IP+ +++L  L+ L ++ + + +S+P  +
Sbjct: 407 SSNILTDTIFRCLPPRIK--VLDLHSNKIKSIPKQVVKLEALQELNVASN-QLKSVPDGI 463

Query: 425 F 425
           F
Sbjct: 464 F 464

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 48.7 bits (116), Expect = 3e-06
 Identities = 37/158 (23%), Positives = 58/158 (36%), Gaps = 8/158 (5%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
            L+ L IL +   + ++ L   +F   + L  LDLS   KL ++    + N+  L L   
Sbjct: 43  SLSKLRILIISHNR-IQYLDISVFKFNQELEYLDLSHN-KLVKISCHPTVNLKHLDLSFN 100

Query: 321 AIEELPSS--IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG 378
           A + LP       + +L +L LS     KS    +  L   KVL + G        E   
Sbjct: 101 AFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLG--ETYGEKEDPE 158

Query: 379 QLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSYSE 415
            L      +L       +    I+ + V     L  S 
Sbjct: 159 GLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSN 196

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 45.2 bits (107), Expect = 3e-05
 Identities = 39/308 (12%), Positives = 88/308 (28%), Gaps = 35/308 (11%)

Query: 117 NKLQRI--LHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGFYPEI 174
             L++   L  + L + K+     +   +    +    F  E +++V        F  ++
Sbjct: 125 THLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDV 184

Query: 175 GISVLVDKSLIAI-GSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYN 233
            +  + +  L  I       +    L  L +     +  N    +          +L   
Sbjct: 185 SVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLV 244

Query: 234 THYSKLN-QIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFN-LEFLT 291
            H +     I +      +           L  L I  + S        S I+     + 
Sbjct: 245 WHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVS-DVFGFPQSYIYEIFSNMN 303

Query: 292 KLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPS 351
             + +  S  + +                          ++    +L+ S+   L     
Sbjct: 304 IKNFT-VSGTRMVHM--------------------LCPSKISPFLHLDFSNNL-LTDTVF 341

Query: 352 SLC-KLKSLKVLNLCGCSNLQRLPECLG---QLSSPIILNLAKTNIERIPESII--QLFV 405
             C  L  L+ L L   + L+ L +      Q+ S   L++++ ++    +         
Sbjct: 342 ENCGHLTELETLILQM-NQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS 400

Query: 406 LRYLLLSY 413
           L  L +S 
Sbjct: 401 LLSLNMSS 408

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 44.1 bits (104), Expect = 6e-05
 Identities = 33/179 (18%), Positives = 54/179 (30%), Gaps = 51/179 (28%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRL 332
           S   L  +P  +      T L++S  + +  L                      S I  L
Sbjct: 8   SKNGLIHVPKDLSQK--TTILNISQ-NYISELW--------------------TSDILSL 44

Query: 333 RRLGYLNLSDCK-----------------------RLKSLPSSLCKLKSLKVLNLCGCSN 369
            +L  L +S  +                       +L  +        +LK L+L     
Sbjct: 45  SKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKHLDLSFN-A 101

Query: 370 LQRLPEC--LGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFL 426
              LP C   G +S    L L+ T++E+     I    +  +LL   E +     P  L
Sbjct: 102 FDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGL 160

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 58.5 bits (142), Expect = 1e-09
 Identities = 32/156 (20%), Positives = 59/156 (37%), Gaps = 6/156 (3%)

Query: 263 LNNLVILNLRSGK-SLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
           L N+  + +            G F+   L  L +S   KL  +P+     +  L L    
Sbjct: 146 LRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEA-KLTGIPKDLPETLNELHLDHNK 204

Query: 322 IEELPS-SIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPECLGQ 379
           I+ +    + R  +L  L L   + ++ + + SL  L +L+ L+L     L R+P  L  
Sbjct: 205 IQAIELEDLLRYSKLYRLGLGHNQ-IRMIENGSLSFLPTLRELHLDNN-KLSRVPAGLPD 262

Query: 380 LSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSE 415
           L    ++ L   NI ++  +             Y+ 
Sbjct: 263 LKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNG 298

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 50.0 bits (120), Expect = 7e-07
 Identities = 31/183 (16%), Positives = 71/183 (38%), Gaps = 16/183 (8%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG-----NVCWLF 316
            ++LV L +   + ++ +P G+F  L  +  +++ G + L+       G      + +L 
Sbjct: 122 PSSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGG-NPLENSG-FEPGAFDGLKLNYLR 178

Query: 317 LRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPE 375
           +    +  +P  +     L  L+L   K ++++    L +   L  L L     ++ +  
Sbjct: 179 ISEAKLTGIPKDL--PETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHN-QIRMIEN 234

Query: 376 -CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALE 434
             L  L +   L+L    + R+P  +  L +L+ + L  +     +    F   G     
Sbjct: 235 GSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKR 293

Query: 435 PFL 437
            + 
Sbjct: 294 AYY 296

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 47.7 bits (114), Expect = 4e-06
 Identities = 34/160 (21%), Positives = 61/160 (38%), Gaps = 15/160 (9%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPS-S 328
           S   LK++P  I      T LDL     +  L +       ++  L L    I ++   +
Sbjct: 41  SDLGLKAVPKEIS--PDTTLLDLQNN-DISELRKDDFKGLQHLYALVLVNNKISKIHEKA 97

Query: 329 IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIILN 387
              LR+L  L +S    L  +P +L    SL  L +     ++++P+     L +   + 
Sbjct: 98  FSPLRKLQKLYISKN-HLVEIPPNL--PSSLVELRIHDN-RIRKVPKGVFSGLRNMNCIE 153

Query: 388 LAKTNIER--IPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
           +    +E             L YL +S + +   +PK L 
Sbjct: 154 MGGNPLENSGFEPGAFDGLKLNYLRISEA-KLTGIPKDLP 192

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 45.0 bits (107), Expect = 3e-05
 Identities = 27/128 (21%), Positives = 52/128 (40%), Gaps = 8/128 (6%)

Query: 289 FLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELP-SSIDRLRRLGYLNLSDCKRLK 347
            L  +  S    LK +P+  S +   L L+   I EL       L+ L  L L + K + 
Sbjct: 34  HLRVVQCSD-LGLKAVPKEISPDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNK-IS 91

Query: 348 SLPS-SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQ-LFV 405
            +   +   L+ L+ L +   ++L  +P      SS + L +    I ++P+ +   L  
Sbjct: 92  KIHEKAFSPLRKLQKLYISK-NHLVEIPP--NLPSSLVELRIHDNRIRKVPKGVFSGLRN 148

Query: 406 LRYLLLSY 413
           +  + +  
Sbjct: 149 MNCIEMGG 156

>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 = 58.5 bits (142), Expect = 1e-09
 Identities = 30/162 (18%), Positives = 64/162 (39%), Gaps = 14/162 (8%)

Query: 263 LNNLVILNLRSGK-SLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
           LN ++++ L +       + +G F  ++ L+ + ++    +  +P+    ++  L L G 
Sbjct: 144 LNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQGLPPSLTELHLDGN 202

Query: 321 AIEELPS-SIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPECLG 378
            I ++ + S+  L  L  L LS    + ++ + SL     L+ L+L     L ++P  L 
Sbjct: 203 KITKVDAASLKGLNNLAKLGLSFNS-ISAVDNGSLANTPHLRELHLNNN-KLVKVPGGLA 260

Query: 379 QLSSPIILNLAKTNIERIPESIIQLFV-------LRYLLLSY 413
                 ++ L   NI  I  +                + L  
Sbjct: 261 DHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFS 302

>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 = 50.8 bits (122), Expect = 3e-07
 Identities = 25/176 (14%), Positives = 60/176 (34%), Gaps = 13/176 (7%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSG-CSKLKRLPE---ISSGNVCWLFL 317
              L  L +   + +  +   +F  L  +  ++L     K   +          + ++ +
Sbjct: 120 PKTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRI 178

Query: 318 RGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPE- 375
             T I  +P  +     L  L+L    ++  + + SL  L +L  L L    ++  +   
Sbjct: 179 ADTNITTIPQGL--PPSLTELHLDGN-KITKVDAASLKGLNNLAKLGLSFN-SISAVDNG 234

Query: 376 CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCL 431
            L        L+L    + ++P  +     ++ + L  +    ++    F   G  
Sbjct: 235 SLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYN 289

>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 = 47.7 bits (114), Expect = 4e-06
 Identities = 34/164 (20%), Positives = 65/164 (39%), Gaps = 22/164 (13%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG------NVCWLFLRGTAIEELP 326
           S   L+ +P  +        LDL       ++ EI  G      N+  L L    I ++ 
Sbjct: 39  SDLGLEKVPKDLP--PDTALLDLQNN----KITEIKDGDFKNLKNLHTLILINNKISKIS 92

Query: 327 SSI-DRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPI 384
                 L +L  L LS   +LK LP  +   K+L+ L +     + ++ +     L+  I
Sbjct: 93  PGAFAPLVKLERLYLSKN-QLKELPEKM--PKTLQELRVHEN-EITKVRKSVFNGLNQMI 148

Query: 385 ILNLAKTNIE--RIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
           ++ L    ++   I     Q +  L Y+ ++ +    ++P+ L 
Sbjct: 149 VVELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQGLP 191

>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 = 44.2 bits (105), Expect = 6e-05
 Identities = 27/128 (21%), Positives = 52/128 (40%), Gaps = 8/128 (6%)

Query: 289 FLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELP-SSIDRLRRLGYLNLSDCKRLK 347
            L  +  S    L+++P+    +   L L+   I E+       L+ L  L L + K + 
Sbjct: 32  HLRVVQCSD-LGLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK-IS 89

Query: 348 SL-PSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQ-LFV 405
            + P +   L  L+ L L   + L+ LPE      +   L + +  I ++ +S+   L  
Sbjct: 90  KISPGAFAPLVKLERLYLSK-NQLKELPE--KMPKTLQELRVHENEITKVRKSVFNGLNQ 146

Query: 406 LRYLLLSY 413
           +  + L  
Sbjct: 147 MIVVELGT 154

>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 = 59.0 bits (142), Expect = 2e-09
 Identities = 43/152 (28%), Positives = 73/152 (48%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           LN++  +   +   +KS+  GI  L  +TKL L+G  KL  +  +++  N+ WLFL    
Sbjct: 42  LNSIDQIIA-NNSDIKSV-QGIQYLPNVTKLFLNGN-KLTDIKPLTNLKNLGWLFLDENK 98

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I++L SS+  L++L  L+L     +  + + L  L  L+ L L     +  +   L +L+
Sbjct: 99  IKDL-SSLKDLKKLKSLSLEHN-GISDI-NGLVHLPQLESLYLGNN-KITDI-TVLSRLT 153

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L+L    I  I   +  L  L+ L LS 
Sbjct: 154 KLDTLSLEDNQISDI-VPLAGLTKLQNLYLSK 184

>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 = 52.0 bits (124), Expect = 3e-07
 Identities = 37/152 (24%), Positives = 64/152 (42%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L N+  L L +G  L  +   + NL+ L  L L    K+K L  +     +  L L    
Sbjct: 64  LPNVTKLFL-NGNKLTDI-KPLTNLKNLGWLFLDEN-KIKDLSSLKDLKKLKSLSLEHNG 120

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I ++ + +  L +L  L L + K +  + + L +L  L  L+L     +  +   L  L+
Sbjct: 121 ISDI-NGLVHLPQLESLYLGNNK-ITDI-TVLSRLTKLDTLSLEDN-QISDIVP-LAGLT 175

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L L+K +I  +  ++  L  L  L L  
Sbjct: 176 KLQNLYLSKNHISDL-RALAGLKNLDVLELFS 206

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 56.9 bits (138), Expect = 3e-09
 Identities = 45/164 (27%), Positives = 78/164 (47%), Gaps = 21/164 (12%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
           S K L ++PS I       KLDL   +KL  LP         +  L+L    ++ LP+ I
Sbjct: 24  SSKKLTAIPSNIPA--DTKKLDLQS-NKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGI 80

Query: 330 -DRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSN-LQRLPE----CLGQLSS 382
              L+ L  L ++D  +L++LP  +  +L +L  L L    N L+ LP      L +L+ 
Sbjct: 81  FKELKNLETLWVTD-NKLQALPIGVFDQLVNLAELRL--DRNQLKSLPPRVFDSLTKLT- 136

Query: 383 PIILNLAKTNIERIPESII-QLFVLRYLLLSYSERFQSLPKPLF 425
              L+L    ++ +P+ +  +L  L+ L L  + + + +P+  F
Sbjct: 137 --YLSLGYNELQSLPKGVFDKLTSLKELRLYNN-QLKRVPEGAF 177

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 58.0 bits (140), Expect = 3e-09
 Identities = 50/317 (15%), Positives = 92/317 (29%), Gaps = 26/317 (8%)

Query: 122 ILHPSILEVLKISYDSLDNKEKNIFLDVACFFQGEDVNLVMKFLNASGF---YPEIGISV 178
            L      VL + +         + + V      +  N+ +   N         E+    
Sbjct: 190 SLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGP 249

Query: 179 LVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTHYSK 238
            +    +            L Q      V   +I     +     E+     TY+    K
Sbjct: 250 TLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREE----FTYSETALK 305

Query: 239 LNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFN-LEFLTKLDLSG 297
              I H      +       L      + I  L S      +           T L+ + 
Sbjct: 306 SLMIEHVKNQVFL--FSKEALYSVFAEMNIKML-SISDTPFIHMVCPPSPSSFTFLNFTQ 362

Query: 298 CSKLKRLPEISSG---NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPS--- 351
                            +  L L+   ++         + +  L   D   L SL S   
Sbjct: 363 N-VFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDV-SLNSLNSHAY 420

Query: 352 -SLCKL-KSLKVLNLCGCSNLQRLPECL-GQLSSPIILNLAKTNIERIPESIIQLFVLRY 408
              C   +S+ VLNL        +  CL  ++    +L+L    I  IP+ +  L  L+ 
Sbjct: 421 DRTCAWAESILVLNLSSNMLTGSVFRCLPPKVK---VLDLHNNRIMSIPKDVTHLQALQE 477

Query: 409 LLLSYSERFQSLPKPLF 425
           L ++ + + +S+P  +F
Sbjct: 478 LNVASN-QLKSVPDGVF 493

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 51.0 bits (122), Expect = 5e-07
 Identities = 31/146 (21%), Positives = 56/146 (38%), Gaps = 13/146 (8%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
           S ++L  +P  +        L LS  + +  L          +  L L    I  L   +
Sbjct: 39  SNRNLTHVPKDL--PPRTKALSLSQ-NSISELRMPDISFLSELRVLRLSHNRIRSLDFHV 95

Query: 330 -DRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPEC--LGQLSSPIIL 386
               + L YL++S   RL+++      + SL+ L+L   ++   LP C   G L+    L
Sbjct: 96  FLFNQDLEYLDVSH-NRLQNISCC--PMASLRHLDLSF-NDFDVLPVCKEFGNLTKLTFL 151

Query: 387 NLAKTNIERIPESIIQLFVLRYLLLS 412
            L+     ++    +    L  +LL 
Sbjct: 152 GLSAAKFRQLDLLPVAHLHLSCILLD 177

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 57.2 bits (138), Expect = 4e-09
 Identities = 37/167 (22%), Positives = 66/167 (39%), Gaps = 23/167 (13%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG-------NVCWLFLRGTAIEEL 325
           S + L ++P  + +  +   LDLS       L  + +        N+  L L    +  +
Sbjct: 26  SKQQLPNVPQSLPS--YTALLDLSHN----NLSRLRAEWTPTRLTNLHSLLLSHNHLNFI 79

Query: 326 PSSI-DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSS 382
            S     +  L YL+LS    L +L       L++L+VL L    ++  +       ++ 
Sbjct: 80  SSEAFVPVPNLRYLDLSSNH-LHTLDEFLFSDLQALEVLLLYNN-HIVVVDRNAFEDMAQ 137

Query: 383 PIILNLAKTNIERIPESIIQ----LFVLRYLLLSYSERFQSLPKPLF 425
              L L++  I R P  +I+    L  L  L LS + + + LP    
Sbjct: 138 LQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSN-KLKKLPLTDL 183

>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 = 5e-04
 Identities = 28/117 (23%), Positives = 43/117 (36%), Gaps = 30/117 (25%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
            L  L +L L +   +  +    F ++  L KL LS   ++ R P         L     
Sbjct: 110 DLQALEVLLLYNNH-IVVVDRNAFEDMAQLQKLYLSQN-QISRFPV-------ELI---- 156

Query: 321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNL--------CGCS 368
                    ++L +L  L+LS   +LK LP + L KL +     L        C C 
Sbjct: 157 ------KDGNKLPKLMLLDLSS-NKLKKLPLTDLQKLPAWVKNGLYLHNNPLECDCK 206

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 56.7 bits (137), Expect = 5e-09
 Identities = 44/164 (26%), Positives = 62/164 (37%), Gaps = 19/164 (11%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
           S  SL S+PSG+   E +  LDLS  +++  +         N+  L L    I  +    
Sbjct: 39  SSGSLNSIPSGLT--EAVKSLDLSN-NRITYISNSDLQRCVNLQALVLTSNGINTIEEDS 95

Query: 330 -DRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSNLQRLPEC-----LGQLSS 382
              L  L +L+LS    L +L SS    L SL  LNL G    + L E      L +L  
Sbjct: 96  FSSLGSLEHLDLSYN-YLSNLSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQI 153

Query: 383 PIILNLAKTNIERIPESIIQ-LFVLRYLLLSYSERFQSLPKPLF 425
             + N+      +I       L  L  L +  S   QS      
Sbjct: 154 LRVGNMDT--FTKIQRKDFAGLTFLEELEIDAS-DLQSYEPKSL 194

>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 = 56.7 bits (137), Expect = 6e-09
 Identities = 34/165 (20%), Positives = 62/165 (37%), Gaps = 16/165 (9%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFL 317
            L  L IL + +  +   +    F  L FL +L++     L+        S  NV  L L
Sbjct: 147 HLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS-DLQSYEPKSLKSIQNVSHLIL 205

Query: 318 RGTAIEELPSSI-DRLRRLGYLNLSD----CKRLKSLPS----SLCKLKSLKVLNLCGCS 368
                  L     D    +  L L D          L +    SL K  + + + +    
Sbjct: 206 HMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITD-E 264

Query: 369 NLQRLPECLGQLSSPIILNLAKTNIERIPESIIQ-LFVLRYLLLS 412
           +L ++ + L Q+S  + L  ++  ++ +P+ I   L  L+ + L 
Sbjct: 265 SLFQVMKLLNQISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLH 309

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 55.5 bits (134), Expect = 2e-08
 Identities = 28/150 (18%), Positives = 56/150 (37%), Gaps = 10/150 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
           L+ L  L+      L  +   + +   L      GC K+K L    +  +  L  +   I
Sbjct: 253 LSKLTTLHC-IQTDLLEID--LTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGI 309

Query: 323 EELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS 382
            EL   + +  +L YL L++ + L  L   +     LK L+     ++Q     +G++ +
Sbjct: 310 TELD--LSQNPKLVYLYLNNTE-LTELD--VSHNTKLKSLSCVNA-HIQDFSS-VGKIPA 362

Query: 383 PIILNLAKTNIERIPESIIQLFVLRYLLLS 412
                 A+     +P+  +    L   +  
Sbjct: 363 LNNNFEAEGQTITMPKETLTNNSLTIAVSP 392

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 44.3 bits (105), Expect = 5e-05
 Identities = 31/171 (18%), Positives = 57/171 (33%), Gaps = 29/171 (16%)

Query: 262 RLNNLVILNLRSGKSLKSLP--SGIFNLEFL-------TKLDLSGCSKLKRLP----EIS 308
           +L  L  L+     S+  +     +  L  L       T LDLS  + L  L     +++
Sbjct: 40  QLATLTSLDC-HNSSITDMTGIEKLTGLTKLICTSNNITTLDLSQNTNLTYLACDSNKLT 98

Query: 309 SGNVC------WLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVL 362
           + +V       +L      + +L  S      L YLN +    L  +   +     L  L
Sbjct: 99  NLDVTPLTKLTYLNCDTNKLTKLDVSQ--NPLLTYLNCARNT-LTEID--VSHNTQLTEL 153

Query: 363 NLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           +      + +L   +   +    L+ +   I  +  S  Q  +L  L    
Sbjct: 154 DCHLNKKITKLD--VTPQTQLTTLDCSFNKITELDVS--QNKLLNRLNCDT 200

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 44.3 bits (105), Expect = 6e-05
 Identities = 35/169 (20%), Positives = 55/169 (32%), Gaps = 28/169 (16%)

Query: 263 LNNLVILNLRSGKSLKSLP-SGIFNLEFL-------TKLDLSGCSKLK-------RLPEI 307
              L  L+  S   +  L  S    L  L       TKLDL+   +L        +L EI
Sbjct: 169 QTQLTTLDC-SFNKITELDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEI 227

Query: 308 SSGNV---CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL 364
               +    +       + EL  S   L +L  L+      L  +   L     L     
Sbjct: 228 DVTPLTQLTYFDCSVNPLTELDVST--LSKLTTLHCIQTD-LLEID--LTHNTQLIYFQA 282

Query: 365 CGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
            GC  ++ L   +   +   +L+     I  +   + Q   L YL L+ 
Sbjct: 283 EGCRKIKELD--VTHNTQLYLLDCQAAGITELD--LSQNPKLVYLYLNN 327

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 55.0 bits (133), Expect = 2e-08
 Identities = 34/152 (22%), Positives = 64/152 (42%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L NL  L+L +G  LK + + + +L  LT LDL+   ++  L  +S    +  L L    
Sbjct: 220 LTNLDELSL-NGNQLKDIGT-LASLTNLTDLDLANN-QISNLAPLSGLTKLTELKLGANQ 276

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I  +   +  L  L  L L++ + L+ +   +  LK+L  L L    N+  +   +  L+
Sbjct: 277 ISNISP-LAGLTALTNLELNENQ-LEDISP-ISNLKNLTYLTLYFN-NISDISP-VSSLT 331

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L      +  +   +  L  + +L   +
Sbjct: 332 KLQRLFFYNNKVSDVSS-LANLTNINWLSAGH 362

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 53.0 bits (128), Expect = 1e-07
 Identities = 37/152 (24%), Positives = 61/152 (40%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L NL  L   +   +  +   +  L  L +L L+G  +LK +  ++S  N+  L L    
Sbjct: 198 LTNLESLIA-TNNQISDIT-PLGILTNLDELSLNGN-QLKDIGTLASLTNLTDLDLANNQ 254

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I  L   +  L +L  L L   + + ++ S L  L +L  L L     L+ +   +  L 
Sbjct: 255 ISNLA-PLSGLTKLTELKLGANQ-ISNI-SPLAGLTALTNLELNEN-QLEDISP-ISNLK 309

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           +   L L   NI  I   +  L  L+ L    
Sbjct: 310 NLTYLTLYFNNISDISP-VSSLTKLQRLFFYN 340

>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 = 49.6 bits (119), Expect = 1e-06
 Identities = 29/153 (18%), Positives = 60/153 (39%), Gaps = 11/153 (7%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGT 320
            L  LV + + + + +  +   + NL  LT L L    ++  +  + +  N+  L L   
Sbjct: 88  NLTKLVDILMNNNQ-IADIT-PLANLTNLTGLTLFNN-QITDIDPLKNLTNLNRLELSSN 144

Query: 321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQL 380
            I ++ + +  L  L  L+  +     +    L  L +L+ L++     +  +   L +L
Sbjct: 145 TISDISA-LSGLTSLQQLSFGNQV---TDLKPLANLTTLERLDISSN-KVSDISV-LAKL 198

Query: 381 SSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           ++   L      I  I   +  L  L  L L+ 
Sbjct: 199 TNLESLIATNNQISDITP-LGILTNLDELSLNG 230

>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 = 49.2 bits (118), Expect = 2e-06
 Identities = 27/152 (17%), Positives = 48/152 (31%), Gaps = 10/152 (6%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
            L +  I        + +       L    K  L   +    + +     V  L      
Sbjct: 2   PLGSATITQDTPINQIFTDT----ALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLG 57

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I+ +   ++ L  L  +N S+ + L  +   L  L  L  + +     +  +   L  L+
Sbjct: 58  IKSI-DGVEYLNNLTQINFSNNQ-LTDIT-PLKNLTKLVDILMNNN-QIADITP-LANLT 112

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           +   L L    I  I   +  L  L  L LS 
Sbjct: 113 NLTGLTLFNNQITDID-PLKNLTNLNRLELSS 143

>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 = 46.9 bits (112), Expect = 8e-06
 Identities = 25/139 (17%), Positives = 48/139 (34%), Gaps = 7/139 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L NL  L L    ++  + S + +L  L +L      K+  +  +++  N+ WL      
Sbjct: 308 LKNLTYLTL-YFNNISDI-SPVSSLTKLQRLFFYNN-KVSDVSSLANLTNINWLSAGHNQ 364

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I +L   +  L R+  L L+D     + P +     S+        +     P  +    
Sbjct: 365 ISDLTP-LANLTRITQLGLNDQA-WTNAPVNYKANVSIPNTVK-NVTGALIAPATISDGG 421

Query: 382 SPIILNLAKTNIERIPESI 400
           S    ++         E  
Sbjct: 422 SYTEPDITWNLPSYTNEVS 440

>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 = 54.7 bits (132), Expect = 3e-08
 Identities = 23/117 (19%), Positives = 47/117 (40%), Gaps = 7/117 (5%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI 307
           N L +      ++  L NL  L++ S  +   +P      E +  L+LS    ++ +   
Sbjct: 371 NHLRSMQKTGEILLTLKNLTSLDI-SRNTFHPMPDSCQWPEKMRFLNLSST-GIRVVKTC 428

Query: 308 SSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL 364
               +  L +    ++     + RL+    L +S   +LK+LP +      L V+ +
Sbjct: 429 IPQTLEVLDVSNNNLDSFSLFLPRLQE---LYISRN-KLKTLPDAS-LFPVLLVMKI 480

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

 Score = 54.0 bits (130), Expect = 6e-08
 Identities = 34/157 (21%), Positives = 55/157 (35%), Gaps = 29/157 (18%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRL 332
             +S  S+PSG+     +  LDLS   K+  +                        +   
Sbjct: 13  RSRSFTSIPSGLT--AAMKSLDLSFN-KITYIG--------------------HGDLRAC 49

Query: 333 RRLGYLNLSDCKRLKSLPSSLCK-LKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAK 390
             L  L L    R+ ++       L SL+ L+L    +L  L     G LSS   LNL  
Sbjct: 50  ANLQVLILKSS-RINTIEGDAFYSLGSLEHLDLSDN-HLSSLSSSWFGPLSSLKYLNLMG 107

Query: 391 TNIERIPESII--QLFVLRYLLLSYSERFQSLPKPLF 425
              + +  + +   L  L+ L +   E F  + +  F
Sbjct: 108 NPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDF 144

>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 = 53.6 bits (129), Expect = 8e-08
 Identities = 31/173 (17%), Positives = 64/173 (36%), Gaps = 13/173 (7%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NVCWLFLRG 319
            LN L   N      +  L         + +L +        L  + S    V  + +  
Sbjct: 262 TLNGLGDFNPSESDVVSELGK--VETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVEN 319

Query: 320 TAIEELPSSI-DRLRRLGYLNLSDCKRLKSL----PSSLCKLKSLKVLNLCGC--SNLQR 372
           + +  +P S    L+ L +L+LS+   +        +      SL+ L L      ++Q+
Sbjct: 320 SKVFLVPCSFSQHLKSLEFLDLSENL-MVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQK 378

Query: 373 LPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
             E L  L +   L++++     +P+S      +R+L LS +   + +   + 
Sbjct: 379 TGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSST-GIRVVKTCIP 430

>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 = 50.5 bits (121), Expect = 8e-07
 Identities = 42/171 (24%), Positives = 62/171 (36%), Gaps = 11/171 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS----GNVCWLFL 317
           L +L  L+L S   L SL S  F  L  L  L+L G    + L   S      N+  L +
Sbjct: 73  LGSLEHLDL-SDNHLSSLSSSWFGPLSSLKYLNLMGN-PYQTLGVTSLFPNLTNLQTLRI 130

Query: 318 RGT-AIEELP-SSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLP 374
                  E+       L  L  L +     L++  S SL  ++ +  L L    +   L 
Sbjct: 131 GNVETFSEIRRIDFAGLTSLNELEIKALS-LRNYQSQSLKSIRDIHHLTLHLSESAFLLE 189

Query: 375 ECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLF 425
                LSS   L L  TN+ R   S + +  +   +   + R   L    F
Sbjct: 190 IFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESF 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 = 45.9 bits (109), Expect = 2e-05
 Identities = 24/153 (15%), Positives = 51/153 (33%), Gaps = 4/153 (2%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTA 321
            L+++  L L    +L         ++ ++        +   L + S   +  L      
Sbjct: 194 ILSSVRYLEL-RDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILE 252

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           + E+      L  LG  N S+   +  L     +  +++ L++        L      L 
Sbjct: 253 LSEVEFDDCTLNGLGDFNPSESDVVSELGKV--ETVTIRRLHIPQFYLFYDLSTVYSLLE 310

Query: 382 SPIILNLAKTNIERIPESIIQLFV-LRYLLLSY 413
               + +  + +  +P S  Q    L +L LS 
Sbjct: 311 KVKRITVENSKVFLVPCSFSQHLKSLEFLDLSE 343

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 51.6 bits (124), Expect = 9e-08
 Identities = 40/118 (33%), Positives = 55/118 (46%), Gaps = 14/118 (11%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIFN-LEFLTKLDLSGCSKLKRLPEI---SSGNVCWLFL 317
            L NL  L L     L +LP G+F+ L  LT LDL   ++L  LP        ++  LF+
Sbjct: 62  SLINLKELYL-GSNQLGALPVGVFDSLTQLTVLDLGT-NQLTVLPSAVFDRLVHLKELFM 119

Query: 318 RGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNL------CGCS 368
               + ELP  I+RL  L +L L   + LKS+P  +  +L SL    L      C C 
Sbjct: 120 CCNKLTELPRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSLTHAYLFGNPWDCECR 176

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 49.7 bits (119), Expect = 4e-07
 Identities = 37/128 (28%), Positives = 61/128 (47%), Gaps = 4/128 (3%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSI-DR 331
             K   S+P+GI     +  L  +  +KL+     S  N+  L+L    +  LP  + D 
Sbjct: 27  RSKRHASVPAGIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDS 86

Query: 332 LRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAK 390
           L +L  L+L    +L  LPS++  +L  LK L +C C+ L  LP  + +L+    L L +
Sbjct: 87  LTQLTVLDLGT-NQLTVLPSAVFDRLVHLKELFMC-CNKLTELPRGIERLTHLTHLALDQ 144

Query: 391 TNIERIPE 398
             ++ IP 
Sbjct: 145 NQLKSIPH 152

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 52.8 bits (126), Expect = 9e-08
 Identities = 26/124 (20%), Positives = 40/124 (32%), Gaps = 29/124 (23%)

Query: 254 TPNPMLMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNV 312
             +   +P   NL  L + + + L+ L       L  L  L +     L+ +        
Sbjct: 21  LDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVA------- 72

Query: 313 CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL------CG 366
                        P +     RL  LNLS    L+SL     +  SL+ L L      C 
Sbjct: 73  -------------PDAFHFTPRLSRLNLSFN-ALESLSWKTVQGLSLQELVLSGNPLHCS 118

Query: 367 CSNL 370
           C+  
Sbjct: 119 CALR 122

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 53.2 bits (127), Expect = 1e-07
 Identities = 37/198 (18%), Positives = 69/198 (34%), Gaps = 12/198 (6%)

Query: 217 RSRLWHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKS 276
           +S L   +++ E+   N        ++  A + L+ +         L  +  +       
Sbjct: 365 QSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDD 424

Query: 277 LKSL-----PSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTAIEELPSSID 330
           L+S               +  L L+    L  L  +     V  L L    +  LP ++ 
Sbjct: 425 LRSKFLLENSVLKMEYADVRVLHLAHK-DLTVLCHLEQLLLVTHLDLSHNRLRALPPALA 483

Query: 331 RLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE--CLGQLSSPIILNL 388
            LR L  L  SD   L+++   +  L  L+ L LC    LQ+      L      ++LNL
Sbjct: 484 ALRCLEVLQASDN-ALENVD-GVANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNL 540

Query: 389 AKTNIERIPESIIQLFVL 406
              ++ +      +L  +
Sbjct: 541 QGNSLCQEEGIQERLAEM 558

>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 = 44.4 bits (104), Expect = 7e-05
 Identities = 34/251 (13%), Positives = 73/251 (29%), Gaps = 16/251 (6%)

Query: 176 ISVLVDKSLIAIGSYNKIRMHDLLQELGREIVRQESINPGNRSRLWHHEDIYEVLTYNTH 235
           + V  +++ +++     + +   +  L   +               +      +      
Sbjct: 248 VHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNRPSHVWLCDLPAA 307

Query: 236 YSKLNQIIHTACNKLIAKTPNP--MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKL 293
                   HT              +L+         +  + + L      +     L   
Sbjct: 308 SLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQLFRCELSVEKSTVLQSE 367

Query: 294 DLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKR-------- 345
             S C +L+ L   +   +  + L   A++ L    + L+    L   D  R        
Sbjct: 368 LES-CKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR 426

Query: 346 ---LKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQ 402
              L        +   ++VL+L    +L  L   L QL     L+L+   +  +P ++  
Sbjct: 427 SKFLLENSVLKMEYADVRVLHLAHK-DLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAA 484

Query: 403 LFVLRYLLLSY 413
           L  L  L  S 
Sbjct: 485 LRCLEVLQASD 495

>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 = 51.6 bits (124), Expect = 2e-07
 Identities = 40/152 (26%), Positives = 66/152 (43%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           LNNL+ L L     +  L + + NL  +T+L+LSG   LK +  I+   ++  L L  T 
Sbjct: 62  LNNLIGLEL-KDNQITDL-APLKNLTKITELELSGN-PLKNVSAIAGLQSIKTLDLTSTQ 118

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I ++ + +  L  L  L L   + + ++ S L  L +L+ L++     +  L   L  LS
Sbjct: 119 ITDV-TPLAGLSNLQVLYLDLNQ-ITNI-SPLAGLTNLQYLSIGNA-QVSDLTP-LANLS 173

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L      I  I   +  L  L  + L  
Sbjct: 174 KLTTLKADDNKISDIS-PLASLPNLIEVHLKN 204

>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 = 51.2 bits (123), Expect = 2e-07
 Identities = 29/152 (19%), Positives = 65/152 (42%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L+ +  L+   G  + ++  G+  L  L  L+L    ++  L  + +   +  L L G  
Sbjct: 40  LDGITTLSA-FGTGVTTI-EGVQYLNNLIGLELKDN-QITDLAPLKNLTKITELELSGNP 96

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           ++ + S+I  L+ +  L+L+  + +  + + L  L +L+VL L     +  +   L  L+
Sbjct: 97  LKNV-SAIAGLQSIKTLDLTSTQ-ITDV-TPLAGLSNLQVLYLDLN-QITNISP-LAGLT 151

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           +   L++    +  +   +  L  L  L    
Sbjct: 152 NLQYLSIGNAQVSDL-TPLANLSKLTTLKADD 182

>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 = 48.9 bits (117), Expect = 1e-06
 Identities = 38/154 (24%), Positives = 69/154 (44%), Gaps = 10/154 (6%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRG 319
           P L N + +    GKS  +      +L+ +T L   G   +  +  +    N+  L L+ 
Sbjct: 16  PALANAIKIAA--GKSNVTDTVTQADLDGITTLSAFGT-GVTTIEGVQYLNNLIGLELKD 72

Query: 320 TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQ 379
             I +L + +  L ++  L LS    LK++ S++  L+S+K L+L   + +  +   L  
Sbjct: 73  NQITDL-APLKNLTKITELELSGNP-LKNV-SAIAGLQSIKTLDL-TSTQITDVTP-LAG 127

Query: 380 LSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           LS+  +L L    I  I   +  L  L+YL +  
Sbjct: 128 LSNLQVLYLDLNQITNI-SPLAGLTNLQYLSIGN 160

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 50.3 bits (121), Expect = 2e-07
 Identities = 22/154 (14%), Positives = 48/154 (31%), Gaps = 6/154 (3%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRG 319
                 +   L    +     +    +  LT + L+    +  L  I    N+  L +  
Sbjct: 20  STFKAYLNGLLGQSSTANITEA---QMNSLTYITLANI-NVTDLTGIEYAHNIKDLTINN 75

Query: 320 TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQ 379
                  + I  L  L  L +           +L  L SL +L++   ++   +   +  
Sbjct: 76  IHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINT 134

Query: 380 LSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           L     ++L+          +  L  L+ L + +
Sbjct: 135 LPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQF 168

>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 = 23/134 (17%), Positives = 51/134 (38%), Gaps = 8/134 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS-KLKRLPEISS-GNVCWLFLRGT 320
            +N+  L + +     +  + I  L  L +L + G      ++P +S   ++  L +  +
Sbjct: 65  AHNIKDLTI-NNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHS 122

Query: 321 AIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQ 379
           A ++   + I+ L ++  ++LS    +  +   L  L  LK LN+     +      +  
Sbjct: 123 AHDDSILTKINTLPKVNSIDLSYNGAITDI-MPLKTLPELKSLNIQFD-GVHDY-RGIED 179

Query: 380 LSSPIILNLAKTNI 393
                 L      I
Sbjct: 180 FPKLNQLYAFSQTI 193

>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 = 50.4 bits (121), Expect = 4e-07
 Identities = 40/154 (25%), Positives = 61/154 (39%), Gaps = 10/154 (6%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRG 319
                 +  NL   KS+         L  + ++  +    +K +  I    NV  LFL G
Sbjct: 21  DAFAETIKDNL-KKKSVTDA-VTQNELNSIDQIIANNS-DIKSVQGIQYLPNVTKLFLNG 77

Query: 320 TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQ 379
             + ++   +  L+ LG+L L + K +K L SSL  LK LK L+L     +  +   L  
Sbjct: 78  NKLTDI-KPLANLKNLGWLFLDENK-VKDL-SSLKDLKKLKSLSLEHN-GISDI-NGLVH 132

Query: 380 LSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           L     L L    I  I   + +L  L  L L  
Sbjct: 133 LPQLESLYLGNNKITDI-TVLSRLTKLDTLSLED 165

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 42/152 (27%), Positives = 73/152 (48%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           LN++  +   +   +KS+  GI  L  +TKL L+G  KL  +  +++  N+ WLFL    
Sbjct: 45  LNSIDQIIA-NNSDIKSV-QGIQYLPNVTKLFLNGN-KLTDIKPLANLKNLGWLFLDENK 101

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           +++L SS+  L++L  L+L     +  + + L  L  L+ L L     +  +   L +L+
Sbjct: 102 VKDL-SSLKDLKKLKSLSLEHN-GISDI-NGLVHLPQLESLYLGNN-KITDI-TVLSRLT 156

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L+L    I  I   +  L  L+ L LS 
Sbjct: 157 KLDTLSLEDNQISDI-VPLAGLTKLQNLYLSK 187

>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 = 44.7 bits (106), Expect = 3e-05
 Identities = 37/152 (24%), Positives = 64/152 (42%), Gaps = 10/152 (6%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L N+  L L +G  L  +   + NL+ L  L L    K+K L  +     +  L L    
Sbjct: 67  LPNVTKLFL-NGNKLTDI-KPLANLKNLGWLFLDEN-KVKDLSSLKDLKKLKSLSLEHNG 123

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           I ++ + +  L +L  L L + K +  + + L +L  L  L+L     +  +   L  L+
Sbjct: 124 ISDI-NGLVHLPQLESLYLGNNK-ITDI-TVLSRLTKLDTLSLEDN-QISDI-VPLAGLT 178

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               L L+K +I  +  ++  L  L  L L  
Sbjct: 179 KLQNLYLSKNHISDL-RALAGLKNLDVLELFS 209

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 49.6 bits (119), Expect = 7e-07
 Identities = 38/155 (24%), Positives = 66/155 (42%), Gaps = 9/155 (5%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRL 332
           S    +  P   F      K +L   S    + +    ++  +    + I+ +   I  L
Sbjct: 6   STPIKQIFPDDAFAE--TIKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYL 62

Query: 333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIILNLAKT 391
             + YL L    +L  +  +L +L +L  L L G   LQ LP     +L++   L L + 
Sbjct: 63  PNVRYLALGG-NKLHDIS-ALKELTNLTYLILTGNQ-LQSLPNGVFDKLTNLKELVLVEN 119

Query: 392 NIERIPESII-QLFVLRYLLLSYSERFQSLPKPLF 425
            ++ +P+ +  +L  L YL L    + QSLPK +F
Sbjct: 120 QLQSLPDGVFDKLTNLTYLNL-AHNQLQSLPKGVF 153

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 33/134 (24%), Positives = 55/134 (41%), Gaps = 11/134 (8%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
            GK L  +P+ +   E +T++ L   + +K +P         +  + L    I EL    
Sbjct: 19  RGKGLTEIPTNLP--ETITEIRLEQ-NTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDA 75

Query: 330 -DRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIIL 386
              LR L  L L   K +  LP SL   L SL++L L   + +  L       L +  +L
Sbjct: 76  FQGLRSLNSLVLYGNK-ITELPKSLFEGLFSLQLLLLNA-NKINCLRVDAFQDLHNLNLL 133

Query: 387 NLAKTNIERIPESI 400
           +L    ++ I +  
Sbjct: 134 SLYDNKLQTIAKGT 147

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 48.5 bits (116), Expect = 1e-06
 Identities = 50/162 (30%), Positives = 72/162 (44%), Gaps = 17/162 (10%)

Query: 273 SGKSLKSLPSGI-FNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSI-D 330
            GKSL S+PSGI  + E L  L  +G + L          + WL L    ++ L + + D
Sbjct: 22  QGKSLDSVPSGIPADTEKL-DLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFD 80

Query: 331 RLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSN-LQRLPE----CLGQLSSPI 384
            L  LG L L++  +L SLP  +   L  L  L L    N L+ LP      L +L    
Sbjct: 81  DLTELGTLGLAN-NQLASLPLGVFDHLTQLDKLYL--GGNQLKSLPSGVFDRLTKLK--- 134

Query: 385 ILNLAKTNIERIPESII-QLFVLRYLLLSYSERFQSLPKPLF 425
            L L    ++ IP     +L  L+ L L  + + QS+P   F
Sbjct: 135 ELRLNTNQLQSIPAGAFDKLTNLQTLSL-STNQLQSVPHGAF 175

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 21/138 (15%), Positives = 47/138 (34%), Gaps = 18/138 (13%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS----GNVCWLFLRGTAIEELPSS 328
           S + L  +P  I   ++  +L L+  ++   L           +  +      I ++   
Sbjct: 19  SNQKLNKIPEHIP--QYTAELRLNN-NEFTVLEATGIFKKLPQLRKINFSNNKITDIEEG 75

Query: 329 I-DRLRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSNLQRLPE----CLGQLSS 382
             +    +  + L+   RL+++   +   L+SLK L L     +  +       L  +  
Sbjct: 76  AFEGASGVNEILLTS-NRLENVQHKMFKGLESLKTLMLRSN-RITCVGNDSFIGLSSVRL 133

Query: 383 PIILNLAKTNIERIPESI 400
              L+L    I  +    
Sbjct: 134 ---LSLYDNQITTVAPGA 148

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 36/171 (21%), Positives = 66/171 (38%), Gaps = 27/171 (15%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS-GNVCWLFLRGTA 321
           L N V  NL   +S+  L      L  +   +      ++ L  +    N+  L L    
Sbjct: 18  LANAVKQNL-GKQSVTDL-VSQKELSGVQNFNGDNS-NIQSLAGMQFFTNLKELHLSHNQ 74

Query: 322 IEELPSSIDRLRRLGYLNLSDCK----------RLKSL---------PSSLCKLKSLKVL 362
           I +L S +  L +L  L+++  +           L  L           SL  LK+L++L
Sbjct: 75  ISDL-SPLKDLTKLEELSVNRNRLKNLNGIPSACLSRLFLDNNELRDTDSLIHLKNLEIL 133

Query: 363 NLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           ++     L+ +   LG LS   +L+L    I      + +L  + ++ L+ 
Sbjct: 134 SIRNN-KLKSI-VMLGFLSKLEVLDLHGNEITNT-GGLTRLKKVNWIDLTG 181

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 47.7 bits (114), Expect = 2e-06
 Identities = 33/106 (31%), Positives = 53/106 (50%), Gaps = 6/106 (5%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSI-DR 331
             +   S+P+GI        L+ +    L         ++  L+L G  ++ LP+ + ++
Sbjct: 15  YSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNK 74

Query: 332 LRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSN-LQRLPE 375
           L  L YLNLS   +L+SLP+ +  KL  LK L L   +N LQ LP+
Sbjct: 75  LTSLTYLNLS-TNQLQSLPNGVFDKLTQLKELAL--NTNQLQSLPD 117

>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 = 49.4 bits (118), Expect = 2e-06
 Identities = 36/200 (18%), Positives = 80/200 (40%), Gaps = 25/200 (12%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPE 306
           + +     N       +++  L+L S   + SL S +F  L+ L  L+L+   K+ ++ +
Sbjct: 250 HNIKDPDQNTFAGLARSSVRHLDL-SHGFVFSLNSRVFETLKDLKVLNLAYN-KINKIAD 307

Query: 307 ISS---GNVCWLFLRGTAIEELPSSIDR-LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVL 362
            +     N+  L L    + EL SS    L ++ Y++L           +   L+ L+ L
Sbjct: 308 EAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTL 367

Query: 363 NL--------CGCSNLQRLPECLGQLS-------SPIILNLAKTNIERIPESII--QLFV 405
           +L            ++  +     +L        +  +++L++  +E +       ++  
Sbjct: 368 DLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPH 427

Query: 406 LRYLLLSYSERFQSLPKPLF 425
           L+ L+L+ + RF S      
Sbjct: 428 LQILILNQN-RFSSCSGDQT 446

>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 = 49.0 bits (117), Expect = 3e-06
 Identities = 31/171 (18%), Positives = 54/171 (31%), Gaps = 29/171 (16%)

Query: 261 PRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRG 319
             LN    L L S   ++++ +  F  LE L  L+L        +               
Sbjct: 21  QVLNTTERLLL-SFNYIRTVTASSFPFLEQLQLLELGSQYTPLTID-------------- 65

Query: 320 TAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSS-LCKLKSLKVLNLCGC--SNLQRLPEC 376
                   +   L  L  L+L    ++  L       L  L  L L  C  S+       
Sbjct: 66  ------KEAFRNLPNLRILDLGSS-KIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGY 118

Query: 377 LGQLSSPIILNLAKTNIERIPE--SIIQLFVLRYLLLSYSERFQSLPKPLF 425
              L +   L+L+K  I  +    S  +L  L+ +  S + +   + +   
Sbjct: 119 FRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSN-QIFLVCEHEL 168

>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 = 44.8 bits (106), Expect = 5e-05
 Identities = 31/166 (18%), Positives = 56/166 (33%), Gaps = 19/166 (11%)

Query: 260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG----NVCWL 315
           +  + ++  + L SG  L +LP        +    LS  ++L+ L  +       ++  L
Sbjct: 377 IHFIPSIPDIFL-SGNKLVTLPKINLTANLI---HLSE-NRLENLDILYFLLRVPHLQIL 431

Query: 316 FLRGTAIEELPSS--IDRLRRLGYLNLSDCKRLKSLPSSLCK-----LKSLKVLNLCGCS 368
            L                   L  L L +     +  + LC      L  L+VL L    
Sbjct: 432 ILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHN- 490

Query: 369 NLQRLP-ECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
            L  LP      L++   L+L    +  +  + +    L  L +S 
Sbjct: 491 YLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLPA-NLEILDISR 535

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 49.4 bits (118), Expect = 2e-06
 Identities = 32/117 (27%), Positives = 45/117 (38%), Gaps = 31/117 (26%)

Query: 262 RLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT 320
            L +L+ LNL     L S+ S +F NL+ L  LDLS    ++ L                
Sbjct: 321 GLTHLLKLNLSQNF-LGSIDSRMFENLDKLEVLDLSYN-HIRALG--------------- 363

Query: 321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSS-LCKLKSLKVLNL------CGCSNL 370
                  S   L  L  L L   + LKS+P     +L SL+ + L      C C  +
Sbjct: 364 -----DQSFLGLPNLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRI 414

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 49.0 bits (117), Expect = 2e-06
 Identities = 33/186 (17%), Positives = 61/186 (32%), Gaps = 31/186 (16%)

Query: 256 NPMLMPRLNNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSGNVCW 314
           N     RL +L  L +        + +  F  L  L  L L   ++  +L          
Sbjct: 46  NETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDY-NQFLQLE--------- 95

Query: 315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSL---PSSLCKLKSLKVLNLCGCSNLQ 371
                        + + L  L  L L+ C  L       +    L SL++L L   +N++
Sbjct: 96  -----------TGAFNGLANLEVLTLTQCN-LDGAVLSGNFFKPLTSLEMLVLRD-NNIK 142

Query: 372 RL-PECL-GQLSSPIILNLAKTNIERIPESIIQLFVLRYL--LLSYSERFQSLPKPLFLA 427
           ++ P      +    +L+L    ++ I E  +  F  ++   L   S   Q + +     
Sbjct: 143 KIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGW 202

Query: 428 RGCLAL 433
             C   
Sbjct: 203 EKCGNP 208

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 46.7 bits (111), Expect = 1e-05
 Identities = 33/210 (15%), Positives = 69/210 (32%), Gaps = 35/210 (16%)

Query: 248 NKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSL-PSGIF-NLEFLTKLDLSGCSKLKRLP 305
             L     +      L +L +L L    ++K + P+  F N+     LDL+  +K+K + 
Sbjct: 113 CNLDGAVLSGNFFKPLTSLEMLVL-RDNNIKKIQPASFFLNMRRFHVLDLTF-NKVKSIC 170

Query: 306 E-----ISSGNVCWLFLRGTAIEELPS---------SIDRLRRLGYLNLSDCKRLKSLPS 351
           E         +   L L    ++++           +  +   +  L+LS     +S+  
Sbjct: 171 EEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAK 230

Query: 352 SLCKLKSLKVLNLCGCSNLQRLPECLG---------------QLSSPIILNLAKTNIERI 396
                 +   +     SN   +    G               + S     +L+K+ I  +
Sbjct: 231 RFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFAL 290

Query: 397 PESI-IQLFVLRYLLLSYSERFQSLPKPLF 425
            +S+      L  L L+ +     +    F
Sbjct: 291 LKSVFSHFTDLEQLTLAQN-EINKIDDNAF 319

>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 = 48.8 bits (116), Expect = 3e-06
 Identities = 44/202 (21%), Positives = 67/202 (33%), Gaps = 26/202 (12%)

Query: 259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKL--KRLPEISSG--NVCW 314
                 NL      S      +P    NL F  KL   G S +    +P +      +  
Sbjct: 238 FFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRK 297

Query: 315 LFLRGTAI--EELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQR 372
           L L    +  E+  + I +   L  L   +    + L       K LK L +   ++ Q 
Sbjct: 298 LDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQG 357

Query: 373 LPECLGQLSSPIILNLAK---------------TN--IERIPESIIQLFVLRYLLLSYSE 415
           + +  G +S   ++ LA+               TN  +E I   +  L   R +LL   E
Sbjct: 358 MEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKNLCDFRLVLLDREE 417

Query: 416 RFQSLPKP---LFLARGCLALE 434
           R   LP       L  GC  L 
Sbjct: 418 RITDLPLDNGVRSLLIGCKKLR 439

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 45.8 bits (109), Expect = 6e-06
 Identities = 33/107 (30%), Positives = 54/107 (50%), Gaps = 9/107 (8%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NVCWLFLRGTAIEELPSSI- 329
           S K LK LP GI     +T+L L G ++   +P+  S   ++  + L    I  L +   
Sbjct: 18  SNKGLKVLPKGIP--RDVTELYLDG-NQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSF 74

Query: 330 DRLRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSNLQRLPE 375
             + +L  L LS   RL+ +P      LKSL++L+L G +++  +PE
Sbjct: 75  SNMTQLLTLILSY-NRLRCIPPRTFDGLKSLRLLSLHG-NDISVVPE 119

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 44.9 bits (106), Expect = 3e-05
 Identities = 36/162 (22%), Positives = 61/162 (37%), Gaps = 15/162 (9%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG------NVCWLF 316
              L +L++    SL      +     L+ LDLS   +L     IS+        +  L 
Sbjct: 148 KPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLA 207

Query: 317 LRGTAIEELP----SSIDRLRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSNLQ 371
           LR   +E       +      +L  L+LS      +  +  C     L  LNL     L+
Sbjct: 208 LRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFT-GLK 266

Query: 372 RLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
           ++P+ L       +L+L+   ++R P S  +L  +  L L  
Sbjct: 267 QVPKGLPA--KLSVLDLSYNRLDRNP-SPDELPQVGNLSLKG 305

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 40.7 bits (95), Expect = 7e-04
 Identities = 28/112 (25%), Positives = 43/112 (38%), Gaps = 9/112 (8%)

Query: 257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVC--- 313
           P+  P L  L + N           +       L  LDLS  S L+      S +     
Sbjct: 197 PLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNS-LRDAAGAPSCDWPSQL 255

Query: 314 -WLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNL 364
             L L  T ++++P  +    +L  L+LS   RL   PS   +L  +  L+L
Sbjct: 256 NSLNLSFTGLKQVPKGL--PAKLSVLDLSYN-RLDRNPSPD-ELPQVGNLSL 303

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 36/108 (33%), Positives = 57/108 (52%), Gaps = 10/108 (9%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI---SSGNVCWLFLRGTAIEELPSSI 329
           + K L S+P+GI +    T+L+L   +KL+ LP         +  L L    I+ LP  +
Sbjct: 15  NSKGLTSVPTGIPSS--ATRLELES-NKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGV 71

Query: 330 -DRLRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSNLQRLPE 375
            D+L +L  L L + K L+SLP+ +  KL  LK L L   + L+ +P+
Sbjct: 72  FDKLTKLTILYLHENK-LQSLPNGVFDKLTQLKELALDT-NQLKSVPD 117

>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 Length = 176

 Score = 42.1 bits (99), Expect = 8e-05
 Identities = 17/106 (16%), Positives = 37/106 (34%), Gaps = 11/106 (10%)

Query: 275 KSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSG--NVCWLFLRGT------AIEELP 326
           K    LP+G  +   +  +D +    +    +   G   V  + L          +E L 
Sbjct: 48  KDYNHLPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLS 107

Query: 327 SSIDRLRRLGYLNLSDCKRL--KSLPSSLCKLKSLKVLNLCGCSNL 370
              +  + +  + +  C  +  K +  +L   ++LK L L     +
Sbjct: 108 QLENLQKSMLEMEIISCGNVTDKGI-IALHHFRNLKYLFLSDLPGV 152

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7 Length = 192

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 31/130 (23%), Positives = 49/130 (37%), Gaps = 36/130 (27%)

Query: 273 SGKSLKSLPSGI----------------------FN-LEFLTKLDLSGCSKLKRLPE--- 306
           +G+ LK +P  I                      F  L  L KL+L   ++L  +     
Sbjct: 16  TGRGLKEIPRDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKR-NQLTGIEPNAF 74

Query: 307 ISSGNVCWLFLRGTAIEELPSSI-DRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNL 364
             + ++  L L    I+E+ + +   L +L  LNL D  ++  +   S   L SL  LNL
Sbjct: 75  EGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSLNL 133

Query: 365 ------CGCS 368
                 C C 
Sbjct: 134 ASNPFNCNCH 143

>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 Length = 336

 Score = 42.6 bits (100), Expect = 2e-04
 Identities = 31/128 (24%), Positives = 52/128 (40%), Gaps = 26/128 (20%)

Query: 262 RLNNLVILNLR-----SGKSLKSLPSGIFNLEFLTKLDLSGCSKL----------KRLPE 306
           + +NLV LNL      S  +L++L S    L+   +L+LS C                  
Sbjct: 140 KNSNLVRLNLSGCSGFSEFALQTLLSSCSRLD---ELNLSWCFDFTEKHVQVAVAHVSET 196

Query: 307 ISSGNV--CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRL--KSLPSSLCKLKSLKVL 362
           I+  N+      L+ + +  L   + R   L +L+LSD   L          +L  L+ L
Sbjct: 197 ITQLNLSGYRKNLQKSDLSTL---VRRCPNLVHLDLSDSVMLKNDCF-QEFFQLNYLQHL 252

Query: 363 NLCGCSNL 370
           +L  C ++
Sbjct: 253 SLSRCYDI 260

>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 Length = 336

 Score = 41.4 bits (97), Expect = 4e-04
 Identities = 25/125 (20%), Positives = 46/125 (36%), Gaps = 21/125 (16%)

Query: 247 CNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLP 305
              L  K  +P +  RL +  ++  R  +S    P +  F+   +  +DLS         
Sbjct: 51  TLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSV------ 104

Query: 306 EISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLC 365
            I    +  +             + +  +L  L+L   +    + ++L K  +L  LNL 
Sbjct: 105 -IEVSTLHGI-------------LSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLS 150

Query: 366 GCSNL 370
           GCS  
Sbjct: 151 GCSGF 155

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus} Length = 174

 Score = 40.3 bits (95), Expect = 4e-04
 Identities = 28/107 (26%), Positives = 49/107 (45%), Gaps = 15/107 (14%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
               L S+P+GI       +L L+  +++ +L         N+  L+     +  +P+ +
Sbjct: 20  QNIRLASVPAGI--PTDKQRLWLNN-NQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGV 76

Query: 330 -DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNL------CGCS 368
            D+L +L  L+L+D   LKS+P  +   LKSL  + L      C C 
Sbjct: 77  FDKLTQLTQLDLNDNH-LKSIPRGAFDNLKSLTHIYLYNNPWDCECR 122

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D Length = 170

 Score = 39.9 bits (94), Expect = 5e-04
 Identities = 34/107 (31%), Positives = 52/107 (48%), Gaps = 15/107 (14%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSI 329
           SGKSL S+P+GI        L L   +++ +L          +  L L    +  LP+ +
Sbjct: 17  SGKSLASVPTGI--PTTTQVLYLYD-NQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGV 73

Query: 330 -DRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNL------CGCS 368
            D+L +L  L+L+D  +LKS+P  +   LKSL  + L      C CS
Sbjct: 74  FDKLTQLTQLSLND-NQLKSIPRGAFDNLKSLTHIWLLNNPWDCACS 119

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	466
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.97
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.93
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.91
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.88
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.86
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.83
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.81
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.8
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.79
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.79
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.76
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.75
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.74
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.73
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.73
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.72
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.72
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.72
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.72
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.71
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.71
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.71
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.71
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.7
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.7
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.7
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.7
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.7
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.69
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.69
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.69
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.69
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.69
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.69
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.68
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.67
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.67
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.67
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.67
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.67
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.67
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.67
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.67
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.66
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.66
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.66
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.66
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.66
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.66
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.66
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.65
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.64
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.64
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.64
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.63
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.63
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.63
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.63
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.63
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.63
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.63
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.62
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.62
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.62
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.62
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.62
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.61
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.61
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.61
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.6
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.6
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.6
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.6
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.6
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.6
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.6
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.6
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.59
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.59
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.59
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.58
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.58
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.58
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.58
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.58
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.57
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.57
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.57
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.57
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.57
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.56
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.56
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.56
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.56
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.56
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.56
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.56
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.54
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.54
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.54
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.54
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.54
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.53
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.53
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.5
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.5
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.5
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.49
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.49
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.48
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.46
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.45
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.44
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.43
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.42
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.42
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.41
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.41
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.41
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.41
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.4
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.4
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.39
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.36
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.33
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.3
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.29
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.28
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.27
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.27
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.26
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.25
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.22
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.2
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.19
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.18
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.18
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.18
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.02
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.01
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.97
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.92
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.91
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.85
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.79
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.69
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.68
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.66
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.56
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.46
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.27
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.19
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.17
2fna_A	357	Conserved hypothetical protein; structural genomic	98.1
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.09
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.06
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.02
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.91
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.77
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.76
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.22
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	97.12
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.77
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	96.5
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.37
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	96.32
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.19
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.05
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	95.86
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.7
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.45
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	94.95
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	94.9
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	94.81
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	94.72
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.37
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	93.11
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	92.05
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	89.31
2chq_A	319	Replication factor C small subunit; DNA-binding pr	88.75
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	88.42
3bos_A	242	Putative DNA replication factor; P-loop containing	84.73
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	83.86

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

Probab=99.97  E-value=2.5e-31  Score=270.19  Aligned_cols=201  Identities=15%  Similarity=0.154  Sum_probs=159.0

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhhcC-cceEEEccCCChhhHHHHHHHhhcCCCCCCchH
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWG-VRKIYEIEALENHHALELFSRHAFKRNHPDVGY   79 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~~-~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~   79 (466)
                      |||||||||||+.+++ .+. .    .+||+||||||++.++..++ ..++|+|++|+++|||+||.+.+|.... .+..
T Consensus       243 kr~LlVLDdv~~~~~~-~~~-~----~~gs~ilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~  315 (549)
T 2a5y_B          243 PNTLFVFDDVVQEETI-RWA-Q----ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKE  315 (549)
T ss_dssp             TTEEEEEEEECCHHHH-HHH-H----HTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHH
T ss_pred             CcEEEEEECCCCchhh-ccc-c----cCCCEEEEEcCCHHHHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhH
Confidence            4999999999998865 221 1    27999999999999998876 4468999999999999999999986543 4677


Q ss_pred             HHHHHHHHHHhCCCceeehhhhhhcccCCHHHHHHHHH-HHHhccchhHHHHHHHHHhcCchhhhhhhc-----------
Q 012324           80 EKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAIN-KLQRILHPSILEVLKISYDSLDNKEKNIFL-----------  147 (466)
Q Consensus        80 ~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~-~l~~~~~~~~~~~l~~sy~~L~~~~~~~~~-----------  147 (466)
                      .+++++|+++|+|+|||++++|+.++.+. ++|...+. .++......+..++.+||+.||++.+.||+           
T Consensus       316 ~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~  394 (549)
T 2a5y_B          316 EDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALA  394 (549)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTT
T ss_pred             HHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhcccHHHHHHHHhcccccccHHHHHHHhccchhhhhHhh
Confidence            88999999999999999999999998774 23322222 233323455777788889988888888888           


Q ss_pred             eeeccCCCccHHHHHHHHHhc--CCCccc-----------hhhhhhcccceEEcC---CCeEEecHHHHHHHHHHHhhhc
Q 012324          148 DVACFFQGEDVNLVMKFLNAS--GFYPEI-----------GISVLVDKSLIAIGS---YNKIRMHDLLQELGREIVRQES  211 (466)
Q Consensus       148 ~~~~fp~~~~~~~l~~~~~~~--~~~~~~-----------~~~~L~~~sl~~~~~---~~~~~~hdlv~~~~~~~~~~~~  211 (466)
                      |||+||+++.++  ++.|+++  ||+...           ++++|++++|++...   ...|+|||++|++|+.++..++
T Consensus       395 ~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          395 FAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             GGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             heeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            999999998888  8899999  776432           599999999998753   3579999999999998776554

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

Probab=99.93  E-value=1.7e-26  Score=257.98  Aligned_cols=199  Identities=21%  Similarity=0.278  Sum_probs=168.1

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhh-cCcceEEEccC-CChhhHHHHHHHhhcCCCCCCch
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRN-WGVRKIYEIEA-LENHHALELFSRHAFKRNHPDVG   78 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~-~~~~~~~~l~~-L~~~~~~~Lf~~~~~~~~~~~~~   78 (466)
                      |||||||||||+.++|..+       .+||+||||||++.++.. ++..+.+.+++ |+++||++||...++...   +.
T Consensus       236 ~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~---~~  305 (1249)
T 3sfz_A          236 PRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK---ED  305 (1249)
T ss_dssp             CSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS---TT
T ss_pred             CCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCCh---hh
Confidence            4899999999998876653       578999999999999855 45567899996 999999999999884432   33


Q ss_pred             HHHHHHHHHHHhCCCceeehhhhhhcccCCHHHHHHHHHHHHhcc-----------chhHHHHHHHHHhcCchhhhhhhc
Q 012324           79 YEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRIL-----------HPSILEVLKISYDSLDNKEKNIFL  147 (466)
Q Consensus        79 ~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~-----------~~~~~~~l~~sy~~L~~~~~~~~~  147 (466)
                      ..+.+++|+++|+|+||||+++|++|+.+. ..|+.+++.+....           ...+..++.+||+.|+++.|.||+
T Consensus       306 ~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~  384 (1249)
T 3sfz_A          306 LPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYT  384 (1249)
T ss_dssp             CCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHH
T ss_pred             CcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHH
Confidence            456799999999999999999999998776 46999999886553           145899999999999999999999


Q ss_pred             eeeccCCCccH--HHHHHHHHhcCCCccchhhhhhcccceEEcCCC---eEEecHHHHHHHHHHHhhh
Q 012324          148 DVACFFQGEDV--NLVMKFLNASGFYPEIGISVLVDKSLIAIGSYN---KIRMHDLLQELGREIVRQE  210 (466)
Q Consensus       148 ~~~~fp~~~~~--~~l~~~~~~~~~~~~~~~~~L~~~sl~~~~~~~---~~~~hdlv~~~~~~~~~~~  210 (466)
                      ||++||+++.+  ..+++.|.+++......++.|++++|++....+   .|+||+++|++++..+.++
T Consensus       385 ~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          385 DLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             HhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            99999998655  459999988776677889999999999976544   4999999999999886655

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.91  E-value=3.5e-25  Score=229.49  Aligned_cols=180  Identities=16%  Similarity=0.152  Sum_probs=146.7

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhhcCcceEEEcc------CCChhhHHHHHHHhhcCCCC
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEIE------ALENHHALELFSRHAFKRNH   74 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~~~~~~~~l~------~L~~~~~~~Lf~~~~~~~~~   74 (466)
                      ||+||||||||+.++|+.+.       .||+||||||++.++..+.....|+++      +|+.+|||+||.+.. +.. 
T Consensus       244 KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~-  314 (1221)
T 1vt4_I          244 ENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR-  314 (1221)
T ss_dssp             SSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC-
T ss_pred             CCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC-
Confidence            68999999999999898753       689999999999998755444456666      899999999999984 322 


Q ss_pred             CCchHHHHHHHHHHHhCCCceeehhhhhhcccC--CHHHHHHHHHHHHhccchhHHHHHHHHHhcCchhh-hhhhceeec
Q 012324           75 PDVGYEKLSSKVMKYAQGVPLALKVLGCFLYER--EKEVSESAINKLQRILHPSILEVLKISYDSLDNKE-KNIFLDVAC  151 (466)
Q Consensus        75 ~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~--~~~~w~~~~~~l~~~~~~~~~~~l~~sy~~L~~~~-~~~~~~~~~  151 (466)
                       .   .+++.++   |+|+||||+++|+.|+.+  ....|+..       ....+..++.+||+.||++. |.||++||+
T Consensus       315 -~---eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAI  380 (1221)
T 1vt4_I          315 -P---QDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSV  380 (1221)
T ss_dssp             -T---TTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTS
T ss_pred             -H---HHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhC
Confidence             1   2233343   999999999999999976  67778653       35679999999999999999 999999999


Q ss_pred             cCCCccH--HHHHHHHHhcCC-CccchhhhhhcccceEEcC-CCeEEecHHHHHHH
Q 012324          152 FFQGEDV--NLVMKFLNASGF-YPEIGISVLVDKSLIAIGS-YNKIRMHDLLQELG  203 (466)
Q Consensus       152 fp~~~~~--~~l~~~~~~~~~-~~~~~~~~L~~~sl~~~~~-~~~~~~hdlv~~~~  203 (466)
                      ||+++.+  ..++..|+++|. .....+++|+++||++... ...|+|||++++++
T Consensus       381 FPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK  436 (1221)
T ss_dssp             SCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBCSSSSEEBCCCHHHHHH
T ss_pred             CCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEeCCCCEEEehHHHHHHh
Confidence            9998665  458999998863 2456799999999998753 56899999998865

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

Probab=99.88  E-value=4.7e-23  Score=212.18  Aligned_cols=195  Identities=21%  Similarity=0.268  Sum_probs=156.0

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhhcCcceEEEc---cCCChhhHHHHHHHhhcCCCCCCc
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVRKIYEI---EALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~~~~~~~~l---~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +++||||||+|+..++..+       ..|++||||||+..++..+. ...+++   ++|+.+||++||...++...   .
T Consensus       236 ~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~---~  304 (591)
T 1z6t_A          236 PRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMKK---A  304 (591)
T ss_dssp             TTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSCG---G
T ss_pred             CCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCCc---c
Confidence            4799999999997765532       56899999999999887654 234444   58999999999999886422   2


Q ss_pred             hHHHHHHHHHHHhCCCceeehhhhhhcccCCHHHHHHHHHHHHhcc-----------chhHHHHHHHHHhcCchhhhhhh
Q 012324           78 GYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRIL-----------HPSILEVLKISYDSLDNKEKNIF  146 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~-----------~~~~~~~l~~sy~~L~~~~~~~~  146 (466)
                      ...+.+.+|+++|+|+|+|+..+|+.++.+. ..|..+.+.+....           ...+..++..||+.||++.|.||
T Consensus       305 ~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l  383 (591)
T 1z6t_A          305 DLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYY  383 (591)
T ss_dssp             GSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHH
T ss_pred             cccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHH
Confidence            2345788999999999999999999998764 36888888876542           24788999999999999999999


Q ss_pred             ceeeccCCCccH--HHHHHHHHhcCCCccchhhhhhcccceEEcC---CCeEEecHHHHHHHHHHH
Q 012324          147 LDVACFFQGEDV--NLVMKFLNASGFYPEIGISVLVDKSLIAIGS---YNKIRMHDLLQELGREIV  207 (466)
Q Consensus       147 ~~~~~fp~~~~~--~~l~~~~~~~~~~~~~~~~~L~~~sl~~~~~---~~~~~~hdlv~~~~~~~~  207 (466)
                      +++|+||.++.+  ..+...|..+.......+..|++++++....   ...|+||+++|+++....
T Consensus       384 ~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          384 TDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             HHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             HHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            999999987554  5588888765444566799999999998543   237999999999998773

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

Probab=99.86  E-value=2.7e-21  Score=183.81  Aligned_cols=176  Identities=27%  Similarity=0.339  Sum_probs=158.4

Q ss_pred             CCCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC-----------CCcccEEeecCccCcc
Q 012324          256 NPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-----------SGNVCWLFLRGTAIEE  324 (466)
Q Consensus       256 ~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~-----------~~~l~~L~l~~~~i~~  324 (466)
                      .|..+..+++|++|++++|.+. .+|..+.++++|++|++++|...+.+|..+           ..+|++|++++|.++.
T Consensus       119 lp~~~~~l~~L~~L~Ls~n~l~-~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~  197 (328)
T 4fcg_A          119 LPDTMQQFAGLETLTLARNPLR-ALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRS  197 (328)
T ss_dssp             CCSCGGGGTTCSEEEEESCCCC-CCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCC
T ss_pred             hhHHHhccCCCCEEECCCCccc-cCcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCc
Confidence            3456889999999999999766 889999999999999999999999999765           5688999999999999


Q ss_pred             cChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhcc
Q 012324          325 LPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQL  403 (466)
Q Consensus       325 lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l  403 (466)
                      +|..++.+++|++|++++|.+. .+|+.++.+++|++|++++|+..+.+|..++.+++|+.|++++|++. .+|..+.++
T Consensus       198 lp~~l~~l~~L~~L~L~~N~l~-~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l  276 (328)
T 4fcg_A          198 LPASIANLQNLKSLKIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRL  276 (328)
T ss_dssp             CCGGGGGCTTCCEEEEESSCCC-CCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGC
T ss_pred             chHhhcCCCCCCEEEccCCCCC-cCchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcC
Confidence            9999999999999999998855 57778999999999999999999999999999999999999998777 889999999


Q ss_pred             CCCcEeecccCcCCCcCCCCeEeccCCCCc
Q 012324          404 FVLRYLLLSYSERFQSLPKPLFLARGCLAL  433 (466)
Q Consensus       404 ~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L  433 (466)
                      ++|++|++++|++.+.+|..+..+.++..+
T Consensus       277 ~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l  306 (328)
T 4fcg_A          277 TQLEKLDLRGCVNLSRLPSLIAQLPANCII  306 (328)
T ss_dssp             TTCCEEECTTCTTCCCCCGGGGGSCTTCEE
T ss_pred             CCCCEEeCCCCCchhhccHHHhhccCceEE
Confidence            999999999999999999887655544333

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

Probab=99.83  E-value=9.4e-21  Score=178.98  Aligned_cols=165  Identities=19%  Similarity=0.212  Sum_probs=97.1

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCc-ccChhhhccC-C
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIE-ELPSSIDRLR-R  334 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~-~lp~~l~~l~-~  334 (466)
                      .+.++++|++|++++|.+.+.+|..+.++++|++|++++|.+.+.+|..+.  .++++|++++|.++ .+|..++.++ +
T Consensus        96 ~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~  175 (313)
T 1ogq_A           96 AIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL  175 (313)
T ss_dssp             GGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTT
T ss_pred             hHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhc
Confidence            455666666666666655556666666666666666666665555554332  35566666666665 5566666665 6


Q ss_pred             CCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccC
Q 012324          335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~  414 (466)
                      |++|++++|.+.+..|..+..++ |++|++++|.+.+..|..+..+++|+.|++++|.++..+..+..+++|++|++++|
T Consensus       176 L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N  254 (313)
T 1ogq_A          176 FTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNN  254 (313)
T ss_dssp             CCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSS
T ss_pred             CcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCC
Confidence            66666666665555555555554 66666666555555555566666666666666666543334555566666666666


Q ss_pred             cCCCcCCCCe
Q 012324          415 ERFQSLPKPL  424 (466)
Q Consensus       415 ~~~~~~p~~~  424 (466)
                      .+.+.+|..+
T Consensus       255 ~l~~~~p~~l  264 (313)
T 1ogq_A          255 RIYGTLPQGL  264 (313)
T ss_dssp             CCEECCCGGG
T ss_pred             cccCcCChHH
Confidence            6555555544

>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=99.81  E-value=4.8e-19  Score=168.30  Aligned_cols=175  Identities=23%  Similarity=0.240  Sum_probs=138.1

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCcc-CcccChhhhc--
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTA-IEELPSSIDR--  331 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~-i~~lp~~l~~--  331 (466)
                      +..+.++++|++|++++|.+. .+|..++++++|++|++++|.+. .+|..+.  .+|++|++++|+ +..+|..++.  
T Consensus        97 p~~l~~l~~L~~L~L~~n~l~-~lp~~~~~l~~L~~L~Ls~n~l~-~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~  174 (328)
T 4fcg_A           97 PDQAFRLSHLQHMTIDAAGLM-ELPDTMQQFAGLETLTLARNPLR-ALPASIASLNRLRELSIRACPELTELPEPLASTD  174 (328)
T ss_dssp             CSCGGGGTTCSEEEEESSCCC-CCCSCGGGGTTCSEEEEESCCCC-CCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC
T ss_pred             ChhhhhCCCCCEEECCCCCcc-chhHHHhccCCCCEEECCCCccc-cCcHHHhcCcCCCEEECCCCCCccccChhHhhcc
Confidence            445777889999999888766 88888889999999999998876 6665443  577999998854 4477776654  


Q ss_pred             -------cCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhcc
Q 012324          332 -------LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQL  403 (466)
Q Consensus       332 -------l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l  403 (466)
                             +++|++|++++|.+. .+|..++++++|++|++++|.+. .+|..++.+++|+.|++++|++. .+|..++++
T Consensus       175 ~~~~~~~l~~L~~L~L~~n~l~-~lp~~l~~l~~L~~L~L~~N~l~-~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l  252 (328)
T 4fcg_A          175 ASGEHQGLVNLQSLRLEWTGIR-SLPASIANLQNLKSLKIRNSPLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGR  252 (328)
T ss_dssp             -CCCEEESTTCCEEEEEEECCC-CCCGGGGGCTTCCEEEEESSCCC-CCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCC
T ss_pred             chhhhccCCCCCEEECcCCCcC-cchHhhcCCCCCCEEEccCCCCC-cCchhhccCCCCCEEECcCCcchhhhHHHhcCC
Confidence                   889999999988754 78888889999999999987776 46777888999999999988777 778888899


Q ss_pred             CCCcEeecccCcCCCcCCCCeEeccCCCCcccccc
Q 012324          404 FVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLG  438 (466)
Q Consensus       404 ~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~  438 (466)
                      ++|++|++++|.+.+.+|..+.   ++++|+.+..
T Consensus       253 ~~L~~L~L~~n~~~~~~p~~~~---~l~~L~~L~L  284 (328)
T 4fcg_A          253 APLKRLILKDCSNLLTLPLDIH---RLTQLEKLDL  284 (328)
T ss_dssp             CCCCEEECTTCTTCCBCCTTGG---GCTTCCEEEC
T ss_pred             CCCCEEECCCCCchhhcchhhh---cCCCCCEEeC
Confidence            9999999999988888887654   3344444433

>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=99.80  E-value=2.6e-19  Score=189.65  Aligned_cols=93  Identities=22%  Similarity=0.268  Sum_probs=53.5

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCc-ccChhhhccCC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIE-ELPSSIDRLRR  334 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~-~lp~~l~~l~~  334 (466)
                      ..+..+++|++|++++|.+.+.+|..+.++++|++|++++|.+.+.+|..+.  .++++|++++|.+. .+|..++.+++
T Consensus       460 ~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~  539 (768)
T 3rgz_A          460 QELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRS  539 (768)
T ss_dssp             GGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTT
T ss_pred             HHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCC
Confidence            3455566666666666666666666666666666666666666655554332  35566666666555 45555555555


Q ss_pred             CCeeeccccccccccc
Q 012324          335 LGYLNLSDCKRLKSLP  350 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p  350 (466)
                      |++|++++|.+.+.+|
T Consensus       540 L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          540 LIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             CCEEECCSSEEESBCC
T ss_pred             CCEEECCCCccCCcCC
Confidence            5555555554443333

>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=99.79  E-value=3.6e-19  Score=188.59  Aligned_cols=167  Identities=24%  Similarity=0.334  Sum_probs=114.6

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCc-ccChhh----
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIE-ELPSSI----  329 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~-~lp~~l----  329 (466)
                      +..+..+++|++|++++|.+.+.+|..++.+++|++|++++|.+.+.+|..+.  ..++.|++++|.+. .+|..+    
T Consensus       483 p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~  562 (768)
T 3rgz_A          483 PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQS  562 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTT
T ss_pred             CHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhccc
Confidence            34566677777777777776667777777777777777777777666665443  45677777776665 444332    


Q ss_pred             ------------------------------------------------------------------hccCCCCeeecccc
Q 012324          330 ------------------------------------------------------------------DRLRRLGYLNLSDC  343 (466)
Q Consensus       330 ------------------------------------------------------------------~~l~~L~~L~l~~~  343 (466)
                                                                                        +.+++|++|++++|
T Consensus       563 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N  642 (768)
T 3rgz_A          563 GKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYN  642 (768)
T ss_dssp             TCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSS
T ss_pred             chhhhhccccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCC
Confidence                                                                              22455667777777


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhccCCCcEeecccCcCCCcCCC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                      .+.+.+|..++++++|+.|++++|.+.+.+|..++++++|+.|++++|+++ .+|..+.++++|++|++++|++.|.+|.
T Consensus       643 ~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~N~l~g~iP~  722 (768)
T 3rgz_A          643 MLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE  722 (768)
T ss_dssp             CCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCSSEEEEECCS
T ss_pred             cccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcCCcccccCCC
Confidence            777777777777777777777777777777777777777777777777777 6677777777777777777777777775


Q ss_pred             C
Q 012324          423 P  423 (466)
Q Consensus       423 ~  423 (466)
                      .
T Consensus       723 ~  723 (768)
T 3rgz_A          723 M  723 (768)
T ss_dssp             S
T ss_pred             c
Confidence            3

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

Probab=99.79  E-value=4.6e-19  Score=167.38  Aligned_cols=180  Identities=17%  Similarity=0.220  Sum_probs=159.2

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC---CcccEEeecCccCc-ccChhhhcc
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS---GNVCWLFLRGTAIE-ELPSSIDRL  332 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~~l~~L~l~~~~i~-~lp~~l~~l  332 (466)
                      +..+.++++|++|++++|.+.+.+|..+..+++|++|++++|.+.+.+|..+.   ..+++|++++|.+. .+|..+..+
T Consensus       118 p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l  197 (313)
T 1ogq_A          118 PDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL  197 (313)
T ss_dssp             CGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGC
T ss_pred             CHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCC
Confidence            44688999999999999988889999999999999999999998888886554   27899999999999 788899998


Q ss_pred             CCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhccCCCcEeec
Q 012324          333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLL  411 (466)
Q Consensus       333 ~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l~~L~~L~l  411 (466)
                      + |++|++++|.+.+..|..+..+++|+.|++++|.+.+..|. +..+++|+.|++++|.++ .+|..+..+++|++|++
T Consensus       198 ~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L  275 (313)
T 1ogq_A          198 N-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNV  275 (313)
T ss_dssp             C-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGG-CCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEEC
T ss_pred             c-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCc-ccccCCCCEEECcCCcccCcCChHHhcCcCCCEEEC
Confidence            7 99999999998888899999999999999999988877765 888999999999999999 88999999999999999


Q ss_pred             ccCcCCCcCCCCeEeccCCCCccccccCccc
Q 012324          412 SYSERFQSLPKPLFLARGCLALEPFLGIIED  442 (466)
Q Consensus       412 ~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~  442 (466)
                      ++|.+.+.+|..    ..+++|+.+....+.
T Consensus       276 s~N~l~~~ip~~----~~l~~L~~l~l~~N~  302 (313)
T 1ogq_A          276 SFNNLCGEIPQG----GNLQRFDVSAYANNK  302 (313)
T ss_dssp             CSSEEEEECCCS----TTGGGSCGGGTCSSS
T ss_pred             cCCcccccCCCC----ccccccChHHhcCCC
Confidence            999999999975    456666666555443

>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=99.76  E-value=2.2e-17  Score=153.94  Aligned_cols=177  Identities=21%  Similarity=0.131  Sum_probs=147.1

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      ++++.|++++|.+.+..+..+..+++|++|++++|.+.+..+......+++|++++|.+..+|..+..+++|++|++++|
T Consensus        31 ~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N  110 (290)
T 1p9a_G           31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFN  110 (290)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSS
T ss_pred             CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCCCCCCcCCEEECCCCcCCcCchhhccCCCCCEEECCCC
Confidence            68999999999887777888999999999999999877655555567889999999999999998999999999999998


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchh-hhccCCCcEeecccCcCCCcCCC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPES-IIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~-l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                      .+.+..|..+..+++|++|++++|.+....+..+..+++|+.|++++|.++.+|.. +.++++|++|++++|.+. .+|.
T Consensus       111 ~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~-~ip~  189 (290)
T 1p9a_G          111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLY-TIPK  189 (290)
T ss_dssp             CCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCC-CCCT
T ss_pred             cCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCC-ccCh
Confidence            86655557789999999999999888776666788999999999999999988874 578999999999998854 7887


Q ss_pred             CeEeccCCCCccccccCccccC
Q 012324          423 PLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       423 ~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      .++..   ..|+.+....+.+.
T Consensus       190 ~~~~~---~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          190 GFFGS---HLLPFAFLHGNPWL  208 (290)
T ss_dssp             TTTTT---CCCSEEECCSCCBC
T ss_pred             hhccc---ccCCeEEeCCCCcc
Confidence            76543   35555555555553

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

Probab=99.75  E-value=2.1e-17  Score=153.92  Aligned_cols=184  Identities=24%  Similarity=0.193  Sum_probs=132.3

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCcc-CCCCC--CcccEEeecCccCccc-ChhhhccC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL-PEISS--GNVCWLFLRGTAIEEL-PSSIDRLR  333 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~--~~l~~L~l~~~~i~~l-p~~l~~l~  333 (466)
                      ..+..+++|++|++++|.+.+..|..+..+++|++|++++|.....+ |..+.  .++++|++++|.+..+ |..+..++
T Consensus        50 ~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~  129 (285)
T 1ozn_A           50 ASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLA  129 (285)
T ss_dssp             TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCT
T ss_pred             HHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCc
Confidence            45777888888888888766666777888888888888888744444 43333  4678888888888866 44577888


Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeecc
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLS  412 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~  412 (466)
                      +|++|++++|.+.+..+..++.+++|++|++++|.+....+..+..+++|+.|++++|.++.+ |..+.++++|+.|+++
T Consensus       130 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  209 (285)
T 1ozn_A          130 ALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLF  209 (285)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCC
Confidence            888888888776554445577888888888888776655555678888888888888888854 6678888888888888


Q ss_pred             cCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          413 YSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       413 ~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +|.+.+ +|..  .+.++++|+.+....+.+.
T Consensus       210 ~n~l~~-~~~~--~~~~l~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          210 ANNLSA-LPTE--ALAPLRALQYLRLNDNPWV  238 (285)
T ss_dssp             SSCCSC-CCHH--HHTTCTTCCEEECCSSCEE
T ss_pred             CCcCCc-CCHH--HcccCcccCEEeccCCCcc
Confidence            887554 3332  1345666666666555543

>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=99.74  E-value=4.3e-17  Score=151.74  Aligned_cols=179  Identities=18%  Similarity=0.120  Sum_probs=150.2

Q ss_pred             CCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCcc-Cccc-ChhhhccCCCCee
Q 012324          263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTA-IEEL-PSSIDRLRRLGYL  338 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~-i~~l-p~~l~~l~~L~~L  338 (466)
                      .++|+.|++++|.+.+..+..+..+++|++|++++|.+.+..|..+.  .++++|++++|. +..+ |..+..+++|++|
T Consensus        31 ~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L  110 (285)
T 1ozn_A           31 PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTL  110 (285)
T ss_dssp             CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEE
T ss_pred             CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEE
Confidence            47999999999987776667899999999999999988776665544  578999999997 8877 6678999999999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~  417 (466)
                      ++++|.+.+..|..+..+++|++|++++|.+....+..+..+++|+.|++++|.++.+|. .+.++++|++|++++|.+.
T Consensus       111 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~  190 (285)
T 1ozn_A          111 HLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVA  190 (285)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC
T ss_pred             ECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCccc
Confidence            999998777777889999999999999998887767779999999999999999998876 5889999999999999987


Q ss_pred             CcCCCCeEeccCCCCccccccCccccC
Q 012324          418 QSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       418 ~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +..|..+.   ++++|+.+....+.+.
T Consensus       191 ~~~~~~~~---~l~~L~~L~l~~n~l~  214 (285)
T 1ozn_A          191 HVHPHAFR---DLGRLMTLYLFANNLS  214 (285)
T ss_dssp             EECTTTTT---TCTTCCEEECCSSCCS
T ss_pred             ccCHhHcc---CcccccEeeCCCCcCC
Confidence            77676654   4556665555444443

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

Probab=99.73  E-value=9.1e-17  Score=148.43  Aligned_cols=163  Identities=23%  Similarity=0.225  Sum_probs=133.6

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccChh-hhccC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPSS-IDRLR  333 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~-l~~l~  333 (466)
                      ...+..+++|++|++++|.+.+ + ..+..+++|++|++++|.+.+..+..+  ..++++|++++|.++.+|.. ++.++
T Consensus        56 ~~~l~~l~~L~~L~l~~n~l~~-~-~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~  133 (272)
T 3rfs_A           56 VQGIQYLPNVRYLALGGNKLHD-I-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLT  133 (272)
T ss_dssp             CTTGGGCTTCCEEECTTSCCCC-C-GGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCT
T ss_pred             ccccccCCCCcEEECCCCCCCC-c-hhhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCC
Confidence            3457888999999999997655 3 368899999999999998776555433  36789999999999987765 68899


Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecc
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLS  412 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~  412 (466)
                      +|++|++++|.+.+..+..++.+++|++|++++|.+.+..+..++.+++|+.|++++|.++.++. .+..+++|++|+++
T Consensus       134 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  213 (272)
T 3rfs_A          134 NLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLH  213 (272)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEcc
Confidence            99999999987665555557889999999999988887767778899999999999999997765 47889999999999


Q ss_pred             cCcCCCcCC
Q 012324          413 YSERFQSLP  421 (466)
Q Consensus       413 ~~~~~~~~p  421 (466)
                      +|++.+..|
T Consensus       214 ~N~~~~~~~  222 (272)
T 3rfs_A          214 DNPWDCTCP  222 (272)
T ss_dssp             SSCBCCCTT
T ss_pred             CCCccccCc
Confidence            998776555

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

Probab=99.73  E-value=4.2e-18  Score=176.37  Aligned_cols=161  Identities=20%  Similarity=0.275  Sum_probs=81.6

Q ss_pred             CCCCCCCCcEEEcCCCCCCcc-----------------cCcccc--cCcccCEEecCCCCCCCccCCCCC--CcccEEee
Q 012324          259 LMPRLNNLVILNLRSGKSLKS-----------------LPSGIF--NLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFL  317 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~-----------------~~~~l~--~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l  317 (466)
                      .++++++|++|++++|.+.+.                 +|..++  ++++|++|++++|.+.+.+|..+.  .+|++|++
T Consensus       201 ~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  280 (636)
T 4eco_A          201 AVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINV  280 (636)
T ss_dssp             GGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEEC
T ss_pred             HHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEEC
Confidence            345555555555555544443                 555555  555555555555555555554333  34455555


Q ss_pred             cCcc-Cc--ccChhhhcc------CCCCeeecccccccccccc--ccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEE
Q 012324          318 RGTA-IE--ELPSSIDRL------RRLGYLNLSDCKRLKSLPS--SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIIL  386 (466)
Q Consensus       318 ~~~~-i~--~lp~~l~~l------~~L~~L~l~~~~~~~~~p~--~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L  386 (466)
                      ++|+ ++  .+|..++.+      ++|++|++++|.+. .+|.  .++++++|++|++++|.+.+.+| .++.+++|+.|
T Consensus       281 s~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L  358 (636)
T 4eco_A          281 ACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASL  358 (636)
T ss_dssp             TTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEE
T ss_pred             cCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEE
Confidence            5554 44  245545444      55555555555433 4554  45555555555555555444555 44445555555


Q ss_pred             EccCCCccccchhhhccCC-CcEeecccCcCCCcCCC
Q 012324          387 NLAKTNIERIPESIIQLFV-LRYLLLSYSERFQSLPK  422 (466)
Q Consensus       387 ~l~~~~l~~lp~~l~~l~~-L~~L~l~~~~~~~~~p~  422 (466)
                      ++++|.++.+|..+.++++ |++|++++|.+. .+|.
T Consensus       359 ~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~-~lp~  394 (636)
T 4eco_A          359 NLAYNQITEIPANFCGFTEQVENLSFAHNKLK-YIPN  394 (636)
T ss_dssp             ECCSSEEEECCTTSEEECTTCCEEECCSSCCS-SCCS
T ss_pred             ECCCCccccccHhhhhhcccCcEEEccCCcCc-ccch
Confidence            5555555555544555554 555555544433 4443

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

Probab=99.72  E-value=2.5e-16  Score=145.32  Aligned_cols=178  Identities=20%  Similarity=0.145  Sum_probs=120.6

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccChh-hhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPSS-IDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l  340 (466)
                      ++++.|++++|.+....+..+.++++|++|++++|.+....+..+  ..++++|++++|.+..+|.. +..+++|++|++
T Consensus        37 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  116 (270)
T 2o6q_A           37 ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRL  116 (270)
T ss_dssp             TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEEC
T ss_pred             CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEEC
Confidence            567888888776655555567778888888888776554333322  34678888888887777653 567778888888


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCCc
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      ++|.+....+..+..+++|++|++++|.+....+..+..+++|+.|++++|.++.+|. .+.++++|++|++++|.+. .
T Consensus       117 ~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~-~  195 (270)
T 2o6q_A          117 DRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLK-R  195 (270)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCS-C
T ss_pred             CCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcCC-c
Confidence            8777655555556777888888888776665555557777888888888888776665 4677788888888877654 3


Q ss_pred             CCCCeEeccCCCCccccccCccccC
Q 012324          420 LPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +|...  +..+++|+.+....+.+.
T Consensus       196 ~~~~~--~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          196 VPEGA--FDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             CCTTT--TTTCTTCCEEECCSSCBC
T ss_pred             CCHHH--hccccCCCEEEecCCCee
Confidence            44432  235566666666555543

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

Probab=99.72  E-value=1.1e-16  Score=152.31  Aligned_cols=178  Identities=21%  Similarity=0.146  Sum_probs=121.7

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChh-hhccCCC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSS-IDRLRRL  335 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~-l~~l~~L  335 (466)
                      +..+.++++|++|++++|.+.+..|..+.++++|++|++++|.+. .+|.....++++|++++|.+..+|.. +..+++|
T Consensus        71 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~~~~~~~L~~L~l~~n~i~~~~~~~~~~l~~L  149 (332)
T 2ft3_A           71 KDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLV-EIPPNLPSSLVELRIHDNRIRKVPKGVFSGLRNM  149 (332)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCCC-SCCSSCCTTCCEEECCSSCCCCCCSGGGSSCSSC
T ss_pred             HhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcCC-ccCccccccCCEEECCCCccCccCHhHhCCCccC
Confidence            346888999999999999877777888999999999999998765 56666667889999999888877764 7788888


Q ss_pred             Ceeecccccccc--ccccccCCC--------------------CCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCc
Q 012324          336 GYLNLSDCKRLK--SLPSSLCKL--------------------KSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNI  393 (466)
Q Consensus       336 ~~L~l~~~~~~~--~~p~~~~~l--------------------~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l  393 (466)
                      ++|++++|.+..  ..|..+..+                    ++|++|++++|.+.+..|..+..+++|+.|++++|.+
T Consensus       150 ~~L~l~~n~l~~~~~~~~~~~~l~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l  229 (332)
T 2ft3_A          150 NCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQI  229 (332)
T ss_dssp             CEEECCSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCC
T ss_pred             CEEECCCCccccCCCCcccccCCccCEEECcCCCCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcC
Confidence            888888876532  333333322                    3455555555555555555666677777777777777


Q ss_pred             cccch-hhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccC
Q 012324          394 ERIPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGI  439 (466)
Q Consensus       394 ~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~  439 (466)
                      +.++. .+..+++|++|++++|.+. .+|..+.   ++++|+.+...
T Consensus       230 ~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l~---~l~~L~~L~l~  272 (332)
T 2ft3_A          230 RMIENGSLSFLPTLRELHLDNNKLS-RVPAGLP---DLKLLQVVYLH  272 (332)
T ss_dssp             CCCCTTGGGGCTTCCEEECCSSCCC-BCCTTGG---GCTTCCEEECC
T ss_pred             CcCChhHhhCCCCCCEEECCCCcCe-ecChhhh---cCccCCEEECC
Confidence            65543 5666777777777766543 5665533   34444444433

>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=99.72  E-value=2.3e-16  Score=143.94  Aligned_cols=156  Identities=19%  Similarity=0.116  Sum_probs=135.3

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l  340 (466)
                      ++++.|++++|.+.+..+..+.++++|++|++++|.+.+..+..+.  .+|++|++++|.++.+|. .+..+++|++|++
T Consensus        35 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  114 (251)
T 3m19_A           35 ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYL  114 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEc
Confidence            6899999999988888888899999999999999998876665433  688999999999998875 4689999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCCc
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      ++|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.++.+|. .+.++++|++|++++|++...
T Consensus       115 ~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          115 GGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCTT
T ss_pred             CCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCceeCC
Confidence            9998665444557899999999999988876666689999999999999999997776 788999999999999997665

>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=99.72  E-value=3.7e-16  Score=148.63  Aligned_cols=185  Identities=21%  Similarity=0.137  Sum_probs=127.0

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccCh-hhhccCCC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPS-SIDRLRRL  335 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~-~l~~l~~L  335 (466)
                      +..+.++++|++|++++|.+.+..|..+.++++|++|++++|.+. .+|.....++++|++++|.+..++. .+.++++|
T Consensus        69 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~-~l~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L  147 (330)
T 1xku_A           69 DGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK-ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQM  147 (330)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCS-BCCSSCCTTCCEEECCSSCCCBBCHHHHTTCTTC
T ss_pred             hhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCC-ccChhhcccccEEECCCCcccccCHhHhcCCccc
Confidence            345788999999999999877777888999999999999998755 5666666778888888888876665 35667777


Q ss_pred             Ceeecccccccc--ccccccCCCCC---------------------CCEEEecCCCCCCCCCcccCCCCCCcEEEccCCC
Q 012324          336 GYLNLSDCKRLK--SLPSSLCKLKS---------------------LKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN  392 (466)
Q Consensus       336 ~~L~l~~~~~~~--~~p~~~~~l~~---------------------L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~  392 (466)
                      ++|++++|.+..  ..+..+..+++                     |++|++++|.+.+..|..+..+++|+.|++++|.
T Consensus       148 ~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~  227 (330)
T 1xku_A          148 IVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS  227 (330)
T ss_dssp             CEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC
T ss_pred             cEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccccccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc
Confidence            777777665432  33344444444                     4444555544444456667777888888888888


Q ss_pred             ccccch-hhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCCC
Q 012324          393 IERIPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRI  446 (466)
Q Consensus       393 l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~~  446 (466)
                      ++.++. .+..+++|++|++++|.+. .+|..+   ..+++|+.+....+.+..+
T Consensus       228 l~~~~~~~~~~l~~L~~L~L~~N~l~-~lp~~l---~~l~~L~~L~l~~N~i~~~  278 (330)
T 1xku_A          228 ISAVDNGSLANTPHLRELHLNNNKLV-KVPGGL---ADHKYIQVVYLHNNNISAI  278 (330)
T ss_dssp             CCEECTTTGGGSTTCCEEECCSSCCS-SCCTTT---TTCSSCCEEECCSSCCCCC
T ss_pred             CceeChhhccCCCCCCEEECCCCcCc-cCChhh---ccCCCcCEEECCCCcCCcc
Confidence            875544 6777888888888877644 666654   3455555555544444433

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

Probab=99.71  E-value=8.1e-18  Score=158.78  Aligned_cols=160  Identities=21%  Similarity=0.149  Sum_probs=74.9

Q ss_pred             CCCCcEEEcCCCCCCcccCccc--ccCcccCEEecCCCCCCCccCCCC-------CCcccEEeecCccCcccC-hhhhcc
Q 012324          263 LNNLVILNLRSGKSLKSLPSGI--FNLEFLTKLDLSGCSKLKRLPEIS-------SGNVCWLFLRGTAIEELP-SSIDRL  332 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l--~~l~~L~~L~l~~~~~~~~~~~~~-------~~~l~~L~l~~~~i~~lp-~~l~~l  332 (466)
                      +++|++|++++|.+.+.+|..+  ..+++|++|++++|.+.+. |..+       ..++++|++++|.+..++ ..++.+
T Consensus        94 l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l  172 (312)
T 1wwl_A           94 ISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVF  172 (312)
T ss_dssp             TSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCC
T ss_pred             cCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccC
Confidence            4455555555555544555443  4555555555555554443 3211       134555555555555443 345555


Q ss_pred             CCCCeeeccccccccc--ccccc--CCCCCCCEEEecCCCCCC--CCC-cccCCCCCCcEEEccCCCccccc--hhhhcc
Q 012324          333 RRLGYLNLSDCKRLKS--LPSSL--CKLKSLKVLNLCGCSNLQ--RLP-ECLGQLSSPIILNLAKTNIERIP--ESIIQL  403 (466)
Q Consensus       333 ~~L~~L~l~~~~~~~~--~p~~~--~~l~~L~~L~l~~~~~~~--~~p-~~l~~l~~L~~L~l~~~~l~~lp--~~l~~l  403 (466)
                      ++|++|++++|.+.+.  .|..+  +.+++|++|++++|.+.+  .++ ..+..+++|+.|++++|.++..+  ..+..+
T Consensus       173 ~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l  252 (312)
T 1wwl_A          173 PALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWP  252 (312)
T ss_dssp             SSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCC
T ss_pred             CCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhc
Confidence            5555555555544333  22222  455555555555544431  111 12234455555555555555322  233344


Q ss_pred             CCCcEeecccCcCCCcCCCCe
Q 012324          404 FVLRYLLLSYSERFQSLPKPL  424 (466)
Q Consensus       404 ~~L~~L~l~~~~~~~~~p~~~  424 (466)
                      ++|++|++++|.+. .+|..+
T Consensus       253 ~~L~~L~Ls~N~l~-~ip~~~  272 (312)
T 1wwl_A          253 SQLNSLNLSFTGLK-QVPKGL  272 (312)
T ss_dssp             TTCCEEECTTSCCS-SCCSSC
T ss_pred             CCCCEEECCCCccC-hhhhhc
Confidence            55555555555433 444433

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

Probab=99.71  E-value=5.5e-18  Score=175.51  Aligned_cols=168  Identities=17%  Similarity=0.186  Sum_probs=139.8

Q ss_pred             CCCCCC--CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCC-CCC-ccCCCCC--------CcccEEeecCccCc
Q 012324          256 NPMLMP--RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS-KLK-RLPEISS--------GNVCWLFLRGTAIE  323 (466)
Q Consensus       256 ~~~~~~--~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~-~~~~~~~--------~~l~~L~l~~~~i~  323 (466)
                      .|..++  ++++|++|++++|.+.+.+|..++++++|++|++++|. +.+ .+|..+.        .++++|++++|.++
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~  318 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK  318 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC
Confidence            345677  89999999999998899999999999999999999998 776 6775432        57899999999999


Q ss_pred             ccCh--hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCC-CcEEEccCCCccccchhh
Q 012324          324 ELPS--SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS-PIILNLAKTNIERIPESI  400 (466)
Q Consensus       324 ~lp~--~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~-L~~L~l~~~~l~~lp~~l  400 (466)
                      .+|.  .++.+++|++|++++|.+.+.+| .++.+++|++|++++|.+. .+|..+..+++ |+.|++++|.++.+|..+
T Consensus       319 ~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L~~N~l~-~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~  396 (636)
T 4eco_A          319 TFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNLAYNQIT-EIPANFCGFTEQVENLSFAHNKLKYIPNIF  396 (636)
T ss_dssp             SCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEECCSSEEE-ECCTTSEEECTTCCEEECCSSCCSSCCSCC
T ss_pred             ccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEECCCCccc-cccHhhhhhcccCcEEEccCCcCcccchhh
Confidence            9998  89999999999999988877888 7888888999999887666 78888888888 888998888888888877


Q ss_pred             hccC--CCcEeecccCcCCCcCCCCeE
Q 012324          401 IQLF--VLRYLLLSYSERFQSLPKPLF  425 (466)
Q Consensus       401 ~~l~--~L~~L~l~~~~~~~~~p~~~~  425 (466)
                      ..++  +|++|++++|.+.+.+|..+.
T Consensus       397 ~~~~l~~L~~L~Ls~N~l~~~~p~~l~  423 (636)
T 4eco_A          397 DAKSVSVMSAIDFSYNEIGSVDGKNFD  423 (636)
T ss_dssp             CTTCSSCEEEEECCSSCTTTTTTCSSC
T ss_pred             hhcccCccCEEECcCCcCCCcchhhhc
Confidence            6644  788888888887777665443

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

Probab=99.71  E-value=2.1e-17  Score=174.83  Aligned_cols=164  Identities=18%  Similarity=0.211  Sum_probs=144.8

Q ss_pred             CCCCCC--CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCC-CCC-ccCCCCC---------CcccEEeecCccC
Q 012324          256 NPMLMP--RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS-KLK-RLPEISS---------GNVCWLFLRGTAI  322 (466)
Q Consensus       256 ~~~~~~--~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~-~~~~~~~---------~~l~~L~l~~~~i  322 (466)
                      .|..++  ++++|++|++++|.+.+.+|..++++++|++|++++|. +.+ .+|..+.         .+|+.|++++|.+
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~Ls~N~L  560 (876)
T 4ecn_A          481 ENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNL  560 (876)
T ss_dssp             TTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCC
T ss_pred             CChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcC
Confidence            455666  99999999999999999999999999999999999998 776 6775322         3789999999999


Q ss_pred             cccCh--hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCC-CcEEEccCCCccccchh
Q 012324          323 EELPS--SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS-PIILNLAKTNIERIPES  399 (466)
Q Consensus       323 ~~lp~--~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~-L~~L~l~~~~l~~lp~~  399 (466)
                      +.+|.  .++++++|++|++++|.+. .+| .++.+++|+.|++++|.+. .+|..+..+++ |+.|++++|.++.+|..
T Consensus       561 ~~ip~~~~l~~L~~L~~L~Ls~N~l~-~lp-~~~~L~~L~~L~Ls~N~l~-~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~  637 (876)
T 4ecn_A          561 EEFPASASLQKMVKLGLLDCVHNKVR-HLE-AFGTNVKLTDLKLDYNQIE-EIPEDFCAFTDQVEGLGFSHNKLKYIPNI  637 (876)
T ss_dssp             CBCCCHHHHTTCTTCCEEECTTSCCC-BCC-CCCTTSEESEEECCSSCCS-CCCTTSCEECTTCCEEECCSSCCCSCCSC
T ss_pred             CccCChhhhhcCCCCCEEECCCCCcc-cch-hhcCCCcceEEECcCCccc-cchHHHhhccccCCEEECcCCCCCcCchh
Confidence            99999  8999999999999999866 888 7999999999999998877 89999999999 99999999999999988


Q ss_pred             hhccCC--CcEeecccCcCCCcCCC
Q 012324          400 IIQLFV--LRYLLLSYSERFQSLPK  422 (466)
Q Consensus       400 l~~l~~--L~~L~l~~~~~~~~~p~  422 (466)
                      +..++.  |+.|++++|.+.+.+|.
T Consensus       638 ~~~~~~~~L~~L~Ls~N~l~g~ip~  662 (876)
T 4ecn_A          638 FNAKSVYVMGSVDFSYNKIGSEGRN  662 (876)
T ss_dssp             CCTTCSSCEEEEECCSSCTTTTSSS
T ss_pred             hhccccCCCCEEECcCCcCCCcccc
Confidence            777654  99999999988776653

>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=99.71  E-value=3.8e-17  Score=162.65  Aligned_cols=131  Identities=19%  Similarity=0.102  Sum_probs=86.1

Q ss_pred             cccEEeecCccCccc-ChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEcc
Q 012324          311 NVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLA  389 (466)
Q Consensus       311 ~l~~L~l~~~~i~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~  389 (466)
                      .++.|++++|.+..+ |..++.+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..|..+..+++|+.|+++
T Consensus       276 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls  355 (455)
T 3v47_A          276 GVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLS  355 (455)
T ss_dssp             CCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECC
T ss_pred             CceEEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECC
Confidence            345555555555533 4456677777777777777666666667777777777777776666666677777777777777


Q ss_pred             CCCcccc-chhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          390 KTNIERI-PESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       390 ~~~l~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +|.++.+ |..+.++++|++|++++|.+.+ +|...  +.++++|+.+....+.+.
T Consensus       356 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~-~~~~~--~~~l~~L~~L~l~~N~l~  408 (455)
T 3v47_A          356 YNHIRALGDQSFLGLPNLKELALDTNQLKS-VPDGI--FDRLTSLQKIWLHTNPWD  408 (455)
T ss_dssp             SSCCCEECTTTTTTCTTCCEEECCSSCCSC-CCTTT--TTTCTTCCEEECCSSCBC
T ss_pred             CCcccccChhhccccccccEEECCCCcccc-CCHhH--hccCCcccEEEccCCCcc
Confidence            7777744 5567777777777777776543 44432  245666776666666554

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

Probab=99.70  E-value=5.1e-16  Score=143.24  Aligned_cols=164  Identities=23%  Similarity=0.183  Sum_probs=137.5

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccCh-hhhccC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPS-SIDRLR  333 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~-~l~~l~  333 (466)
                      +..+.++++|++|++++|.+....+..+.++++|++|++++|.+....+..+  ..+|++|++++|.++.+|. .+..++
T Consensus        54 ~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~  133 (270)
T 2o6q_A           54 SKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLT  133 (270)
T ss_dssp             TTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCT
T ss_pred             HHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCc
Confidence            4468899999999999997665545556889999999999998776554433  3578999999999998876 478999


Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecc
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLS  412 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~  412 (466)
                      +|++|++++|.+.+..+..+..+++|++|++++|.+....+..+..+++|+.|++++|.++.+|. .+..+++|+.|+++
T Consensus       134 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  213 (270)
T 2o6q_A          134 KLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQ  213 (270)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEec
Confidence            99999999998655444558899999999999988877767779999999999999999998876 47889999999999


Q ss_pred             cCcCCCcC
Q 012324          413 YSERFQSL  420 (466)
Q Consensus       413 ~~~~~~~~  420 (466)
                      +|++...-
T Consensus       214 ~N~~~c~c  221 (270)
T 2o6q_A          214 ENPWDCTC  221 (270)
T ss_dssp             SSCBCCSS
T ss_pred             CCCeeCCC
Confidence            99875543

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

Probab=99.70  E-value=5.3e-16  Score=143.27  Aligned_cols=181  Identities=20%  Similarity=0.163  Sum_probs=146.6

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChh-hhccCCCCe
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSS-IDRLRRLGY  337 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~-l~~l~~L~~  337 (466)
                      ....+++|+.|++.+|.+. .++ .+..+++|++|++++|.+.+...-....++++|++++|.++.++.. ++.+++|++
T Consensus        36 ~~~~l~~L~~L~l~~~~i~-~~~-~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  113 (272)
T 3rfs_A           36 TQNELNSIDQIIANNSDIK-SVQ-GIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKE  113 (272)
T ss_dssp             CHHHHTTCCEEECTTSCCC-CCT-TGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCE
T ss_pred             ccccccceeeeeeCCCCcc-ccc-ccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCccCccChhHhcCCcCCCE
Confidence            4567899999999998544 444 4889999999999999877632233446889999999999988765 689999999


Q ss_pred             eeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcC
Q 012324          338 LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       338 L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~  416 (466)
                      |++++|.+.+..+..++.+++|++|++++|.+.+..|..++.+++|+.|++++|+++.+|. .++.+++|++|++++|.+
T Consensus       114 L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l  193 (272)
T 3rfs_A          114 LVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQL  193 (272)
T ss_dssp             EECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCCcCccCHHHhcCCccCCEEECCCCcC
Confidence            9999998776666668999999999999998887767778999999999999999997766 468899999999999997


Q ss_pred             CCcCCCCeEeccCCCCccccccCccccC
Q 012324          417 FQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       417 ~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      .+..|..+   .++++|+.+....+.+.
T Consensus       194 ~~~~~~~~---~~l~~L~~L~l~~N~~~  218 (272)
T 3rfs_A          194 KSVPDGVF---DRLTSLQYIWLHDNPWD  218 (272)
T ss_dssp             SCCCTTTT---TTCTTCCEEECCSSCBC
T ss_pred             CccCHHHH---hCCcCCCEEEccCCCcc
Confidence            76554333   45667777666666554

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

Probab=99.70  E-value=4.3e-17  Score=172.40  Aligned_cols=165  Identities=21%  Similarity=0.245  Sum_probs=148.5

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCc-----------------ccCcccc--cCcccCEEecCCCCCCCccCCCCC--CcccEE
Q 012324          257 PMLMPRLNNLVILNLRSGKSLK-----------------SLPSGIF--NLEFLTKLDLSGCSKLKRLPEISS--GNVCWL  315 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~-----------------~~~~~l~--~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L  315 (466)
                      |..++++++|++|+|++|.+.+                 .+|..++  ++++|++|++++|.+.+.+|..+.  .+|+.|
T Consensus       441 P~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L  520 (876)
T 4ecn_A          441 SKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSL  520 (876)
T ss_dssp             CGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEE
T ss_pred             hHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEE
Confidence            4568999999999999998888                 4999988  999999999999999999997554  588999


Q ss_pred             eecCcc-Cc--ccChhhhccC-------CCCeeecccccccccccc--ccCCCCCCCEEEecCCCCCCCCCcccCCCCCC
Q 012324          316 FLRGTA-IE--ELPSSIDRLR-------RLGYLNLSDCKRLKSLPS--SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSP  383 (466)
Q Consensus       316 ~l~~~~-i~--~lp~~l~~l~-------~L~~L~l~~~~~~~~~p~--~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L  383 (466)
                      ++++|+ ++  .+|..++.++       +|++|++++|.+. .+|.  .++++++|+.|++++|.+. .+| .++.+++|
T Consensus       521 ~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~-~ip~~~~l~~L~~L~~L~Ls~N~l~-~lp-~~~~L~~L  597 (876)
T 4ecn_A          521 NIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLE-EFPASASLQKMVKLGLLDCVHNKVR-HLE-AFGTNVKL  597 (876)
T ss_dssp             ECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCC-BCCCHHHHTTCTTCCEEECTTSCCC-BCC-CCCTTSEE
T ss_pred             ECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCC-ccCChhhhhcCCCCCEEECCCCCcc-cch-hhcCCCcc
Confidence            999998 87  4898888776       9999999999876 8998  8999999999999998877 888 89999999


Q ss_pred             cEEEccCCCccccchhhhccCC-CcEeecccCcCCCcCCCCeE
Q 012324          384 IILNLAKTNIERIPESIIQLFV-LRYLLLSYSERFQSLPKPLF  425 (466)
Q Consensus       384 ~~L~l~~~~l~~lp~~l~~l~~-L~~L~l~~~~~~~~~p~~~~  425 (466)
                      +.|++++|.+..+|..+.++++ |+.|++++|.+. .+|..+.
T Consensus       598 ~~L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~-~lp~~~~  639 (876)
T 4ecn_A          598 TDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLK-YIPNIFN  639 (876)
T ss_dssp             SEEECCSSCCSCCCTTSCEECTTCCEEECCSSCCC-SCCSCCC
T ss_pred             eEEECcCCccccchHHHhhccccCCEEECcCCCCC-cCchhhh
Confidence            9999999999999999999999 999999999866 7886543

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

Probab=99.70  E-value=2.4e-16  Score=156.14  Aligned_cols=159  Identities=26%  Similarity=0.290  Sum_probs=96.0

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccCC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLRR  334 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~  334 (466)
                      ..|.++++|++|++++|.+....+..+.++++|++|++++|.+....+..+.  .+|++|++++|.+..+|. .+..+++
T Consensus        82 ~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~  161 (440)
T 3zyj_A           82 NSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPS  161 (440)
T ss_dssp             TTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTT
T ss_pred             HHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcc
Confidence            4567777888888877766655556677777788888877765544333222  466777777777776655 4566677


Q ss_pred             CCeeecccccccccccc-ccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeecc
Q 012324          335 LGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLS  412 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~-~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~  412 (466)
                      |++|++++|...+.++. .+..+++|++|++++|.+. .+| .+..+++|+.|++++|.++.+ |..+.++++|+.|+++
T Consensus       162 L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~-~~~-~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  239 (440)
T 3zyj_A          162 LRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR-EIP-NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMI  239 (440)
T ss_dssp             CCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCS-SCC-CCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECT
T ss_pred             cCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCc-ccc-ccCCCcccCEEECCCCccCccChhhhccCccCCEEECC
Confidence            77777766555555543 3555666666666665433 333 345555555555555555533 3345555555555555


Q ss_pred             cCcCCC
Q 012324          413 YSERFQ  418 (466)
Q Consensus       413 ~~~~~~  418 (466)
                      +|.+.+
T Consensus       240 ~n~l~~  245 (440)
T 3zyj_A          240 QSQIQV  245 (440)
T ss_dssp             TCCCCE
T ss_pred             CCceeE
Confidence            554433

>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=99.70  E-value=4.5e-16  Score=154.69  Aligned_cols=184  Identities=23%  Similarity=0.153  Sum_probs=97.3

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccCh-hhhccCC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPS-SIDRLRR  334 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~-~l~~l~~  334 (466)
                      ..|.++++|++|++++|.+.+..+..+.++++|++|++++|.+....+..+  ..+|++|++++|.+..+|. .+..+++
T Consensus        93 ~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  172 (452)
T 3zyi_A           93 DTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPS  172 (452)
T ss_dssp             TTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTT
T ss_pred             HHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCc
Confidence            346666777777777776555555666667777777777766554333322  2456677777766665554 3555566


Q ss_pred             CCeeecccccccccccc-ccCCCCCCCEEEecC----------------------CCCCCCCCcccCCCCCCcEEEccCC
Q 012324          335 LGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCG----------------------CSNLQRLPECLGQLSSPIILNLAKT  391 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~-~~~~l~~L~~L~l~~----------------------~~~~~~~p~~l~~l~~L~~L~l~~~  391 (466)
                      |++|++++|...+.++. .+..+++|++|++++                      |.+.+..|..|..+++|+.|++++|
T Consensus       173 L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n  252 (452)
T 3zyi_A          173 LMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS  252 (452)
T ss_dssp             CCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTS
T ss_pred             ccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccccccccccccEEECcCCcCcccCcccccCccCCCEEEeCCC
Confidence            66666655444444443 244455555555554                      4444444444555555555555555


Q ss_pred             Ccccc-chhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          392 NIERI-PESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       392 ~l~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      .++.+ |..+.++++|+.|++++|.+. .+|...  +..+++|+.+....+.+.
T Consensus       253 ~l~~~~~~~~~~l~~L~~L~L~~N~l~-~~~~~~--~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          253 QVSLIERNAFDGLASLVELNLAHNNLS-SLPHDL--FTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCS-CCCTTS--STTCTTCCEEECCSSCEE
T ss_pred             cCceECHHHhcCCCCCCEEECCCCcCC-ccChHH--hccccCCCEEEccCCCcC
Confidence            55432 234445555555555555433 233222  123445555444444443

>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=99.69  E-value=5e-17  Score=156.17  Aligned_cols=161  Identities=18%  Similarity=0.099  Sum_probs=123.1

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC--CCCCcccEEeecCccCcccCh--hhhccC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE--ISSGNVCWLFLRGTAIEELPS--SIDRLR  333 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~--~~~~~l~~L~l~~~~i~~lp~--~l~~l~  333 (466)
                      ..+.++++|++|++++|.+.+..|..+.++++|++|++++|.+.+..+.  ....++++|++++|.++.+|.  .+..++
T Consensus        70 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~  149 (353)
T 2z80_A           70 SDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLT  149 (353)
T ss_dssp             TTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCT
T ss_pred             HHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCC
Confidence            3578888999999988877776677788889999999998876654433  234578899999988888876  678888


Q ss_pred             CCCeeecccccccccc-ccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhh-hccCCCcEeec
Q 012324          334 RLGYLNLSDCKRLKSL-PSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESI-IQLFVLRYLLL  411 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~-p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l-~~l~~L~~L~l  411 (466)
                      +|++|++++|...+.+ +..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+..+|..+ ..+++|++|++
T Consensus       150 ~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L  229 (353)
T 2z80_A          150 KLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLEL  229 (353)
T ss_dssp             TCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEE
T ss_pred             CCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCccccchhhhhhhcccccEEEC
Confidence            9999999888544444 566888888999999888888777888888888888888888777666543 34667777777


Q ss_pred             ccCcCCC
Q 012324          412 SYSERFQ  418 (466)
Q Consensus       412 ~~~~~~~  418 (466)
                      ++|.+.+
T Consensus       230 ~~n~l~~  236 (353)
T 2z80_A          230 RDTDLDT  236 (353)
T ss_dssp             ESCBCTT
T ss_pred             CCCcccc
Confidence            7666544

>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=99.69  E-value=8.1e-17  Score=141.20  Aligned_cols=154  Identities=16%  Similarity=0.147  Sum_probs=124.6

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcc-cChhhhccCCCCee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEE-LPSSIDRLRRLGYL  338 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~-lp~~l~~l~~L~~L  338 (466)
                      ...+++|+.|++++|.+. .+| .+..+++|++|++++|.+....+-....++++|++++|.++. .|..++.+++|++|
T Consensus        40 ~~~l~~L~~L~l~~n~i~-~l~-~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           40 EAQMNSLTYITLANINVT-DLT-GIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             HHHHHTCCEEEEESSCCS-CCT-TGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEE
T ss_pred             hhhcCCccEEeccCCCcc-ChH-HHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEE
Confidence            366789999999998655 666 588999999999999954332223344678999999998884 67788899999999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      ++++|.+....|..++.+++|++|++++|...+.+| .+..+++|+.|++++|.++.++ .+..+++|++|++++|++.
T Consensus       118 ~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~i~~~~-~l~~l~~L~~L~l~~N~i~  194 (197)
T 4ezg_A          118 DISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAFSQTIG  194 (197)
T ss_dssp             ECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBCCCCCT-TGGGCSSCCEEEECBC---
T ss_pred             EecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCCCcChH-HhccCCCCCEEEeeCcccC
Confidence            999988777778888899999999999987566666 6888999999999999998876 7888999999999988753

>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=99.69  E-value=3.3e-16  Score=147.32  Aligned_cols=172  Identities=22%  Similarity=0.180  Sum_probs=116.3

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      .+..+++|++|++++|.+.+ ++. +..+++|++|++++|.+.+...-....+++.|++++|.++.++. +..+++|++|
T Consensus        58 ~~~~l~~L~~L~L~~n~i~~-~~~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L  134 (308)
T 1h6u_A           58 GVQYLNNLIGLELKDNQITD-LAP-LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVTP-LAGLSNLQVL  134 (308)
T ss_dssp             TGGGCTTCCEEECCSSCCCC-CGG-GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEECTTSCCCCCGG-GTTCTTCCEE
T ss_pred             hhhccCCCCEEEccCCcCCC-Chh-HccCCCCCEEEccCCcCCCchhhcCCCCCCEEECCCCCCCCchh-hcCCCCCCEE
Confidence            46677888888888875444 343 77788888888888775543222333567888888888877664 7778888888


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ++++|.+. .++. ++.+++|++|++++|.+.+ ++. +..+++|+.|++++|.++.++. +..+++|++|++++|.+.+
T Consensus       135 ~l~~n~l~-~~~~-l~~l~~L~~L~l~~n~l~~-~~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L~~N~l~~  209 (308)
T 1h6u_A          135 YLDLNQIT-NISP-LAGLTNLQYLSIGNAQVSD-LTP-LANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISD  209 (308)
T ss_dssp             ECCSSCCC-CCGG-GGGCTTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECTTSCCCB
T ss_pred             ECCCCccC-cCcc-ccCCCCccEEEccCCcCCC-Chh-hcCCCCCCEEECCCCccCcChh-hcCCCCCCEEEccCCccCc
Confidence            88877643 3333 6777888888888776554 333 7777888888888888777665 6777888888888777544


Q ss_pred             cCCCCeEeccCCCCccccccCcccc
Q 012324          419 SLPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       419 ~~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                       +|.    +..+++|+.+....+.+
T Consensus       210 -~~~----l~~l~~L~~L~l~~N~i  229 (308)
T 1h6u_A          210 -VSP----LANTSNLFIVTLTNQTI  229 (308)
T ss_dssp             -CGG----GTTCTTCCEEEEEEEEE
T ss_pred             -ccc----ccCCCCCCEEEccCCee
Confidence             331    45666666555544433

>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=1.7e-16  Score=147.03  Aligned_cols=183  Identities=19%  Similarity=0.129  Sum_probs=104.2

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccCCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLRRL  335 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~L  335 (466)
                      .+.++++|++|++++|.+.+..+..+.++++|++|++++|.+.+..+..+.  .++++|++++|.+..++. .++.+++|
T Consensus        47 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L  126 (276)
T 2z62_A           47 SFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTL  126 (276)
T ss_dssp             TTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTC
T ss_pred             HhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCccccCchhcccCCCC
Confidence            455666666666666654444444566666666666666665544443322  355666666666665544 45666666


Q ss_pred             Ceeecccccccc-ccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCc----EEEccCCCccccchhhhccCCCcEee
Q 012324          336 GYLNLSDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPI----ILNLAKTNIERIPESIIQLFVLRYLL  410 (466)
Q Consensus       336 ~~L~l~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~----~L~l~~~~l~~lp~~l~~l~~L~~L~  410 (466)
                      ++|++++|.+.. .+|..+..+++|++|++++|.+.+..+..+..+++|+    .|++++|.++.++.......+|++|+
T Consensus       127 ~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~  206 (276)
T 2z62_A          127 KELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELA  206 (276)
T ss_dssp             CEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEE
T ss_pred             CEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEE
Confidence            666666665443 2455566666666666666655554444444444444    56666666665555444445677777


Q ss_pred             cccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          411 LSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       411 l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +++|.+. .+|...  +.++++|+.+....+.+.
T Consensus       207 L~~n~l~-~~~~~~--~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          207 LDTNQLK-SVPDGI--FDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             CCSSCCS-CCCTTT--TTTCCSCCEEECCSSCBC
T ss_pred             CCCCcee-ecCHhH--hcccccccEEEccCCccc
Confidence            7776643 344432  235666666666655554

>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=99.69  E-value=2.5e-16  Score=148.09  Aligned_cols=180  Identities=22%  Similarity=0.214  Sum_probs=125.4

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccC-CC--CCCcccEEeecCccCccc-ChhhhccCCCCe
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-EI--SSGNVCWLFLRGTAIEEL-PSSIDRLRRLGY  337 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~--~~~~l~~L~l~~~~i~~l-p~~l~~l~~L~~  337 (466)
                      .+++|++|++++|.+. .+|..+..+++|++|++++|.+.+..+ ..  ...++++|++++|.+... |..+..+++|++
T Consensus        76 ~~~~L~~L~Ls~n~i~-~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  154 (306)
T 2z66_A           76 GTTSLKYLDLSFNGVI-TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEV  154 (306)
T ss_dssp             SCSCCCEEECCSCSEE-EEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCE
T ss_pred             cccccCEEECCCCccc-cChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCE
Confidence            3456666666655332 455556677777777777776554433 12  224678888888887744 445777888888


Q ss_pred             eecccccccc-ccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCc
Q 012324          338 LNLSDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       338 L~l~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~  415 (466)
                      |++++|.+.+ ..|..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.++.++. .+..+++|++|++++|.
T Consensus       155 L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~  234 (306)
T 2z66_A          155 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNH  234 (306)
T ss_dssp             EECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCTTCCEEECTTSC
T ss_pred             EECCCCccccccchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccChhhccCcccCCEeECCCCC
Confidence            8888887655 467778888888888888887777777788888888888888888886654 67778888888888888


Q ss_pred             CCCcCCCCeEeccCCCCccccccCccccC
Q 012324          416 RFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       416 ~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +.+..|..+..+.  ++|+.+....+.+.
T Consensus       235 l~~~~~~~~~~~~--~~L~~L~L~~N~~~  261 (306)
T 2z66_A          235 IMTSKKQELQHFP--SSLAFLNLTQNDFA  261 (306)
T ss_dssp             CCBCSSSSCCCCC--TTCCEEECTTCCEE
T ss_pred             CcccCHHHHHhhh--ccCCEEEccCCCee
Confidence            7777766654331  35666655555553

>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=99.69  E-value=6.9e-17  Score=151.99  Aligned_cols=184  Identities=21%  Similarity=0.236  Sum_probs=140.5

Q ss_pred             CCCCCCCCCcEEEcCCCCCCc--ccCcccccCcccCEEecCCCCCCCccCCC--CCCcccEEeecCccCcccCh--hhhc
Q 012324          258 MLMPRLNNLVILNLRSGKSLK--SLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNVCWLFLRGTAIEELPS--SIDR  331 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~l~~L~l~~~~i~~lp~--~l~~  331 (466)
                      ..+.++++|++|++++|.+..  ..+..+..+++|++|++++|.+.. +|..  ...++++|++++|.+..++.  .+..
T Consensus        46 ~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~-l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~  124 (306)
T 2z66_A           46 GVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVIT-MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLS  124 (306)
T ss_dssp             TTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEE-EEEEEETCTTCCEEECTTSEEESSTTTTTTTT
T ss_pred             hHhhccccCCEEECCCCccCcccCcccccccccccCEEECCCCcccc-ChhhcCCCCCCCEEECCCCcccccccchhhhh
Confidence            346788889999998886552  235556678889999998887553 3432  23578999999998887764  6888


Q ss_pred             cCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCC-CCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEe
Q 012324          332 LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYL  409 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L  409 (466)
                      +++|++|++++|.+.+..+..+..+++|++|++++|.+.+ .+|..+..+++|+.|++++|.++.+ |..+.++++|++|
T Consensus       125 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L  204 (306)
T 2z66_A          125 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL  204 (306)
T ss_dssp             CTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEE
T ss_pred             ccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEE
Confidence            9999999999988777777778889999999999987766 5788889999999999999999866 6678889999999


Q ss_pred             ecccCcCCCcCCCCeEeccCCCCccccccCccccCC
Q 012324          410 LLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       410 ~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      ++++|.+.+..+..   +.++++|+.+....+.+..
T Consensus       205 ~L~~N~l~~~~~~~---~~~l~~L~~L~L~~N~l~~  237 (306)
T 2z66_A          205 NMSHNNFFSLDTFP---YKCLNSLQVLDYSLNHIMT  237 (306)
T ss_dssp             ECTTSCCSBCCSGG---GTTCTTCCEEECTTSCCCB
T ss_pred             ECCCCccCccChhh---ccCcccCCEeECCCCCCcc
Confidence            99998865543333   3456667766665554433

>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=99.68  E-value=5.2e-16  Score=159.67  Aligned_cols=107  Identities=15%  Similarity=0.075  Sum_probs=64.4

Q ss_pred             hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCc
Q 012324          328 SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLR  407 (466)
Q Consensus       328 ~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~  407 (466)
                      .++.+++|++|++++|.+.+..|..++.+++|+.|++++|.+.+ +|..+..+++|+.|++++|.++.+|..+..+++|+
T Consensus       249 ~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-l~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~l~~L~  327 (597)
T 3oja_B          249 WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVA-LNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLE  327 (597)
T ss_dssp             GGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCE-EECSSSCCTTCCEEECCSSCCCCCGGGHHHHTTCS
T ss_pred             hhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCC-CCcccccCCCCcEEECCCCCCCccCcccccCCCCC
Confidence            45566666666666666655556666666666666666655443 45555666666666666666666666666666677


Q ss_pred             EeecccCcCCCcCCCCeEeccCCCCccccccCcc
Q 012324          408 YLLLSYSERFQSLPKPLFLARGCLALEPFLGIIE  441 (466)
Q Consensus       408 ~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~  441 (466)
                      +|++++|.+.+ +|     +..++.|+.+....+
T Consensus       328 ~L~L~~N~l~~-~~-----~~~~~~L~~L~l~~N  355 (597)
T 3oja_B          328 NLYLDHNSIVT-LK-----LSTHHTLKNLTLSHN  355 (597)
T ss_dssp             EEECCSSCCCC-CC-----CCTTCCCSEEECCSS
T ss_pred             EEECCCCCCCC-cC-----hhhcCCCCEEEeeCC
Confidence            77776666433 22     334445554444333

>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=99.67  E-value=2.2e-16  Score=157.05  Aligned_cols=110  Identities=20%  Similarity=0.166  Sum_probs=70.1

Q ss_pred             CCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeeccc
Q 012324          335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSY  413 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~  413 (466)
                      |++|++++|.+.+..|..++.+++|++|++++|.+.+..|..+..+++|+.|++++|.++.+ |..+.++++|+.|++++
T Consensus       277 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~  356 (455)
T 3v47_A          277 VKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSY  356 (455)
T ss_dssp             CCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCS
T ss_pred             ceEEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCC
Confidence            33333333333333455566677777777777777666677777777788888877777755 45677778888888887


Q ss_pred             CcCCCcCCCCeEeccCCCCccccccCccccCCCC
Q 012324          414 SERFQSLPKPLFLARGCLALEPFLGIIEDTQRIP  447 (466)
Q Consensus       414 ~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~~~  447 (466)
                      |.+.+..|..+.   ++++|+.+....+.+..++
T Consensus       357 N~l~~~~~~~~~---~l~~L~~L~L~~N~l~~~~  387 (455)
T 3v47_A          357 NHIRALGDQSFL---GLPNLKELALDTNQLKSVP  387 (455)
T ss_dssp             SCCCEECTTTTT---TCTTCCEEECCSSCCSCCC
T ss_pred             CcccccChhhcc---ccccccEEECCCCccccCC
Confidence            776655555443   4566666665555554444

>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=99.67  E-value=4.9e-16  Score=154.43  Aligned_cols=158  Identities=22%  Similarity=0.160  Sum_probs=127.3

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChh-hhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSS-IDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l  340 (466)
                      +++++|++++|.+.+..|..+.++++|++|++++|.+.+..+..+.  .+|++|++++|.++.+|.. +..+++|++|++
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  154 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWL  154 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEEC
T ss_pred             CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEEC
Confidence            6899999999988888888899999999999999988776665544  5889999999999988875 788999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCc-ccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~-~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      ++|.+....+..+.++++|++|++++|+..+.+|. .+..+++|+.|++++|+++.+| .+..+++|+.|++++|.+.+.
T Consensus       155 ~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~Ls~N~l~~~  233 (452)
T 3zyi_A          155 RNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMP-NLTPLVGLEELEMSGNHFPEI  233 (452)
T ss_dssp             CSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCC-CCTTCTTCCEEECTTSCCSEE
T ss_pred             CCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccc-cccccccccEEECcCCcCccc
Confidence            99986655556789999999999999877777665 4777778888877777777665 356666666666666665444


Q ss_pred             CCC
Q 012324          420 LPK  422 (466)
Q Consensus       420 ~p~  422 (466)
                      .|.
T Consensus       234 ~~~  236 (452)
T 3zyi_A          234 RPG  236 (452)
T ss_dssp             CGG
T ss_pred             Ccc
Confidence            443

>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=99.67  E-value=2.7e-16  Score=161.82  Aligned_cols=88  Identities=11%  Similarity=-0.045  Sum_probs=63.4

Q ss_pred             ccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCC
Q 012324          352 SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCL  431 (466)
Q Consensus       352 ~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~  431 (466)
                      .++.+++|+.|++++|.+.+..|..++.+++|+.|++++|.++.+|..+..+++|+.|++++|.+. .+|..+.   .++
T Consensus       249 ~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~Ls~N~l~-~i~~~~~---~l~  324 (597)
T 3oja_B          249 WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLL-HVERNQP---QFD  324 (597)
T ss_dssp             GGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECTTSCCCEEECSSSCCTTCCEEECCSSCCC-CCGGGHH---HHT
T ss_pred             hhccCCCCCEEECCCCccCCCCHHHhcCccCCCEEECCCCCCCCCCcccccCCCCcEEECCCCCCC-ccCcccc---cCC
Confidence            356677888888888877777788888888888888888888888777777888888888888755 5666543   344


Q ss_pred             CccccccCcccc
Q 012324          432 ALEPFLGIIEDT  443 (466)
Q Consensus       432 ~L~~l~~~~~~~  443 (466)
                      +|+.+....+.+
T Consensus       325 ~L~~L~L~~N~l  336 (597)
T 3oja_B          325 RLENLYLDHNSI  336 (597)
T ss_dssp             TCSEEECCSSCC
T ss_pred             CCCEEECCCCCC
Confidence            444444433333

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

Probab=99.67  E-value=1.5e-16  Score=150.10  Aligned_cols=193  Identities=19%  Similarity=0.096  Sum_probs=149.3

Q ss_pred             hhhhhcccCCCCCCCCCCCCCCcEEEcCCCCCCcccCcccccC-----cccCEEecCCCCCCCccCCCCC--CcccEEee
Q 012324          245 TACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNL-----EFLTKLDLSGCSKLKRLPEISS--GNVCWLFL  317 (466)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l-----~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l  317 (466)
                      +..+...+..+....+..+++|++|++++|.+.+. |..+..+     ++|++|++++|.+.+..|..+.  .++++|++
T Consensus       102 L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~-~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L  180 (312)
T 1wwl_A          102 LENLEVTGTAPPPLLEATGPDLNILNLRNVSWATR-DAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDL  180 (312)
T ss_dssp             EEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSS-SSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEEC
T ss_pred             ccCCcccchhHHHHHHhcCCCccEEEccCCCCcch-hHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEEC
Confidence            34444433333322238999999999999987776 8777777     9999999999998777666544  58899999


Q ss_pred             cCccCcc---cChhh--hccCCCCeeecccccccc--ccc-cccCCCCCCCEEEecCCCCCCCCC-cccCCCCCCcEEEc
Q 012324          318 RGTAIEE---LPSSI--DRLRRLGYLNLSDCKRLK--SLP-SSLCKLKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNL  388 (466)
Q Consensus       318 ~~~~i~~---lp~~l--~~l~~L~~L~l~~~~~~~--~~p-~~~~~l~~L~~L~l~~~~~~~~~p-~~l~~l~~L~~L~l  388 (466)
                      ++|++..   +|..+  ..+++|++|++++|.+.+  .++ ..+..+++|++|++++|.+.+..| ..+..+++|+.|++
T Consensus       181 s~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L  260 (312)
T 1wwl_A          181 SDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNL  260 (312)
T ss_dssp             CSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCCCCTTCCEEEC
T ss_pred             CCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhhhcCCCCEEEC
Confidence            9998763   35555  889999999999998652  333 234578999999999998888775 45677899999999


Q ss_pred             cCCCccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCC
Q 012324          389 AKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       389 ~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      ++|.++.+|..+.  ++|++|++++|.+.+. |.    +..+++|+.+....+.+..
T Consensus       261 s~N~l~~ip~~~~--~~L~~L~Ls~N~l~~~-p~----~~~l~~L~~L~L~~N~l~~  310 (312)
T 1wwl_A          261 SFTGLKQVPKGLP--AKLSVLDLSYNRLDRN-PS----PDELPQVGNLSLKGNPFLD  310 (312)
T ss_dssp             TTSCCSSCCSSCC--SEEEEEECCSSCCCSC-CC----TTTSCEEEEEECTTCTTTC
T ss_pred             CCCccChhhhhcc--CCceEEECCCCCCCCC-hh----HhhCCCCCEEeccCCCCCC
Confidence            9999999998776  8999999999986554 64    4577888887776665543

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

Probab=99.67  E-value=1.3e-15  Score=148.46  Aligned_cols=63  Identities=13%  Similarity=0.007  Sum_probs=30.5

Q ss_pred             cCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCc
Q 012324          353 LCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       353 ~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~  415 (466)
                      +..+++|++|++++|.+.+..|..+..+++|+.|++++|.++.+|..+..+++|+.|++++|.
T Consensus       244 l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~~n~  306 (390)
T 3o6n_A          244 LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNH  306 (390)
T ss_dssp             GGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCEEECSSSCCTTCCEEECCSSC
T ss_pred             HcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcccCcccCCCCCCCEEECCCCc
Confidence            334444555555554444444444444555555555555544444444444455555555444

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

Probab=99.67  E-value=4.6e-16  Score=154.04  Aligned_cols=160  Identities=24%  Similarity=0.193  Sum_probs=138.6

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l  340 (466)
                      ++++.|++++|.+....+..+.++++|++|++++|.+....+..+.  .+|++|++++|.++.+|. .+..+++|++|++
T Consensus        64 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  143 (440)
T 3zyj_A           64 TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWL  143 (440)
T ss_dssp             TTCSEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEEC
T ss_pred             CCCcEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeC
Confidence            6899999999988777778899999999999999987765554443  688999999999998887 5899999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCc-ccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~-~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      ++|.+....+..+..+++|++|++++|+..+.++. .|..+++|+.|++++|+++.+|. +..+++|+.|++++|.+.+.
T Consensus       144 ~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~Ls~N~l~~~  222 (440)
T 3zyj_A          144 RNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPN-LTPLIKLDELDLSGNHLSAI  222 (440)
T ss_dssp             CSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCC-CTTCSSCCEEECTTSCCCEE
T ss_pred             CCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccccc-cCCCcccCEEECCCCccCcc
Confidence            99986655556789999999999999887777765 68999999999999999999984 88999999999999987766


Q ss_pred             CCCCe
Q 012324          420 LPKPL  424 (466)
Q Consensus       420 ~p~~~  424 (466)
                      .|..+
T Consensus       223 ~~~~~  227 (440)
T 3zyj_A          223 RPGSF  227 (440)
T ss_dssp             CTTTT
T ss_pred             Chhhh
Confidence            66544

>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=99.67  E-value=2e-15  Score=137.71  Aligned_cols=175  Identities=21%  Similarity=0.175  Sum_probs=142.4

Q ss_pred             CCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccCCCCeeecc
Q 012324          265 NLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLRRLGYLNLS  341 (466)
Q Consensus       265 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~  341 (466)
                      ..+.++++++. ...+|..+.  ++++.|++++|.+.+..+..+.  .++++|++++|.++.++. .+..+++|++|+++
T Consensus        15 ~~~~l~~~~~~-l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~   91 (251)
T 3m19_A           15 GKKEVDCQGKS-LDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLA   91 (251)
T ss_dssp             GGTEEECTTCC-CSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             CCeEEecCCCC-ccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECC
Confidence            56789998874 456776654  6899999999998877765444  688999999999997765 47999999999999


Q ss_pred             ccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCCcC
Q 012324          342 DCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQSL  420 (466)
Q Consensus       342 ~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~~  420 (466)
                      +|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.++.+|. .++++++|++|++++|.+.+..
T Consensus        92 ~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~  171 (251)
T 3m19_A           92 NNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVP  171 (251)
T ss_dssp             TSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCC
T ss_pred             CCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEECCCCcCCccC
Confidence            998766656678899999999999988886666678999999999999999998877 6899999999999999876544


Q ss_pred             CCCeEeccCCCCccccccCccccCC
Q 012324          421 PKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       421 p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      |..+   .++++|+.+....+.+..
T Consensus       172 ~~~~---~~l~~L~~L~l~~N~~~c  193 (251)
T 3m19_A          172 HGAF---DRLGKLQTITLFGNQFDC  193 (251)
T ss_dssp             TTTT---TTCTTCCEEECCSCCBCT
T ss_pred             HHHH---hCCCCCCEEEeeCCceeC
Confidence            4333   456777777776666543

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

Probab=99.67  E-value=1e-15  Score=149.03  Aligned_cols=84  Identities=17%  Similarity=0.137  Sum_probs=41.8

Q ss_pred             ccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEee
Q 012324          331 RLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLL  410 (466)
Q Consensus       331 ~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~  410 (466)
                      .+++|++|++++|.+.+..|..+..+++|++|++++|.+. .+|..+..+++|+.|++++|.++.+|..+..+++|++|+
T Consensus       246 ~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~  324 (390)
T 3o6n_A          246 NYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLV-ALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLY  324 (390)
T ss_dssp             GCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCC-EEECSSSCCTTCCEEECCSSCCCCCGGGHHHHTTCSEEE
T ss_pred             CCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCc-ccCcccCCCCCCCEEECCCCcceecCccccccCcCCEEE
Confidence            3344444555544444444444555555555555554333 234444445555555555555555555555555555555


Q ss_pred             cccCc
Q 012324          411 LSYSE  415 (466)
Q Consensus       411 l~~~~  415 (466)
                      +++|.
T Consensus       325 L~~N~  329 (390)
T 3o6n_A          325 LDHNS  329 (390)
T ss_dssp             CCSSC
T ss_pred             CCCCc
Confidence            55554

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

Probab=99.66  E-value=3.7e-16  Score=147.03  Aligned_cols=176  Identities=16%  Similarity=0.154  Sum_probs=144.3

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      ...+++|+.|++++|.+. .+| .+..+++|++|++++|.+.+..+-....++++|++++|.++.++ .+..+++|++|+
T Consensus        37 ~~~l~~L~~L~l~~~~i~-~l~-~~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~  113 (308)
T 1h6u_A           37 QADLDGITTLSAFGTGVT-TIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKTLD  113 (308)
T ss_dssp             HHHHHTCCEEECTTSCCC-CCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEE
T ss_pred             HHHcCCcCEEEeeCCCcc-Cch-hhhccCCCCEEEccCCcCCCChhHccCCCCCEEEccCCcCCCch-hhcCCCCCCEEE
Confidence            456789999999999544 456 58899999999999998776655344468899999999999876 689999999999


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +++|.+.+ ++. +..+++|++|++++|.+.+. +. +..+++|+.|++++|.++.++. +..+++|+.|++++|.+.+ 
T Consensus       114 l~~n~l~~-~~~-l~~l~~L~~L~l~~n~l~~~-~~-l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~-  187 (308)
T 1h6u_A          114 LTSTQITD-VTP-LAGLSNLQVLYLDLNQITNI-SP-LAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNKISD-  187 (308)
T ss_dssp             CTTSCCCC-CGG-GTTCTTCCEEECCSSCCCCC-GG-GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCC-
T ss_pred             CCCCCCCC-chh-hcCCCCCCEEECCCCccCcC-cc-ccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCCCccCc-
Confidence            99988544 554 89999999999999877654 33 8899999999999999998877 8999999999999998654 


Q ss_pred             CCCCeEeccCCCCccccccCccccCCCCC
Q 012324          420 LPKPLFLARGCLALEPFLGIIEDTQRIPH  448 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l~~~~~~~~~~~~  448 (466)
                      +|.    +.++++|+.+....+.+..+..
T Consensus       188 ~~~----l~~l~~L~~L~L~~N~l~~~~~  212 (308)
T 1h6u_A          188 ISP----LASLPNLIEVHLKNNQISDVSP  212 (308)
T ss_dssp             CGG----GGGCTTCCEEECTTSCCCBCGG
T ss_pred             Chh----hcCCCCCCEEEccCCccCcccc
Confidence            443    5677888887776666655553

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

Probab=99.66  E-value=7.9e-16  Score=154.08  Aligned_cols=167  Identities=22%  Similarity=0.182  Sum_probs=129.8

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCccc-ChhhhccC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEEL-PSSIDRLR  333 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~l-p~~l~~l~  333 (466)
                      +..|.++++|++|++++|.+.+..|..+.++++|++|++++|.+....+..+  ..+|++|++++|.+..+ |..+..++
T Consensus        49 ~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~  128 (477)
T 2id5_A           49 QDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLY  128 (477)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCT
T ss_pred             HhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccc
Confidence            4467888889999998887777778888888899999998887654444332  35778899988888865 45678888


Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecc
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLS  412 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~  412 (466)
                      +|++|++++|.+....+..+..+++|++|++++|.+....+..+.++++|+.|++++|.+..++. .+..+++|++|+++
T Consensus       129 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~  208 (477)
T 2id5_A          129 NLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEIS  208 (477)
T ss_dssp             TCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEE
T ss_pred             cCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCC
Confidence            89999988888777777778888888888888887776655678888888888888888885544 67778888888888


Q ss_pred             cCcCCCcCCCC
Q 012324          413 YSERFQSLPKP  423 (466)
Q Consensus       413 ~~~~~~~~p~~  423 (466)
                      +|...+.+|..
T Consensus       209 ~~~~~~~~~~~  219 (477)
T 2id5_A          209 HWPYLDTMTPN  219 (477)
T ss_dssp             CCTTCCEECTT
T ss_pred             CCccccccCcc
Confidence            87776666653

>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=99.66  E-value=5.8e-16  Score=159.83  Aligned_cols=160  Identities=22%  Similarity=0.102  Sum_probs=90.9

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC---CCcccEEeecCccCccc---Chhhhc
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNVCWLFLRGTAIEEL---PSSIDR  331 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~~l~~L~l~~~~i~~l---p~~l~~  331 (466)
                      ..+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+.+|...   ..++++|++++|.+...   |..+..
T Consensus       295 ~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~  374 (606)
T 3t6q_A          295 SGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRN  374 (606)
T ss_dssp             SSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSSCCCEEEESTTTTTT
T ss_pred             hhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCCccccccCcchhccc
Confidence            346666777777777776655556566666777777777666655554331   23556666666666643   445566


Q ss_pred             cCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCc-ccCCCCCCcEEEccCCCccc-cchhhhccCCCcEe
Q 012324          332 LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIILNLAKTNIER-IPESIIQLFVLRYL  409 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~-~l~~l~~L~~L~l~~~~l~~-lp~~l~~l~~L~~L  409 (466)
                      +++|++|++++|.+.+..|..+..+++|++|++++|.+.+..|. .+..+++|+.|++++|.+.. .|..+.++++|++|
T Consensus       375 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L  454 (606)
T 3t6q_A          375 LSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHL  454 (606)
T ss_dssp             CTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEE
T ss_pred             CCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEE
Confidence            66666666666655555555555555666666655554444332 24555555555555555542 23344455555555


Q ss_pred             ecccCcCC
Q 012324          410 LLSYSERF  417 (466)
Q Consensus       410 ~l~~~~~~  417 (466)
                      ++++|.+.
T Consensus       455 ~L~~n~l~  462 (606)
T 3t6q_A          455 NLQGNHFP  462 (606)
T ss_dssp             ECTTCBCG
T ss_pred             ECCCCCCC
Confidence            55555443

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

Probab=99.66  E-value=2.7e-16  Score=157.38  Aligned_cols=179  Identities=17%  Similarity=0.077  Sum_probs=131.6

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCc------------------cCCCCCCcccEEeec
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKR------------------LPEISSGNVCWLFLR  318 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~------------------~~~~~~~~l~~L~l~  318 (466)
                      +..|..+++|++|++++|.+.+..|  +..+++|++|++++|.+.+.                  ++.....+++.|+++
T Consensus        51 ~~~~~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~~~~L~~L~L~~N~l~~~~~~~l~~L~~L~L~  128 (487)
T 3oja_A           51 AADLAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLA  128 (487)
T ss_dssp             GGGGTTCTTCCEEECTTSCCEEEEE--CTTCTTCCEEECCSSEEEEEEECTTCCEEECCSSCCCCEEECCCSSCEEEECC
T ss_pred             HHHHhCCCCCCEEEeeCCCCCCCcc--cccCCCCCEEEecCCcCCCCCCCCCcCEEECcCCcCCCCCccccCCCCEEECC
Confidence            3456677777777777776555444  66677777777766654321                  111233567889999


Q ss_pred             CccCccc-ChhhhccCCCCeeeccccccccccccccC-CCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcccc
Q 012324          319 GTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPSSLC-KLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERI  396 (466)
Q Consensus       319 ~~~i~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~-~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~l  396 (466)
                      +|.++.+ |..++.+++|++|++++|.+.+..|..+. .+++|++|++++|.+.+. | ....+++|+.|++++|.++.+
T Consensus       129 ~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~-~-~~~~l~~L~~L~Ls~N~l~~~  206 (487)
T 3oja_A          129 NNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDV-K-GQVVFAKLKTLDLSSNKLAFM  206 (487)
T ss_dssp             SSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE-E-CCCCCTTCCEEECCSSCCCEE
T ss_pred             CCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccc-c-ccccCCCCCEEECCCCCCCCC
Confidence            9888866 44688899999999999988887777775 789999999999877655 3 344689999999999999999


Q ss_pred             chhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCcccc
Q 012324          397 PESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       397 p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                      |..+..+++|+.|++++|.+. .+|..+.   .+++|+.+....+.+
T Consensus       207 ~~~~~~l~~L~~L~Ls~N~l~-~lp~~l~---~l~~L~~L~l~~N~l  249 (487)
T 3oja_A          207 GPEFQSAAGVTWISLRNNKLV-LIEKALR---FSQNLEHFDLRGNGF  249 (487)
T ss_dssp             CGGGGGGTTCSEEECTTSCCC-EECTTCC---CCTTCCEEECTTCCB
T ss_pred             CHhHcCCCCccEEEecCCcCc-ccchhhc---cCCCCCEEEcCCCCC
Confidence            888999999999999998866 4776643   455666655555544

>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=99.66  E-value=7.6e-16  Score=142.56  Aligned_cols=159  Identities=22%  Similarity=0.189  Sum_probs=133.2

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccC-hhhhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELP-SSIDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp-~~l~~l~~L~~L~l  340 (466)
                      ++|++|++++|.+.+..+..+.++++|++|++++|.+.+..+..+.  .++++|++++|.++.++ ..+.++++|++|++
T Consensus        28 ~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l  107 (276)
T 2z62_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  107 (276)
T ss_dssp             TTCCEEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEEC
T ss_pred             CCccEEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEEC
Confidence            5799999999977766666899999999999999987765554433  58899999999999776 56899999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCC-CCCcccCCCCCCcEEEccCCCccccc-hhhhccCCCc----EeecccC
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERIP-ESIIQLFVLR----YLLLSYS  414 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~lp-~~l~~l~~L~----~L~l~~~  414 (466)
                      ++|.+.+..+..++.+++|++|++++|.+.. .+|..+..+++|+.|++++|.++.++ ..+..+++|+    +|++++|
T Consensus       108 ~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n  187 (276)
T 2z62_A          108 VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLN  187 (276)
T ss_dssp             TTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSS
T ss_pred             CCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCC
Confidence            9998766666579999999999999988876 46999999999999999999999765 4677777777    8999999


Q ss_pred             cCCCcCCCC
Q 012324          415 ERFQSLPKP  423 (466)
Q Consensus       415 ~~~~~~p~~  423 (466)
                      .+.+ +|..
T Consensus       188 ~l~~-~~~~  195 (276)
T 2z62_A          188 PMNF-IQPG  195 (276)
T ss_dssp             CCCE-ECTT
T ss_pred             cccc-cCcc
Confidence            8654 4443

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

Probab=99.66  E-value=1.1e-15  Score=153.01  Aligned_cols=159  Identities=21%  Similarity=0.211  Sum_probs=105.3

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLR  333 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~  333 (466)
                      +..|.++++|++|++++|.+.+..|..+.++++|++|++++|.+.+..+..+.  .+|+.|++++|.++.+|. .+..++
T Consensus        97 ~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~  176 (477)
T 2id5_A           97 LGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLH  176 (477)
T ss_dssp             TTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCT
T ss_pred             cccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccC
Confidence            33467778888888888877776777777888888888888776665554433  467888888888887765 467778


Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecc
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLS  412 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~  412 (466)
                      +|+.|++++|.+.+..+..+..+++|+.|++++|+..+.+|..+....+|+.|++++|.++.+|. .+.++++|+.|+++
T Consensus       177 ~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls  256 (477)
T 2id5_A          177 GLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLS  256 (477)
T ss_dssp             TCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECC
T ss_pred             CCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECC
Confidence            88888888777665555567777777777777766665555544444455555555555554442 34445555555555


Q ss_pred             cCc
Q 012324          413 YSE  415 (466)
Q Consensus       413 ~~~  415 (466)
                      +|.
T Consensus       257 ~n~  259 (477)
T 2id5_A          257 YNP  259 (477)
T ss_dssp             SSC
T ss_pred             CCc
Confidence            544

>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=99.66  E-value=5.9e-16  Score=159.80  Aligned_cols=181  Identities=18%  Similarity=0.118  Sum_probs=117.0

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC-CC--CCcccEEeecCccCcc-cChhhhccC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-IS--SGNVCWLFLRGTAIEE-LPSSIDRLR  333 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~--~~~l~~L~l~~~~i~~-lp~~l~~l~  333 (466)
                      ..+..+++|++|++++|.+ ..+|..+..+++|++|++++|.+.+..|. .+  ...+++|++++|.+.. .|..++.++
T Consensus       370 ~~~~~~~~L~~L~L~~n~l-~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~  448 (606)
T 3vq2_A          370 YSDLGTNSLRHLDLSFNGA-IIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLT  448 (606)
T ss_dssp             HHHHCCSCCCEEECCSCSE-EEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCT
T ss_pred             hhhccCCcccEeECCCCcc-ccchhhccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCC
Confidence            3455667777777777743 33556677777777777777776665552 22  2456777777777764 455667777


Q ss_pred             CCCeeeccccccccc-cccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeec
Q 012324          334 RLGYLNLSDCKRLKS-LPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLL  411 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~-~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l  411 (466)
                      +|++|++++|.+.+. .|..++.+++|+.|++++|.+.+..|..+..+++|+.|++++|.++.+ |..+.++++|++|++
T Consensus       449 ~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l  528 (606)
T 3vq2_A          449 SLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDC  528 (606)
T ss_dssp             TCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEEC
T ss_pred             CCCEEECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEEC
Confidence            777777777766553 566677777777777777777666666777777777777777777744 566777777777777


Q ss_pred             ccCcCCCcCCCCeEeccCCC-CccccccCcccc
Q 012324          412 SYSERFQSLPKPLFLARGCL-ALEPFLGIIEDT  443 (466)
Q Consensus       412 ~~~~~~~~~p~~~~~l~~~~-~L~~l~~~~~~~  443 (466)
                      ++|.+. .+|..+   .+++ +|+.+....+.+
T Consensus       529 ~~N~l~-~~p~~~---~~l~~~L~~l~l~~N~~  557 (606)
T 3vq2_A          529 SFNRIE-TSKGIL---QHFPKSLAFFNLTNNSV  557 (606)
T ss_dssp             TTSCCC-CEESCG---GGSCTTCCEEECCSCCC
T ss_pred             CCCcCc-ccCHhH---hhhcccCcEEEccCCCc
Confidence            777643 555552   2333 355544444444

>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=2.5e-15  Score=139.99  Aligned_cols=159  Identities=21%  Similarity=0.168  Sum_probs=134.1

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccCh-hhhccC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPS-SIDRLR  333 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~-~l~~l~  333 (466)
                      +..+..+++|++|++++|.+.+ ++. ...+++|++|++++|.+. .+|..+  ...+++|++++|+++.+|. .+..++
T Consensus        48 ~~~~~~l~~L~~L~L~~n~l~~-~~~-~~~l~~L~~L~Ls~N~l~-~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~  124 (290)
T 1p9a_G           48 LATLMPYTRLTQLNLDRAELTK-LQV-DGTLPVLGTLDLSHNQLQ-SLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLG  124 (290)
T ss_dssp             GGGGTTCTTCCEEECTTSCCCE-EEC-CSCCTTCCEEECCSSCCS-SCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCT
T ss_pred             HHHhhcCCCCCEEECCCCccCc-ccC-CCCCCcCCEEECCCCcCC-cCchhhccCCCCCEEECCCCcCcccCHHHHcCCC
Confidence            3457889999999999996554 444 378999999999999865 566543  3578999999999998874 689999


Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeeccc
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY  413 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~  413 (466)
                      +|++|++++|.+.+..+..+..+++|+.|++++|.+....+..+..+++|+.|++++|.++.+|..+..+++|+.+++++
T Consensus       125 ~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L~~  204 (290)
T 1p9a_G          125 ELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHG  204 (290)
T ss_dssp             TCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCS
T ss_pred             CCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEeCC
Confidence            99999999998665555557899999999999988775555567889999999999999999999999999999999999


Q ss_pred             CcCCC
Q 012324          414 SERFQ  418 (466)
Q Consensus       414 ~~~~~  418 (466)
                      |++..
T Consensus       205 Np~~C  209 (290)
T 1p9a_G          205 NPWLC  209 (290)
T ss_dssp             CCBCC
T ss_pred             CCccC
Confidence            98653

>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=2e-15  Score=140.71  Aligned_cols=152  Identities=23%  Similarity=0.166  Sum_probs=125.6

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      .+..+++|++|++++|.+.+. +. +.++++|++|++++|.+.+..+-....++++|++++|.++.+ +.+..+++|++|
T Consensus        63 ~~~~l~~L~~L~L~~n~l~~~-~~-l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~i~~~-~~l~~l~~L~~L  139 (291)
T 1h6t_A           63 GIQYLPNVTKLFLNGNKLTDI-KP-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDI-NGLVHLPQLESL  139 (291)
T ss_dssp             TGGGCTTCCEEECCSSCCCCC-GG-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEECTTSCCCCC-GGGGGCTTCCEE
T ss_pred             hHhcCCCCCEEEccCCccCCC-cc-cccCCCCCEEECCCCcCCCChhhccCCCCCEEECCCCcCCCC-hhhcCCCCCCEE
Confidence            477889999999999966654 43 889999999999999876533333446889999999999987 468899999999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ++++|.+.+.  +.++.+++|++|++++|.+.+..|  +..+++|+.|++++|.++.++. +..+++|+.|++++|++..
T Consensus       140 ~l~~n~l~~~--~~l~~l~~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          140 YLGNNKITDI--TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHISDLRA-LAGLKNLDVLELFSQECLN  214 (291)
T ss_dssp             ECCSSCCCCC--GGGGGCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCBCGG-GTTCTTCSEEEEEEEEEEC
T ss_pred             EccCCcCCcc--hhhccCCCCCEEEccCCccccchh--hcCCCccCEEECCCCcCCCChh-hccCCCCCEEECcCCcccC
Confidence            9999875543  468899999999999987766544  8899999999999999998865 8899999999999998654

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.64  E-value=1.5e-15  Score=134.28  Aligned_cols=159  Identities=18%  Similarity=0.104  Sum_probs=125.7

Q ss_pred             CCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccChh-hhccCCCCeee
Q 012324          263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPSS-IDRLRRLGYLN  339 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~  339 (466)
                      .++|++|++++|.+.+..+..+..+++|++|++++|.+.+..+..+  ..++++|++++|.++.+|.. +..+++|++|+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~  106 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELA  106 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEE
Confidence            4689999999997776656667899999999999988765444332  35789999999999888765 68899999999


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +++|.+.+..+..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.      +.+++|+.|+++.|.+.+.
T Consensus       107 L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~------~~~~~l~~L~~~~n~~~g~  180 (208)
T 2o6s_A          107 LNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD------CTCPGIRYLSEWINKHSGV  180 (208)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBC------CCTTTTHHHHHHHHHCTTT
T ss_pred             cCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCee------cCCCCHHHHHHHHHhCCce
Confidence            9988765554555788999999999998777665666888999999999998765      3356788999999998888


Q ss_pred             CCCCeEec
Q 012324          420 LPKPLFLA  427 (466)
Q Consensus       420 ~p~~~~~l  427 (466)
                      +|..+..+
T Consensus       181 ip~~~~~l  188 (208)
T 2o6s_A          181 VRNSAGSV  188 (208)
T ss_dssp             BBCTTSSB
T ss_pred             eeccCccc
Confidence            88766543

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.64  E-value=4.9e-16  Score=160.37  Aligned_cols=164  Identities=20%  Similarity=0.166  Sum_probs=105.5

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccC-cccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcc--cChhhhcc
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEE--LPSSIDRL  332 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~--lp~~l~~l  332 (466)
                      ..+..+++|+.|++++|.+.+..| ..+..+++|++|++++|.+.+..|..+.  ..+++|++++|.+..  +|..++.+
T Consensus       393 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l  472 (606)
T 3vq2_A          393 ANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANT  472 (606)
T ss_dssp             CCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTC
T ss_pred             hhccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCEEECCCCcCCCcchHHhhccC
Confidence            345666677777776665555555 4566666777777776666555554333  456677777666663  46666666


Q ss_pred             CCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccC-CCcEeec
Q 012324          333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLF-VLRYLLL  411 (466)
Q Consensus       333 ~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~-~L~~L~l  411 (466)
                      ++|++|++++|.+.+..|..++.+++|++|++++|.+.+..|..+..+++|+.|++++|.++.+|..+..++ +|++|++
T Consensus       473 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~p~~~~~l~~~L~~l~l  552 (606)
T 3vq2_A          473 TNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNL  552 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTSCCCCEESCGGGSCTTCCEEEC
T ss_pred             CCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCCcCcccCHhHhhhcccCcEEEc
Confidence            777777777666666556666666777777777666666666666666777777777777666666666665 4777777


Q ss_pred             ccCcCCCcCC
Q 012324          412 SYSERFQSLP  421 (466)
Q Consensus       412 ~~~~~~~~~p  421 (466)
                      ++|++..+-+
T Consensus       553 ~~N~~~c~c~  562 (606)
T 3vq2_A          553 TNNSVACICE  562 (606)
T ss_dssp             CSCCCCCSST
T ss_pred             cCCCcccCCc
Confidence            7666655443

>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=99.63  E-value=1.3e-15  Score=144.82  Aligned_cols=178  Identities=20%  Similarity=0.160  Sum_probs=130.8

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChhhhccCCCCeeecc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSSIDRLRRLGYLNLS  341 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~  341 (466)
                      +++++|++++|.+.+..+..+.++++|++|++++|.+.+..|..+.  .++++|++++|.++.+|..+.  ++|++|+++
T Consensus        52 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~L~l~  129 (330)
T 1xku_A           52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQELRVH  129 (330)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCC--TTCCEEECC
T ss_pred             CCCeEEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCCccChhhc--ccccEEECC
Confidence            6899999999987776666899999999999999998877676554  588999999999999998765  799999999


Q ss_pred             ccccccccccccCCCCCCCEEEecCCCCCC--CCCcccCCCCCCcEEEccCCCccccc----------------------
Q 012324          342 DCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ--RLPECLGQLSSPIILNLAKTNIERIP----------------------  397 (466)
Q Consensus       342 ~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~--~~p~~l~~l~~L~~L~l~~~~l~~lp----------------------  397 (466)
                      +|.+.+..+..+..+++|++|++++|.+..  ..+..+..+++|+.|++++|.++.+|                      
T Consensus       130 ~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~l~~~~~  209 (330)
T 1xku_A          130 ENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDA  209 (330)
T ss_dssp             SSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTTSCCCEECT
T ss_pred             CCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccccccCCEEECCCCcCCccCH
Confidence            998776666678999999999999987753  55666777766666666666555444                      


Q ss_pred             hhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCCC
Q 012324          398 ESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRI  446 (466)
Q Consensus       398 ~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~~  446 (466)
                      ..+..+++|++|++++|.+.+..|..+   .++++|+.+....+.+..+
T Consensus       210 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~---~~l~~L~~L~L~~N~l~~l  255 (330)
T 1xku_A          210 ASLKGLNNLAKLGLSFNSISAVDNGSL---ANTPHLRELHLNNNKLVKV  255 (330)
T ss_dssp             GGGTTCTTCCEEECCSSCCCEECTTTG---GGSTTCCEEECCSSCCSSC
T ss_pred             HHhcCCCCCCEEECCCCcCceeChhhc---cCCCCCCEEECCCCcCccC
Confidence            345556666666666665444333332   3445555555544444443

>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=99.63  E-value=1.2e-15  Score=138.13  Aligned_cols=179  Identities=15%  Similarity=0.132  Sum_probs=117.4

Q ss_pred             CCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC-CC--CCcccEEeecC-ccCcccCh-hhhccCCCCeee
Q 012324          265 NLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-IS--SGNVCWLFLRG-TAIEELPS-SIDRLRRLGYLN  339 (466)
Q Consensus       265 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~--~~~l~~L~l~~-~~i~~lp~-~l~~l~~L~~L~  339 (466)
                      +|++|++++|.+.+..+..+.++++|++|++++|..+..++. .+  ..++++|++++ |.++.+|. .+.++++|++|+
T Consensus        32 ~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~  111 (239)
T 2xwt_C           32 STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLG  111 (239)
T ss_dssp             TCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEE
T ss_pred             cccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEe
Confidence            777888877765555555677788888888888764444443 22  24678888887 77777764 467778888888


Q ss_pred             ccccccccccccccCCCCCCC---EEEecCC-CCCCCCCcccCCCCCCc-EEEccCCCccccchhhhccCCCcEeecccC
Q 012324          340 LSDCKRLKSLPSSLCKLKSLK---VLNLCGC-SNLQRLPECLGQLSSPI-ILNLAKTNIERIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~---~L~l~~~-~~~~~~p~~l~~l~~L~-~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~  414 (466)
                      +++|.+.+ +|. +..+++|+   +|++++| .+....+..|..+++|+ .|++++|.++.+|......++|++|++++|
T Consensus       112 l~~n~l~~-lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~~~~L~~L~L~~n  189 (239)
T 2xwt_C          112 IFNTGLKM-FPD-LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKN  189 (239)
T ss_dssp             EEEECCCS-CCC-CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECTTTTTTCEEEEEECTTC
T ss_pred             CCCCCCcc-ccc-cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCHhhcCCCCCCEEEcCCC
Confidence            88776443 665 67777777   8888877 44444444577778888 888888887777765444477888888877


Q ss_pred             cCCCcCCCCeEeccCC-CCccccccCccccCCCC
Q 012324          415 ERFQSLPKPLFLARGC-LALEPFLGIIEDTQRIP  447 (466)
Q Consensus       415 ~~~~~~p~~~~~l~~~-~~L~~l~~~~~~~~~~~  447 (466)
                      +.+..+|...+  .++ ++|+.+....+.+..++
T Consensus       190 ~~l~~i~~~~~--~~l~~~L~~L~l~~N~l~~l~  221 (239)
T 2xwt_C          190 KYLTVIDKDAF--GGVYSGPSLLDVSQTSVTALP  221 (239)
T ss_dssp             TTCCEECTTTT--TTCSBCCSEEECTTCCCCCCC
T ss_pred             CCcccCCHHHh--hccccCCcEEECCCCccccCC
Confidence            53444544321  344 56666555555554444

>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=99.63  E-value=2.9e-15  Score=143.51  Aligned_cols=175  Identities=20%  Similarity=0.197  Sum_probs=83.7

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC-CCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      +..+++|++|++++|.+.+ ++. +..+++|++|++++|.+.. ++. ....++++|++++|.+..++. +..+++|++|
T Consensus        62 ~~~~~~L~~L~l~~n~i~~-~~~-~~~l~~L~~L~L~~n~i~~-~~~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L  137 (347)
T 4fmz_A           62 IEYLTNLEYLNLNGNQITD-ISP-LSNLVKLTNLYIGTNKITD-ISALQNLTNLRELYLNEDNISDISP-LANLTKMYSL  137 (347)
T ss_dssp             GGGCTTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCC-CGGGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEE
T ss_pred             hhhcCCccEEEccCCcccc-chh-hhcCCcCCEEEccCCcccC-chHHcCCCcCCEEECcCCcccCchh-hccCCceeEE
Confidence            4445555555555553322 222 4455555555555554332 221 122344555555555554443 4445555555


Q ss_pred             ecccccccccccc---------------------ccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccc
Q 012324          339 NLSDCKRLKSLPS---------------------SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIP  397 (466)
Q Consensus       339 ~l~~~~~~~~~p~---------------------~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp  397 (466)
                      ++++|......+.                     .+..+++|++|++++|.+.. ++. +..+++|+.|++++|.+..++
T Consensus       138 ~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~-~~~-~~~l~~L~~L~l~~n~l~~~~  215 (347)
T 4fmz_A          138 NLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIED-ISP-LASLTSLHYFTAYVNQITDIT  215 (347)
T ss_dssp             ECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCCC-CGG-GGGCTTCCEEECCSSCCCCCG
T ss_pred             ECCCCCCcccccchhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCcccc-ccc-ccCCCccceeecccCCCCCCc
Confidence            5554433333322                     04444455555554443332 221 444555555555555555443


Q ss_pred             hhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCCC
Q 012324          398 ESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRI  446 (466)
Q Consensus       398 ~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~~  446 (466)
                      . +..+++|++|++++|.+.+ +|.    +.++++|+.+....+.+..+
T Consensus       216 ~-~~~~~~L~~L~l~~n~l~~-~~~----~~~l~~L~~L~l~~n~l~~~  258 (347)
T 4fmz_A          216 P-VANMTRLNSLKIGNNKITD-LSP----LANLSQLTWLEIGTNQISDI  258 (347)
T ss_dssp             G-GGGCTTCCEEECCSSCCCC-CGG----GTTCTTCCEEECCSSCCCCC
T ss_pred             h-hhcCCcCCEEEccCCccCC-Ccc----hhcCCCCCEEECCCCccCCC
Confidence            3 5566667777776665433 222    45666666665555544443

>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=99.63  E-value=2.6e-15  Score=151.98  Aligned_cols=156  Identities=18%  Similarity=0.176  Sum_probs=131.8

Q ss_pred             ccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcc---cChhhhccCCCCeeeccccccccccccc-cCCCCC
Q 012324          285 FNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEE---LPSSIDRLRRLGYLNLSDCKRLKSLPSS-LCKLKS  358 (466)
Q Consensus       285 ~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~---lp~~l~~l~~L~~L~l~~~~~~~~~p~~-~~~l~~  358 (466)
                      ..+++|++|++++|.+.+..|..+.  ..+++|++++|.++.   +|..++.+++|++|++++|.+.+.+|.. +..+++
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~  400 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS  400 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTT
T ss_pred             hhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCcc
Confidence            6789999999999998887776544  578999999999985   4567899999999999999877767764 788999


Q ss_pred             CCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCcccccc
Q 012324          359 LKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLG  438 (466)
Q Consensus       359 L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~  438 (466)
                      |++|++++|.+.+..|..+.  ++|+.|++++|+++.+|..+..+++|++|++++|.+. .+|..  .+.++++|+.+..
T Consensus       401 L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L~~N~l~-~l~~~--~~~~l~~L~~L~l  475 (520)
T 2z7x_B          401 LLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLK-SVPDG--IFDRLTSLQKIWL  475 (520)
T ss_dssp             CCEEECCSSCCCGGGGGSCC--TTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCC-CCCTT--TTTTCTTCCEEEC
T ss_pred             CCEEECcCCCCCcchhhhhc--ccCCEEECCCCcccccchhhhcCCCCCEEECCCCcCC-ccCHH--HhccCCcccEEEC
Confidence            99999999998888887665  7999999999999999998889999999999999865 67776  3457788888777


Q ss_pred             CccccCC
Q 012324          439 IIEDTQR  445 (466)
Q Consensus       439 ~~~~~~~  445 (466)
                      ..+.+..
T Consensus       476 ~~N~~~c  482 (520)
T 2z7x_B          476 HTNPWDC  482 (520)
T ss_dssp             CSSCBCC
T ss_pred             cCCCCcc
Confidence            7776643

>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=99.63  E-value=2.7e-15  Score=139.79  Aligned_cols=172  Identities=24%  Similarity=0.252  Sum_probs=140.5

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      .+..+++|+.|++++|.+. .++. +..+++|++|++++|.+.+..+-....++++|++++|.++.+|. +..+++|++|
T Consensus        41 ~~~~l~~L~~L~l~~~~i~-~~~~-~~~l~~L~~L~L~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L  117 (291)
T 1h6t_A           41 TQNELNSIDQIIANNSDIK-SVQG-IQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSS-LKDLKKLKSL  117 (291)
T ss_dssp             CHHHHHTCCEEECTTSCCC-CCTT-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEE
T ss_pred             chhhcCcccEEEccCCCcc-cChh-HhcCCCCCEEEccCCccCCCcccccCCCCCEEECCCCcCCCChh-hccCCCCCEE
Confidence            3556789999999999544 4554 88999999999999998776664445788999999999998765 8999999999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ++++|.+.. + +.+..+++|+.|++++|.+.+.  ..+..+++|+.|++++|.++.++. +..+++|+.|++++|.+. 
T Consensus       118 ~L~~n~i~~-~-~~l~~l~~L~~L~l~~n~l~~~--~~l~~l~~L~~L~L~~N~l~~~~~-l~~l~~L~~L~L~~N~i~-  191 (291)
T 1h6t_A          118 SLEHNGISD-I-NGLVHLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHIS-  191 (291)
T ss_dssp             ECTTSCCCC-C-GGGGGCTTCCEEECCSSCCCCC--GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCC-
T ss_pred             ECCCCcCCC-C-hhhcCCCCCCEEEccCCcCCcc--hhhccCCCCCEEEccCCccccchh-hcCCCccCEEECCCCcCC-
Confidence            999987544 4 4588999999999999877654  578999999999999999998876 899999999999999754 


Q ss_pred             cCCCCeEeccCCCCccccccCcccc
Q 012324          419 SLPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       419 ~~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                      .+|.    +.++++|+.+....+.+
T Consensus       192 ~l~~----l~~l~~L~~L~l~~n~i  212 (291)
T 1h6t_A          192 DLRA----LAGLKNLDVLELFSQEC  212 (291)
T ss_dssp             BCGG----GTTCTTCSEEEEEEEEE
T ss_pred             CChh----hccCCCCCEEECcCCcc
Confidence            4543    56677777666544433

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

Probab=99.63  E-value=5.9e-16  Score=146.30  Aligned_cols=176  Identities=18%  Similarity=0.101  Sum_probs=124.3

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCC-------------------CCCccCCCCCCcccEEeecCc
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS-------------------KLKRLPEISSGNVCWLFLRGT  320 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~-------------------~~~~~~~~~~~~l~~L~l~~~  320 (466)
                      +..+++|++|++++|.+.+..+  +..+++|++|++++|.                   +.+.. .....+++.|++++|
T Consensus        54 ~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~Ls~n~l~~l~~~~~L~~L~l~~n~l~~~~-~~~~~~L~~L~l~~N  130 (317)
T 3o53_A           54 LAPFTKLELLNLSSNVLYETLD--LESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS-CSRGQGKKNIYLANN  130 (317)
T ss_dssp             HTTCTTCCEEECTTSCCEEEEE--ETTCTTCCEEECCSSEEEEEEECTTCCEEECCSSCCSEEE-ECCCSSCEEEECCSS
T ss_pred             hhCCCcCCEEECCCCcCCcchh--hhhcCCCCEEECcCCccccccCCCCcCEEECCCCccCCcC-ccccCCCCEEECCCC
Confidence            4555555666665554443332  4555555555555554                   33222 223456889999999


Q ss_pred             cCcccCh-hhhccCCCCeeecccccccccccccc-CCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch
Q 012324          321 AIEELPS-SIDRLRRLGYLNLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE  398 (466)
Q Consensus       321 ~i~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~-~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~  398 (466)
                      .++.+++ .++.+++|++|++++|.+.+..+..+ ..+++|++|++++|.+... | ....+++|+.|++++|.++.+|.
T Consensus       131 ~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~-~-~~~~l~~L~~L~Ls~N~l~~l~~  208 (317)
T 3o53_A          131 KITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDV-K-GQVVFAKLKTLDLSSNKLAFMGP  208 (317)
T ss_dssp             CCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEE-E-CCCCCTTCCEEECCSSCCCEECG
T ss_pred             CCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccc-c-cccccccCCEEECCCCcCCcchh
Confidence            9887755 67889999999999998777666666 4789999999999876644 4 33458999999999999999988


Q ss_pred             hhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          399 SIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       399 ~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      .+..+++|+.|++++|.+. .+|..+   ..+++|+.+....+.+.
T Consensus       209 ~~~~l~~L~~L~L~~N~l~-~l~~~~---~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          209 EFQSAAGVTWISLRNNKLV-LIEKAL---RFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             GGGGGTTCSEEECTTSCCC-EECTTC---CCCTTCCEEECTTCCCB
T ss_pred             hhcccCcccEEECcCCccc-chhhHh---hcCCCCCEEEccCCCcc
Confidence            8999999999999998755 577764   45666776666555543

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

Probab=99.63  E-value=4.1e-15  Score=141.49  Aligned_cols=178  Identities=15%  Similarity=0.118  Sum_probs=133.6

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCC--ccCCCCCC-cccEEeecCccCcccChhhhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLK--RLPEISSG-NVCWLFLRGTAIEELPSSIDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~--~~~~~~~~-~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l  340 (466)
                      ++|++|++++|.+....+..+..+++|++|++++|.+..  ..|..+.. .+++|++++|.++.+|..+.  ++|++|++
T Consensus       123 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~L~~L~l~~n~l~~l~~~~~--~~L~~L~l  200 (332)
T 2ft3_A          123 SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLP--ETLNELHL  200 (332)
T ss_dssp             TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSC--SSCSCCBC
T ss_pred             ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCCccCEEECcCCCCCccCcccc--CCCCEEEC
Confidence            677777887776555444557788888888888887642  33333222 67888888888888887654  78999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcC
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSL  420 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~  420 (466)
                      ++|.+.+..+..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.++.+|..+..+++|+.|++++|.+.+..
T Consensus       201 ~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~~N~l~~~~  280 (332)
T 2ft3_A          201 DHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNITKVG  280 (332)
T ss_dssp             CSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCCBCCTTGGGCTTCCEEECCSSCCCBCC
T ss_pred             CCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCCcCeecChhhhcCccCCEEECCCCCCCccC
Confidence            99887777777899999999999999988887777899999999999999999999999999999999999999865433


Q ss_pred             CCCeEec---cCCCCccccccCcccc
Q 012324          421 PKPLFLA---RGCLALEPFLGIIEDT  443 (466)
Q Consensus       421 p~~~~~l---~~~~~L~~l~~~~~~~  443 (466)
                      +..+...   .....|+.+....+.+
T Consensus       281 ~~~~~~~~~~~~~~~l~~L~l~~N~~  306 (332)
T 2ft3_A          281 VNDFCPVGFGVKRAYYNGISLFNNPV  306 (332)
T ss_dssp             TTSSSCSSCCSSSCCBSEEECCSSSS
T ss_pred             hhHccccccccccccccceEeecCcc
Confidence            3333221   1134555555544443

>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=99.62  E-value=4.7e-15  Score=132.24  Aligned_cols=152  Identities=16%  Similarity=0.097  Sum_probs=117.2

Q ss_pred             cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCC---CCCcccEEeecCccCcccCh-hhhccCCCCeeeccc
Q 012324          267 VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI---SSGNVCWLFLRGTAIEELPS-SIDRLRRLGYLNLSD  342 (466)
Q Consensus       267 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~~  342 (466)
                      +.++++++. ...+|..+  ...+++|++++|.+.+..+..   ...+++.|++++|.++.++. .+.++++|++|++++
T Consensus        14 ~~l~~s~n~-l~~iP~~~--~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   90 (220)
T 2v70_A           14 TTVDCSNQK-LNKIPEHI--PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTS   90 (220)
T ss_dssp             TEEECCSSC-CSSCCSCC--CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEeEeCCCC-cccCccCC--CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCC
Confidence            477777774 34466544  344678888888766654532   23467888888888887765 688899999999999


Q ss_pred             cccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeecccCcCCCcCC
Q 012324          343 CKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       343 ~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      |.+.+..+..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.++.+ |..+..+++|++|++++|++..+-+
T Consensus        91 N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c~  170 (220)
T 2v70_A           91 NRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLANPFNCNCY  170 (220)
T ss_dssp             SCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECCSCCEECSGG
T ss_pred             CccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEecCcCCcCCCc
Confidence            887666666688899999999999888888788888999999999999999866 6688889999999999988765443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.62  E-value=2.6e-16  Score=148.32  Aligned_cols=175  Identities=15%  Similarity=-0.007  Sum_probs=121.2

Q ss_pred             CCCCCCcEEEcCCCCCCcccC----cccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcc---cC--hhh
Q 012324          261 PRLNNLVILNLRSGKSLKSLP----SGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEE---LP--SSI  329 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~----~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~---lp--~~l  329 (466)
                      ..+++|++|++++|.+.+..+    ..+..+++|++|++++|.+.+..+..+  ..++++|++++|.+..   ++  ..+
T Consensus       114 ~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~  193 (310)
T 4glp_A          114 ATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCP  193 (310)
T ss_dssp             CCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCT
T ss_pred             ccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhh
Confidence            778888888888887666444    234467888888888888766655543  3577888888887652   32  223


Q ss_pred             hccCCCCeeecccccccccccc----ccCCCCCCCEEEecCCCCCCCCCcccCCC---CCCcEEEccCCCccccchhhhc
Q 012324          330 DRLRRLGYLNLSDCKRLKSLPS----SLCKLKSLKVLNLCGCSNLQRLPECLGQL---SSPIILNLAKTNIERIPESIIQ  402 (466)
Q Consensus       330 ~~l~~L~~L~l~~~~~~~~~p~----~~~~l~~L~~L~l~~~~~~~~~p~~l~~l---~~L~~L~l~~~~l~~lp~~l~~  402 (466)
                      ..+++|++|++++|.+. .++.    .++.+++|++|++++|.+.+..|..+..+   ++|+.|++++|.++.+|..+. 
T Consensus       194 ~~l~~L~~L~Ls~N~l~-~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~-  271 (310)
T 4glp_A          194 HKFPAIQNLALRNTGME-TPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLEQVPKGLP-  271 (310)
T ss_dssp             TSSCCCCSCBCCSSCCC-CHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCCSCCSCCC-
T ss_pred             hcCCCCCEEECCCCCCC-chHHHHHHHHhcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCCchhhhhc-
Confidence            67788888888887653 3332    24567888888888888777777776666   588888888888888877664 


Q ss_pred             cCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCcccc
Q 012324          403 LFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       403 l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                       ++|+.|++++|.+.+ +|.    ...+++|+.+....+.+
T Consensus       272 -~~L~~L~Ls~N~l~~-~~~----~~~l~~L~~L~L~~N~l  306 (310)
T 4glp_A          272 -AKLRVLDLSSNRLNR-APQ----PDELPEVDNLTLDGNPF  306 (310)
T ss_dssp             -SCCSCEECCSCCCCS-CCC----TTSCCCCSCEECSSTTT
T ss_pred             -CCCCEEECCCCcCCC-Cch----hhhCCCccEEECcCCCC
Confidence             788888888887554 333    24556666666655544

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

Probab=99.62  E-value=4e-16  Score=156.18  Aligned_cols=179  Identities=15%  Similarity=-0.032  Sum_probs=122.8

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChh-------------
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSS-------------  328 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~-------------  328 (466)
                      .+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..|.....+|++|++++|.++.+|..             
T Consensus        32 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~~~~~L~~L~L~~N~l  111 (487)
T 3oja_A           32 SAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNI  111 (487)
T ss_dssp             TGGGCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEEEEEECTTCCEEECCSSCC
T ss_pred             cCCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCCCCCCCCCcCEEECcCCcC
Confidence            4569999999999888877888999999999999999988777744556788888888877765422             


Q ss_pred             ----hhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccC-CCCCCcEEEccCCCccccchhhhcc
Q 012324          329 ----IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLG-QLSSPIILNLAKTNIERIPESIIQL  403 (466)
Q Consensus       329 ----l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~-~l~~L~~L~l~~~~l~~lp~~l~~l  403 (466)
                          ...+++|++|++++|.+.+..|..++.+++|++|++++|.+.+..|..+. .+++|+.|++++|.++.+|. ...+
T Consensus       112 ~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~-~~~l  190 (487)
T 3oja_A          112 SRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG-QVVF  190 (487)
T ss_dssp             CCEEECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC-CCCC
T ss_pred             CCCCccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccccc-cccC
Confidence                01245566666666665555565666677777777777766666666654 57777777777777776644 3357


Q ss_pred             CCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCC
Q 012324          404 FVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       404 ~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      ++|++|++++|.+.+ +|..+   .++++|+.+....+.+..
T Consensus       191 ~~L~~L~Ls~N~l~~-~~~~~---~~l~~L~~L~Ls~N~l~~  228 (487)
T 3oja_A          191 AKLKTLDLSSNKLAF-MGPEF---QSAAGVTWISLRNNKLVL  228 (487)
T ss_dssp             TTCCEEECCSSCCCE-ECGGG---GGGTTCSEEECTTSCCCE
T ss_pred             CCCCEEECCCCCCCC-CCHhH---cCCCCccEEEecCCcCcc
Confidence            777777777777554 44333   344555555544444333

>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=99.62  E-value=6.1e-15  Score=150.67  Aligned_cols=154  Identities=23%  Similarity=0.172  Sum_probs=130.2

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCe
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGY  337 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~  337 (466)
                      +.+..+++|+.|+|++|.+.+..|  +..+++|+.|+|++|.+.+...-....+|+.|++++|.+..++ .+..+++|+.
T Consensus        59 ~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~  135 (605)
T 1m9s_A           59 QGIQYLPNVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLES  135 (605)
T ss_dssp             TTGGGCTTCCEEECTTSCCCCCGG--GGGCTTCCEEECCSSCCCCCTTSTTCTTCCEEECTTSCCCCCG-GGGGCTTCSE
T ss_pred             hHHccCCCCCEEEeeCCCCCCChh--hccCCCCCEEECcCCCCCCChhhccCCCCCEEEecCCCCCCCc-cccCCCccCE
Confidence            357889999999999997665444  8899999999999998765332334468899999999999874 5899999999


Q ss_pred             eeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCC
Q 012324          338 LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       338 L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      |++++|.+.+.  ..++.+++|+.|++++|.+.+..|  +..+++|+.|+|++|.++.+| .+..+++|+.|++++|++.
T Consensus       136 L~Ls~N~l~~l--~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~~L~L~~N~l~  210 (605)
T 1m9s_A          136 LYLGNNKITDI--TVLSRLTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFSQECL  210 (605)
T ss_dssp             EECCSSCCCCC--GGGGSCTTCSEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCBCG-GGTTCTTCSEEECCSEEEE
T ss_pred             EECCCCccCCc--hhhcccCCCCEEECcCCcCCCchh--hccCCCCCEEECcCCCCCCCh-HHccCCCCCEEEccCCcCc
Confidence            99999886554  568999999999999988877655  899999999999999999885 5899999999999999876


Q ss_pred             Cc
Q 012324          418 QS  419 (466)
Q Consensus       418 ~~  419 (466)
                      +.
T Consensus       211 ~~  212 (605)
T 1m9s_A          211 NK  212 (605)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.62  E-value=2.2e-15  Score=141.88  Aligned_cols=155  Identities=21%  Similarity=0.136  Sum_probs=131.6

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCc--cC-C---CCCCcccEEeecCccCcccChh----h
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKR--LP-E---ISSGNVCWLFLRGTAIEELPSS----I  329 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~--~~-~---~~~~~l~~L~l~~~~i~~lp~~----l  329 (466)
                      +..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+.  ++ .   ....++++|++++|+++.++..    +
T Consensus       141 ~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~  220 (310)
T 4glp_A          141 QWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALA  220 (310)
T ss_dssp             TTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHH
T ss_pred             hhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHH
Confidence            44689999999999988888888899999999999999987653  22 1   2345789999999999876653    5


Q ss_pred             hccCCCCeeeccccccccccccccCCC---CCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCC
Q 012324          330 DRLRRLGYLNLSDCKRLKSLPSSLCKL---KSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVL  406 (466)
Q Consensus       330 ~~l~~L~~L~l~~~~~~~~~p~~~~~l---~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L  406 (466)
                      +.+++|++|++++|.+.+..|..+..+   ++|++|++++|.+. .+|..+.  ++|+.|++++|+++.+|. +..+++|
T Consensus       221 ~~l~~L~~L~Ls~N~l~~~~p~~~~~~~~~~~L~~L~Ls~N~l~-~lp~~~~--~~L~~L~Ls~N~l~~~~~-~~~l~~L  296 (310)
T 4glp_A          221 AAGVQPHSLDLSHNSLRATVNPSAPRCMWSSALNSLNLSFAGLE-QVPKGLP--AKLRVLDLSSNRLNRAPQ-PDELPEV  296 (310)
T ss_dssp             HHTCCCSSEECTTSCCCCCCCSCCSSCCCCTTCCCEECCSSCCC-SCCSCCC--SCCSCEECCSCCCCSCCC-TTSCCCC
T ss_pred             hcCCCCCEEECCCCCCCccchhhHHhccCcCcCCEEECCCCCCC-chhhhhc--CCCCEEECCCCcCCCCch-hhhCCCc
Confidence            788999999999999887778878777   69999999998877 7788775  899999999999998876 7889999


Q ss_pred             cEeecccCcCCC
Q 012324          407 RYLLLSYSERFQ  418 (466)
Q Consensus       407 ~~L~l~~~~~~~  418 (466)
                      +.|++++|++..
T Consensus       297 ~~L~L~~N~l~~  308 (310)
T 4glp_A          297 DNLTLDGNPFLV  308 (310)
T ss_dssp             SCEECSSTTTSC
T ss_pred             cEEECcCCCCCC
Confidence            999999998653

>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=99.61  E-value=1.7e-15  Score=156.27  Aligned_cols=181  Identities=20%  Similarity=0.089  Sum_probs=96.7

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCC---CCCcccEEeecCccCccc-ChhhhccCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI---SSGNVCWLFLRGTAIEEL-PSSIDRLRR  334 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~~l~~L~l~~~~i~~l-p~~l~~l~~  334 (466)
                      .+..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..|..   ....+++|++++|.+... |..++.+++
T Consensus       371 ~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  450 (606)
T 3t6q_A          371 QLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPA  450 (606)
T ss_dssp             TTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTT
T ss_pred             hcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCCCccCCcCHHHHhCCCC
Confidence            3445555555555555444444555555555555555555544443322   123456666666655533 334555666


Q ss_pred             CCeeeccccccccc---cccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhccCCCcEee
Q 012324          335 LGYLNLSDCKRLKS---LPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLL  410 (466)
Q Consensus       335 L~~L~l~~~~~~~~---~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l~~L~~L~  410 (466)
                      |++|++++|.+.+.   .+..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.++ ..|..+.++++| +|+
T Consensus       451 L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~  529 (606)
T 3t6q_A          451 LQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLN  529 (606)
T ss_dssp             CCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCGGGGGGGTTCCSC-EEE
T ss_pred             CCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCCccCcCChhHhCccccc-EEE
Confidence            66666666554431   1234555666666666666655555566666666666666666666 334456666666 666


Q ss_pred             cccCcCCCcCCCCeEeccCCCCccccccCcccc
Q 012324          411 LSYSERFQSLPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       411 l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                      +++|.+.+..|..+.   .+++|+.+....+.+
T Consensus       530 L~~N~l~~~~~~~~~---~l~~L~~L~l~~N~~  559 (606)
T 3t6q_A          530 LASNHISIILPSLLP---ILSQQRTINLRQNPL  559 (606)
T ss_dssp             CCSSCCCCCCGGGHH---HHHTSSEEECTTCCE
T ss_pred             CcCCcccccCHhhcc---cCCCCCEEeCCCCCc
Confidence            666665544443332   334444444444444

>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=99.61  E-value=6.3e-15  Score=146.99  Aligned_cols=152  Identities=24%  Similarity=0.246  Sum_probs=96.6

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      +.++++|+.|++++|.+.+ ++ .+..+++|++|++++|.+.+..|......++.|++++|.+..++ .+..+++|++|+
T Consensus       173 ~~~l~~L~~L~l~~n~l~~-~~-~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~  249 (466)
T 1o6v_A          173 LANLTTLERLDISSNKVSD-IS-VLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLD  249 (466)
T ss_dssp             GTTCTTCCEEECCSSCCCC-CG-GGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEE
T ss_pred             hccCCCCCEEECcCCcCCC-Ch-hhccCCCCCEEEecCCcccccccccccCCCCEEECCCCCcccch-hhhcCCCCCEEE
Confidence            6677777788887775443 33 36677777777777777666555444556777777777776653 466677777777


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +++|.+.+..|  +..+++|+.|++++|.+.+..|  +..+++|+.|++++|.+..++. +..+++|+.|++++|.+.+.
T Consensus       250 l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~L~~n~l~~~  324 (466)
T 1o6v_A          250 LANNQISNLAP--LSGLTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISP-ISNLKNLTYLTLYFNNISDI  324 (466)
T ss_dssp             CCSSCCCCCGG--GTTCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCSCCGG-GGGCTTCSEEECCSSCCSCC
T ss_pred             CCCCccccchh--hhcCCCCCEEECCCCccCcccc--ccCCCccCeEEcCCCcccCchh-hcCCCCCCEEECcCCcCCCc
Confidence            77766443322  5666677777776665554322  5666666666666666665544 55666666666666654443

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.61  E-value=3.5e-15  Score=135.01  Aligned_cols=164  Identities=14%  Similarity=0.105  Sum_probs=130.6

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccC-cccccCcccCEEecCC-CCCCCccCCCC--CCcccEEeecCccCcccChhhhcc
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLP-SGIFNLEFLTKLDLSG-CSKLKRLPEIS--SGNVCWLFLRGTAIEELPSSIDRL  332 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~-~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~l~~l  332 (466)
                      +..+..+++|++|++++|.....++ ..+.++++|++|++++ |.+....+..+  ..++++|++++|.++.+|. +..+
T Consensus        48 ~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~l~~lp~-~~~l  126 (239)
T 2xwt_C           48 SHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPD-LTKV  126 (239)
T ss_dssp             TTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEECCCSCCC-CTTC
T ss_pred             HHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCCCccccc-cccc
Confidence            3468899999999999996344444 5788999999999998 66554443432  3578999999999999987 8888


Q ss_pred             CCCC---eeecccc-ccccccccccCCCCCCC-EEEecCCCCCCCCCcccCCCCCCcEEEccCC-Cccccch-hhhcc-C
Q 012324          333 RRLG---YLNLSDC-KRLKSLPSSLCKLKSLK-VLNLCGCSNLQRLPECLGQLSSPIILNLAKT-NIERIPE-SIIQL-F  404 (466)
Q Consensus       333 ~~L~---~L~l~~~-~~~~~~p~~~~~l~~L~-~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~-~l~~lp~-~l~~l-~  404 (466)
                      ++|+   +|++++| .+....+..+..+++|+ +|++++|.+. .+|......++|+.|++++| .++.+|. .+.++ +
T Consensus       127 ~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~-~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~  205 (239)
T 2xwt_C          127 YSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFT-SVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYS  205 (239)
T ss_dssp             CBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCC-EECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSB
T ss_pred             cccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCc-ccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhcccc
Confidence            8998   9999999 54444345588999999 9999998776 66655444489999999999 4998865 67889 9


Q ss_pred             CCcEeecccCcCCCcCCCC
Q 012324          405 VLRYLLLSYSERFQSLPKP  423 (466)
Q Consensus       405 ~L~~L~l~~~~~~~~~p~~  423 (466)
                      +|+.|++++|.+. .+|..
T Consensus       206 ~L~~L~l~~N~l~-~l~~~  223 (239)
T 2xwt_C          206 GPSLLDVSQTSVT-ALPSK  223 (239)
T ss_dssp             CCSEEECTTCCCC-CCCCT
T ss_pred             CCcEEECCCCccc-cCChh
Confidence            9999999998855 56654

>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=99.60  E-value=7.5e-15  Score=140.59  Aligned_cols=176  Identities=19%  Similarity=0.211  Sum_probs=95.4

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      +..+++|++|++++|.+.+..+  +..+++|++|++++|.+.+..+......++.|++++|.+..++. +..+++|++|+
T Consensus       151 ~~~l~~L~~L~l~~~~~~~~~~--~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~  227 (347)
T 4fmz_A          151 LSNMTGLNYLTVTESKVKDVTP--IANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITP-VANMTRLNSLK  227 (347)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GGGCTTCCEEE
T ss_pred             hhhCCCCcEEEecCCCcCCchh--hccCCCCCEEEccCCcccccccccCCCccceeecccCCCCCCch-hhcCCcCCEEE
Confidence            5666777777777664433322  56667777777777665543332333455666666666655544 55666666666


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +++|.+.. ++. +..+++|++|++++|.+.. + ..+..+++|+.|++++|.++.++ .+..+++|+.|++++|.+.+.
T Consensus       228 l~~n~l~~-~~~-~~~l~~L~~L~l~~n~l~~-~-~~~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~L~~n~l~~~  302 (347)
T 4fmz_A          228 IGNNKITD-LSP-LANLSQLTWLEIGTNQISD-I-NAVKDLTKLKMLNVGSNQISDIS-VLNNLSQLNSLFLNNNQLGNE  302 (347)
T ss_dssp             CCSSCCCC-CGG-GTTCTTCCEEECCSSCCCC-C-GGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCGG
T ss_pred             ccCCccCC-Ccc-hhcCCCCCEEECCCCccCC-C-hhHhcCCCcCEEEccCCccCCCh-hhcCCCCCCEEECcCCcCCCc
Confidence            66655332 332 5556666666666654443 2 34555666666666666655553 355566666666666654443


Q ss_pred             CCCCeEeccCCCCccccccCccccCCC
Q 012324          420 LPKPLFLARGCLALEPFLGIIEDTQRI  446 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l~~~~~~~~~~  446 (466)
                      .|..+   .++++|+.+....+.+..+
T Consensus       303 ~~~~l---~~l~~L~~L~L~~n~l~~~  326 (347)
T 4fmz_A          303 DMEVI---GGLTNLTTLFLSQNHITDI  326 (347)
T ss_dssp             GHHHH---HTCTTCSEEECCSSSCCCC
T ss_pred             ChhHh---hccccCCEEEccCCccccc
Confidence            33222   2344444444444444333

>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=99.60  E-value=1.4e-14  Score=129.21  Aligned_cols=129  Identities=22%  Similarity=0.211  Sum_probs=82.8

Q ss_pred             cccCEEecCCCCCCCccCCCCC--CcccEEeecCccCccc-ChhhhccCCCCeeecccccccccccc-ccCCCCCCCEEE
Q 012324          288 EFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLN  363 (466)
Q Consensus       288 ~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~-~~~~l~~L~~L~  363 (466)
                      ++|+.|++++|.+.+..+..+.  .++++|++++|.++.+ |..+.++++|++|++++|.+. .+|. .+..+++|++|+
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~-~l~~~~f~~l~~L~~L~  110 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT-ELPKSLFEGLFSLQLLL  110 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCC-CCCTTTTTTCTTCCEEE
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCC-ccCHhHccCCCCCCEEE
Confidence            4455555555554433332222  3455555555666655 556777777777777777644 3443 356777777777


Q ss_pred             ecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCC
Q 012324          364 LCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       364 l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~  417 (466)
                      +++|.+.+..|..|..+++|+.|++++|.++.++. .+..+++|++|++++|++.
T Consensus       111 L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B          111 LNANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcC
Confidence            77777776667777777777777777777776654 4667777777777777653

>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=99.60  E-value=1e-14  Score=149.01  Aligned_cols=172  Identities=16%  Similarity=0.101  Sum_probs=130.8

Q ss_pred             CcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccC---hhhhccCCCCeeec
Q 012324          266 LVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELP---SSIDRLRRLGYLNL  340 (466)
Q Consensus       266 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp---~~l~~l~~L~~L~l  340 (466)
                      |+.|++++|.+....  ....+++|++|++++|.+.+..|..+.  .++++|++++|.++.++   ..++.+++|++|++
T Consensus       333 L~~L~l~~n~~~~~~--~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l  410 (562)
T 3a79_B          333 IKMLSISDTPFIHMV--CPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDV  410 (562)
T ss_dssp             CSEEEEESSCCCCCC--CCSSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEEC
T ss_pred             ceEEEccCCCccccc--CccCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEEC
Confidence            555555555332211  115788899999999988887776543  57899999999888665   45788999999999


Q ss_pred             cccccccccccc-cCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          341 SDCKRLKSLPSS-LCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       341 ~~~~~~~~~p~~-~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      ++|.+.+.+|.. +..+++|++|++++|.+.+..|..+.  ++|+.|++++|.++.+|..+.++++|++|++++|.+. .
T Consensus       411 ~~N~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N~l~~ip~~~~~l~~L~~L~L~~N~l~-~  487 (562)
T 3a79_B          411 SLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLK-S  487 (562)
T ss_dssp             TTSCCBSCCSSCCCCCCTTCCEEECCSSCCCGGGGSSCC--TTCSEEECCSSCCCCCCTTTTSSCCCSEEECCSSCCC-C
T ss_pred             CCCcCCCccChhhhcCcccCCEEECCCCCCCcchhhhhc--CcCCEEECCCCcCcccChhhcCCCCCCEEECCCCCCC-C
Confidence            998877757754 67889999999999888877776654  7899999999999999988889999999999988865 6


Q ss_pred             CCCCeEeccCCCCccccccCccccC
Q 012324          420 LPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +|..  .+..+++|+.+....+.+.
T Consensus       488 l~~~--~~~~l~~L~~L~l~~N~~~  510 (562)
T 3a79_B          488 VPDG--VFDRLTSLQYIWLHDNPWD  510 (562)
T ss_dssp             CCTT--STTTCTTCCCEECCSCCBC
T ss_pred             CCHH--HHhcCCCCCEEEecCCCcC
Confidence            7766  2456777777777666654

>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=99.60  E-value=6e-15  Score=154.37  Aligned_cols=161  Identities=20%  Similarity=0.129  Sum_probs=135.9

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccCh-hhhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPS-SIDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l  340 (466)
                      +++++|++++|.+.+..+..+.++++|++|++++|.+.+..|..+  ...+++|++++|.++.+|. .++++++|++|++
T Consensus        25 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L  104 (680)
T 1ziw_A           25 TNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHL  104 (680)
T ss_dssp             TTCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CCCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEEC
Confidence            689999999997777666679999999999999998877766543  3688999999999999887 5899999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhh--ccCCCcEeecccCcCC
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SII--QLFVLRYLLLSYSERF  417 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~--~l~~L~~L~l~~~~~~  417 (466)
                      ++|.+.+..|..++++++|++|++++|.+.+..|..++++++|+.|++++|.++.++. .+.  .+++|++|++++|.+.
T Consensus       105 ~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~  184 (680)
T 1ziw_A          105 MSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIK  184 (680)
T ss_dssp             CSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEECTTCCCC
T ss_pred             CCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCCcccccCHHHhhccccccccEEECCCCccc
Confidence            9998766556778999999999999998888888889999999999999999997655 343  4689999999999877


Q ss_pred             CcCCCCe
Q 012324          418 QSLPKPL  424 (466)
Q Consensus       418 ~~~p~~~  424 (466)
                      +..|..+
T Consensus       185 ~~~~~~~  191 (680)
T 1ziw_A          185 EFSPGCF  191 (680)
T ss_dssp             CBCTTGG
T ss_pred             ccChhhh
Confidence            7666543

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.60  E-value=1.6e-14  Score=129.59  Aligned_cols=151  Identities=23%  Similarity=0.228  Sum_probs=100.7

Q ss_pred             cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChh-hhccCCCCeeecccc
Q 012324          267 VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSS-IDRLRRLGYLNLSDC  343 (466)
Q Consensus       267 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l~~~  343 (466)
                      +.++.+++ ....+|..+  .++|++|++++|.+.+..|..+.  .+|++|++++|.++.+|.. +..+++|++|++++|
T Consensus        22 ~~v~c~~~-~l~~ip~~~--~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N   98 (229)
T 3e6j_A           22 TTVDCRSK-RHASVPAGI--PTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN   98 (229)
T ss_dssp             TEEECTTS-CCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEeEccCC-CcCccCCCC--CCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCC
Confidence            34555444 334445433  25566666666665554443322  3556666666777777654 577888888888887


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCCcCC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      .+.+..+..+..+++|++|++++|.+. .+|..+..+++|+.|++++|.++.+|. .+..+++|+.|++++|++....+
T Consensus        99 ~l~~l~~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~c~c~  176 (229)
T 3e6j_A           99 QLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGNPWDCECR  176 (229)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCC-SCCTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECTTSCBCTTBG
T ss_pred             cCCccChhHhCcchhhCeEeccCCccc-ccCcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEeeCCCccCCcc
Confidence            755444455677888888888886655 677788888888888888888887764 57778888888888887665443

>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=99.60  E-value=2.2e-15  Score=153.55  Aligned_cols=151  Identities=19%  Similarity=0.137  Sum_probs=69.3

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChh-hhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSS-IDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l  340 (466)
                      ++|++|++++|.+.+..|..+.++++|++|++++|.+.+..|..+.  .++++|++++|.+..+|+. ++++++|++|++
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  105 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL  105 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEEC
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEEC
Confidence            3455555555544444444455555555555555544443333222  2445555555555544433 445555555555


Q ss_pred             ccccccc-ccccccCCCCCCCEEEecCCCCCCCCC-cccCCCCCCcEEEccCCCcc-ccchhhhccCCCcEeecccC
Q 012324          341 SDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAKTNIE-RIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       341 ~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~p-~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l~~L~~L~l~~~  414 (466)
                      ++|.+.+ ..|..++++++|++|++++|...+.+| ..+..+++|+.|++++|.++ ..|..++.+++|++|+++.|
T Consensus       106 s~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n  182 (549)
T 2z81_A          106 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLS  182 (549)
T ss_dssp             TTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECS
T ss_pred             CCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccC
Confidence            5544332 233344455555555555544333333 24444555555555555444 23444444444444444433

>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=99.60  E-value=1.5e-15  Score=145.87  Aligned_cols=177  Identities=18%  Similarity=0.130  Sum_probs=141.8

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChh-hhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSS-IDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l  340 (466)
                      ++|++|++++|.+.+..+..+.++++|++|++++|.+.+..|..+.  .++++|++++|.++.+|.. ++++++|++|++
T Consensus        52 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  131 (353)
T 2z80_A           52 EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNL  131 (353)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEEC
T ss_pred             ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEEC
Confidence            5899999999977665555799999999999999988776665444  5889999999999999886 889999999999


Q ss_pred             ccccccccccc--ccCCCCCCCEEEecCCCCCC-CCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeecccCcC
Q 012324          341 SDCKRLKSLPS--SLCKLKSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       341 ~~~~~~~~~p~--~~~~l~~L~~L~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~~~~  416 (466)
                      ++|.+. .+|.  .+..+++|++|++++|+... ..|..+..+++|+.|++++|.++.+ |..+.++++|++|++++|.+
T Consensus       132 ~~n~l~-~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l  210 (353)
T 2z80_A          132 LGNPYK-TLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQH  210 (353)
T ss_dssp             TTCCCS-SSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCS
T ss_pred             CCCCCc-ccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCcc
Confidence            998754 5665  68899999999999985444 4467899999999999999999955 77899999999999999985


Q ss_pred             CCcCCCCeEeccCCCCccccccCccccC
Q 012324          417 FQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       417 ~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                       +.+|....  ..+++|+.+....+.+.
T Consensus       211 -~~~~~~~~--~~~~~L~~L~L~~n~l~  235 (353)
T 2z80_A          211 -ILLLEIFV--DVTSSVECLELRDTDLD  235 (353)
T ss_dssp             -TTHHHHHH--HHTTTEEEEEEESCBCT
T ss_pred             -ccchhhhh--hhcccccEEECCCCccc
Confidence             44554322  23455555554444333

>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=99.60  E-value=2.8e-15  Score=152.85  Aligned_cols=162  Identities=20%  Similarity=0.169  Sum_probs=143.0

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCC--CCCcccEEeecCccCcc--cChhhhcc
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI--SSGNVCWLFLRGTAIEE--LPSSIDRL  332 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~l~~L~l~~~~i~~--lp~~l~~l  332 (466)
                      +..+.++++|++|++++|.+.+..|..+.++++|++|++++|.+.+..|..  ...++++|++++|.++.  .|..++++
T Consensus        43 ~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l  122 (549)
T 2z81_A           43 HGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNL  122 (549)
T ss_dssp             SSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTC
T ss_pred             hhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhcc
Confidence            456899999999999999888877888999999999999999988776653  34688999999999984  46789999


Q ss_pred             CCCCeeeccccccccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhh-hccCCCcEee
Q 012324          333 RRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESI-IQLFVLRYLL  410 (466)
Q Consensus       333 ~~L~~L~l~~~~~~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l-~~l~~L~~L~  410 (466)
                      ++|++|++++|...+.+| ..+.++++|++|++++|.+.+..|..++.+++|+.|+++.|.+..+|..+ ..+++|++|+
T Consensus       123 ~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~  202 (549)
T 2z81_A          123 TNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLE  202 (549)
T ss_dssp             TTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSBSTTHHHHHHHSTTTBSEEE
T ss_pred             CCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCcccccchhhHhhcccccEEE
Confidence            999999999998677776 57899999999999999999999999999999999999999998887754 5699999999


Q ss_pred             cccCcCCC
Q 012324          411 LSYSERFQ  418 (466)
Q Consensus       411 l~~~~~~~  418 (466)
                      +++|.+.+
T Consensus       203 L~~n~l~~  210 (549)
T 2z81_A          203 LRDTNLAR  210 (549)
T ss_dssp             EESCBCTT
T ss_pred             ccCCcccc
Confidence            99998766

>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=99.59  E-value=1.1e-14  Score=147.37  Aligned_cols=158  Identities=17%  Similarity=0.155  Sum_probs=139.6

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCC--ccCC--CCCCcccEEeecCccCcc-cChh-hhccCC
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLK--RLPE--ISSGNVCWLFLRGTAIEE-LPSS-IDRLRR  334 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~--~~~~--~~~~~l~~L~l~~~~i~~-lp~~-l~~l~~  334 (466)
                      ..+++|++|++++|.+.+.+|..+..+++|++|++++|.+.+  .+|.  ....++++|++++|.+.. +|.. +..+++
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~  400 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS  400 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTT
T ss_pred             hhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCcc
Confidence            688999999999999888899999999999999999999876  4453  344689999999999997 8875 788999


Q ss_pred             CCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchh-hhccCCCcEeeccc
Q 012324          335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPES-IIQLFVLRYLLLSY  413 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~-l~~l~~L~~L~l~~  413 (466)
                      |++|++++|.+.+..|..+.  ++|+.|++++|.+. .+|..+..+++|+.|++++|.++.+|.. +.++++|++|++++
T Consensus       401 L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~N~l~-~ip~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~l~~  477 (520)
T 2z7x_B          401 LLSLNMSSNILTDTIFRCLP--PRIKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHT  477 (520)
T ss_dssp             CCEEECCSSCCCGGGGGSCC--TTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEECcCCCCCcchhhhhc--ccCCEEECCCCccc-ccchhhhcCCCCCEEECCCCcCCccCHHHhccCCcccEEECcC
Confidence            99999999998888887664  79999999998776 8898888999999999999999999986 88999999999999


Q ss_pred             CcCCCcCC
Q 012324          414 SERFQSLP  421 (466)
Q Consensus       414 ~~~~~~~p  421 (466)
                      |++.++.+
T Consensus       478 N~~~c~c~  485 (520)
T 2z7x_B          478 NPWDCSCP  485 (520)
T ss_dssp             SCBCCCHH
T ss_pred             CCCcccCC
Confidence            99876443

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

Probab=99.59  E-value=2.2e-14  Score=142.28  Aligned_cols=169  Identities=19%  Similarity=0.141  Sum_probs=103.5

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      ++.+++|++|++++|.+.+ ++  ++++++|++|++++|.+.+ +|-.....+++|++++|.++.++  ++.+++|++|+
T Consensus        81 ~~~l~~L~~L~Ls~N~l~~-~~--~~~l~~L~~L~L~~N~l~~-l~~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~  154 (457)
T 3bz5_A           81 LSQNTNLTYLACDSNKLTN-LD--VTPLTKLTYLNCDTNKLTK-LDVSQNPLLTYLNCARNTLTEID--VSHNTQLTELD  154 (457)
T ss_dssp             CTTCTTCSEEECCSSCCSC-CC--CTTCTTCCEEECCSSCCSC-CCCTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEE
T ss_pred             cccCCCCCEEECcCCCCce-ee--cCCCCcCCEEECCCCcCCe-ecCCCCCcCCEEECCCCccceec--cccCCcCCEEE
Confidence            5555666666666664443 22  5566666666666665444 33333345566666666666553  55666666666


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +++|...+.+  .++.+++|++|++++|.+.+ +|  +..+++|+.|++++|.++.++  ++.+++|++|++++|.+.+ 
T Consensus       155 l~~n~~~~~~--~~~~l~~L~~L~ls~n~l~~-l~--l~~l~~L~~L~l~~N~l~~~~--l~~l~~L~~L~Ls~N~l~~-  226 (457)
T 3bz5_A          155 CHLNKKITKL--DVTPQTQLTTLDCSFNKITE-LD--VSQNKLLNRLNCDTNNITKLD--LNQNIQLTFLDCSSNKLTE-  226 (457)
T ss_dssp             CTTCSCCCCC--CCTTCTTCCEEECCSSCCCC-CC--CTTCTTCCEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSC-
T ss_pred             CCCCCccccc--ccccCCcCCEEECCCCccce-ec--cccCCCCCEEECcCCcCCeec--cccCCCCCEEECcCCcccc-
Confidence            6666545554  25566777777777665554 44  666777777777777777663  6777778888887777555 


Q ss_pred             CCCCeEeccCCCCccccccCccccCCCC
Q 012324          420 LPKPLFLARGCLALEPFLGIIEDTQRIP  447 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l~~~~~~~~~~~  447 (466)
                      +|     +..+++|+.+....+.+..++
T Consensus       227 ip-----~~~l~~L~~L~l~~N~l~~~~  249 (457)
T 3bz5_A          227 ID-----VTPLTQLTYFDCSVNPLTELD  249 (457)
T ss_dssp             CC-----CTTCTTCSEEECCSSCCSCCC
T ss_pred             cC-----ccccCCCCEEEeeCCcCCCcC
Confidence            55     456677777666555555443

>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=99.59  E-value=4.2e-15  Score=130.20  Aligned_cols=152  Identities=15%  Similarity=0.129  Sum_probs=125.9

Q ss_pred             cccCcccCEEecCCCCCCCccCC-CCCCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEE
Q 012324          284 IFNLEFLTKLDLSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVL  362 (466)
Q Consensus       284 l~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L  362 (466)
                      ...+++|++|++++|.+. .+|. ....++++|++++|.+..++ .+..+++|++|++++|.+.+..|..++.+++|++|
T Consensus        40 ~~~l~~L~~L~l~~n~i~-~l~~l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           40 EAQMNSLTYITLANINVT-DLTGIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             HHHHHTCCEEEEESSCCS-CCTTGGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEE
T ss_pred             hhhcCCccEEeccCCCcc-ChHHHhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEE
Confidence            467899999999998876 4443 33468899999999877665 78899999999999999887788889999999999


Q ss_pred             EecCCCCCCCCCcccCCCCCCcEEEccCCC-ccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCcc
Q 012324          363 NLCGCSNLQRLPECLGQLSSPIILNLAKTN-IERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIE  441 (466)
Q Consensus       363 ~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~-l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~  441 (466)
                      ++++|.+.+..|..+..+++|+.|++++|. ++.+| .+.++++|++|++++|.+.. +|    .+.++++|+.+....+
T Consensus       118 ~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~i~~-~~----~l~~l~~L~~L~l~~N  191 (197)
T 4ezg_A          118 DISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDGVHD-YR----GIEDFPKLNQLYAFSQ  191 (197)
T ss_dssp             ECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBCCCC-CT----TGGGCSSCCEEEECBC
T ss_pred             EecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCCCcC-hH----HhccCCCCCEEEeeCc
Confidence            999999888888899999999999999998 77887 68999999999999998554 44    3556777777766555


Q ss_pred             cc
Q 012324          442 DT  443 (466)
Q Consensus       442 ~~  443 (466)
                      .+
T Consensus       192 ~i  193 (197)
T 4ezg_A          192 TI  193 (197)
T ss_dssp             --
T ss_pred             cc
Confidence            43

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

Probab=99.58  E-value=6.1e-15  Score=150.96  Aligned_cols=182  Identities=19%  Similarity=0.193  Sum_probs=134.5

Q ss_pred             CCCCCCcEEEcCCCCCCccc--CcccccCcccCEEecCCCCCCCccCC-CCCCcccEEeecCccCcccCh--hhhccCCC
Q 012324          261 PRLNNLVILNLRSGKSLKSL--PSGIFNLEFLTKLDLSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPS--SIDRLRRL  335 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~--~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~l~~~~i~~lp~--~l~~l~~L  335 (466)
                      ..+++|++|++++|.+.+..  |..+..+++|++|++++|.+.+..+. ....+++.|++++|.+...+.  .+..+++|
T Consensus       344 ~~~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L  423 (570)
T 2z63_A          344 VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNL  423 (570)
T ss_dssp             CBCTTCCEEECCSSCCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTC
T ss_pred             ccCCCCCEEeCcCCccCccccccccccccCccCEEECCCCccccccccccccCCCCEEEccCCccccccchhhhhcCCCC
Confidence            56778888888877655432  55667788888888888775554333 223577888888888876543  57788888


Q ss_pred             CeeeccccccccccccccCCCCCCCEEEecCCCCC-CCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeeccc
Q 012324          336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL-QRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSY  413 (466)
Q Consensus       336 ~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~-~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~  413 (466)
                      ++|++++|...+..|..+..+++|++|++++|.+. +.+|..+..+++|+.|++++|.++.+ |..+.++++|++|++++
T Consensus       424 ~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  503 (570)
T 2z63_A          424 IYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS  503 (570)
T ss_dssp             CEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCC
Confidence            88888888877777777888888888888888776 56788888888888888888888855 66788888889999888


Q ss_pred             CcCCCcCCCCeEeccCCCCccccccCccccCC
Q 012324          414 SERFQSLPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       414 ~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      |.+.+..|..+   .++++|+.+....+.+..
T Consensus       504 n~l~~~~~~~~---~~l~~L~~L~l~~N~~~~  532 (570)
T 2z63_A          504 NQLKSVPDGIF---DRLTSLQKIWLHTNPWDC  532 (570)
T ss_dssp             SCCSCCCTTTT---TTCTTCCEEECCSSCBCC
T ss_pred             CcCCCCCHHHh---hcccCCcEEEecCCcccC
Confidence            87665444333   466777777776666543

>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=99.58  E-value=1.1e-14  Score=148.84  Aligned_cols=174  Identities=25%  Similarity=0.267  Sum_probs=143.0

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      .+..+++|+.|++++|.+ ..++ .+..+++|+.|+|++|.+.+..|.....+|+.|++++|.+..+| .+..+++|++|
T Consensus        38 ~~~~L~~L~~L~l~~n~i-~~l~-~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L  114 (605)
T 1m9s_A           38 TQNELNSIDQIIANNSDI-KSVQ-GIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSL  114 (605)
T ss_dssp             CHHHHTTCCCCBCTTCCC-CCCT-TGGGCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEE
T ss_pred             chhcCCCCCEEECcCCCC-CCCh-HHccCCCCCEEEeeCCCCCCChhhccCCCCCEEECcCCCCCCCh-hhccCCCCCEE
Confidence            356789999999999854 4455 48899999999999999887666455578899999999999877 68999999999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ++++|.+.. ++ .+..+++|+.|++++|.+.+.  ..+..+++|+.|+|++|.+..++. +..+++|+.|+|++|.+.+
T Consensus       115 ~Ls~N~l~~-l~-~l~~l~~L~~L~Ls~N~l~~l--~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~i~~  189 (605)
T 1m9s_A          115 SLEHNGISD-IN-GLVHLPQLESLYLGNNKITDI--TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHISD  189 (605)
T ss_dssp             ECTTSCCCC-CG-GGGGCTTCSEEECCSSCCCCC--GGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCB
T ss_pred             EecCCCCCC-Cc-cccCCCccCEEECCCCccCCc--hhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcCCCCCC
Confidence            999998554 44 589999999999999887764  578999999999999999998766 9999999999999998654


Q ss_pred             cCCCCeEeccCCCCccccccCccccCC
Q 012324          419 SLPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       419 ~~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                       +|    .+..|++|+.+....+.+..
T Consensus       190 -l~----~l~~l~~L~~L~L~~N~l~~  211 (605)
T 1m9s_A          190 -LR----ALAGLKNLDVLELFSQECLN  211 (605)
T ss_dssp             -CG----GGTTCTTCSEEECCSEEEEC
T ss_pred             -Ch----HHccCCCCCEEEccCCcCcC
Confidence             43    25667777776665554433

>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=99.58  E-value=1.7e-14  Score=143.90  Aligned_cols=171  Identities=18%  Similarity=0.156  Sum_probs=102.1

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      +..+++|+.|++++|.+.+ ++ .+..+++|++|++++|.+.+..+......++.|++++|.+..++. +..+++|++|+
T Consensus       217 ~~~l~~L~~L~l~~n~l~~-~~-~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~  293 (466)
T 1o6v_A          217 LGILTNLDELSLNGNQLKD-IG-TLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLE  293 (466)
T ss_dssp             GGGCTTCCEEECCSSCCCC-CG-GGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEE
T ss_pred             ccccCCCCEEECCCCCccc-ch-hhhcCCCCCEEECCCCccccchhhhcCCCCCEEECCCCccCcccc-ccCCCccCeEE
Confidence            4445666666666664333 22 355666666666666665555443334566777777776666555 66667777777


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +++|.+.+ ++. ++.+++|+.|++++|.+.+..|  +..+++|+.|++++|.++.++ .+.++++|+.|++++|.+.+.
T Consensus       294 L~~n~l~~-~~~-~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n~l~~~  368 (466)
T 1o6v_A          294 LNENQLED-ISP-ISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNKVSDVS-SLANLTNINWLSAGHNQISDL  368 (466)
T ss_dssp             CCSSCCSC-CGG-GGGCTTCSEEECCSSCCSCCGG--GGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCBC
T ss_pred             cCCCcccC-chh-hcCCCCCCEEECcCCcCCCchh--hccCccCCEeECCCCccCCch-hhccCCCCCEEeCCCCccCcc
Confidence            77665433 332 5666777777777766655444  556677777777777666653 466677777777777765554


Q ss_pred             CCCCeEeccCCCCccccccCcccc
Q 012324          420 LPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                      .|     +..+++|+.+....+.+
T Consensus       369 ~~-----~~~l~~L~~L~l~~n~~  387 (466)
T 1o6v_A          369 TP-----LANLTRITQLGLNDQAW  387 (466)
T ss_dssp             GG-----GTTCTTCCEEECCCEEE
T ss_pred             ch-----hhcCCCCCEEeccCCcc
Confidence            44     34555555544444433

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

Probab=99.58  E-value=5.5e-14  Score=139.43  Aligned_cols=146  Identities=21%  Similarity=0.130  Sum_probs=116.3

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCc-cCcccChhhhccCCCCee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGT-AIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~-~i~~lp~~l~~l~~L~~L  338 (466)
                      ++.+++|++|++++|.+.+ +|  ++.+++|++|++++|.+.+ ++......+++|++++| .+..+  .++.+++|++|
T Consensus       102 ~~~l~~L~~L~L~~N~l~~-l~--~~~l~~L~~L~l~~N~l~~-l~l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L  175 (457)
T 3bz5_A          102 VTPLTKLTYLNCDTNKLTK-LD--VSQNPLLTYLNCARNTLTE-IDVSHNTQLTELDCHLNKKITKL--DVTPQTQLTTL  175 (457)
T ss_dssp             CTTCTTCCEEECCSSCCSC-CC--CTTCTTCCEEECTTSCCSC-CCCTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEE
T ss_pred             cCCCCcCCEEECCCCcCCe-ec--CCCCCcCCEEECCCCccce-eccccCCcCCEEECCCCCccccc--ccccCCcCCEE
Confidence            7788999999999886655 44  7888999999999988766 45445567899999888 45555  36788899999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ++++|.+.+ +|  ++.+++|+.|++++|.+.+.   .++.+++|+.|++++|+++.+|  ++.+++|++|++++|.+.+
T Consensus       176 ~ls~n~l~~-l~--l~~l~~L~~L~l~~N~l~~~---~l~~l~~L~~L~Ls~N~l~~ip--~~~l~~L~~L~l~~N~l~~  247 (457)
T 3bz5_A          176 DCSFNKITE-LD--VSQNKLLNRLNCDTNNITKL---DLNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSVNPLTE  247 (457)
T ss_dssp             ECCSSCCCC-CC--CTTCTTCCEEECCSSCCSCC---CCTTCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSC
T ss_pred             ECCCCccce-ec--cccCCCCCEEECcCCcCCee---ccccCCCCCEEECcCCcccccC--ccccCCCCEEEeeCCcCCC
Confidence            999887544 55  77888999999988877654   3788899999999999998887  7888999999999888665


Q ss_pred             c
Q 012324          419 S  419 (466)
Q Consensus       419 ~  419 (466)
                      .
T Consensus       248 ~  248 (457)
T 3bz5_A          248 L  248 (457)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.58  E-value=1.2e-14  Score=155.43  Aligned_cols=163  Identities=21%  Similarity=0.134  Sum_probs=132.7

Q ss_pred             CCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccC-CCCC--CcccEEeecCccCccc-ChhhhccCCCCee
Q 012324          263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLP-EISS--GNVCWLFLRGTAIEEL-PSSIDRLRRLGYL  338 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~~~~--~~l~~L~l~~~~i~~l-p~~l~~l~~L~~L  338 (466)
                      .+++++|++++|.+.+..|..+.++++|++|++++|...+.++ ..+.  .+|++|++++|.+..+ |..++++++|++|
T Consensus        23 p~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L  102 (844)
T 3j0a_A           23 LNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFEL  102 (844)
T ss_dssp             CTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCE
T ss_pred             CCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEe
Confidence            4789999999998877778889999999999999997777764 3333  4779999999999866 7788999999999


Q ss_pred             eccccccccccccc--cCCCCCCCEEEecCCCCCCCCC-cccCCCCCCcEEEccCCCcc-ccchhhhcc--CCCcEeecc
Q 012324          339 NLSDCKRLKSLPSS--LCKLKSLKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAKTNIE-RIPESIIQL--FVLRYLLLS  412 (466)
Q Consensus       339 ~l~~~~~~~~~p~~--~~~l~~L~~L~l~~~~~~~~~p-~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l--~~L~~L~l~  412 (466)
                      ++++|.+.+..|..  ++++++|++|++++|.+.+..| ..++++++|+.|++++|.++ ..+..+..+  ++|+.|+++
T Consensus       103 ~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~L~  182 (844)
T 3j0a_A          103 RLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLA  182 (844)
T ss_dssp             ECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCEEC
T ss_pred             eCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceEECC
Confidence            99998877766655  8899999999999988876654 57899999999999999988 456677776  888888888


Q ss_pred             cCcCCCcCCCCeE
Q 012324          413 YSERFQSLPKPLF  425 (466)
Q Consensus       413 ~~~~~~~~p~~~~  425 (466)
                      .|.+.+..|..+.
T Consensus       183 ~n~l~~~~~~~~~  195 (844)
T 3j0a_A          183 ANSLYSRVSVDWG  195 (844)
T ss_dssp             CSBSCCCCCCCCC
T ss_pred             CCccccccccchh
Confidence            8888777766543

>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=99.57  E-value=3e-14  Score=149.04  Aligned_cols=158  Identities=22%  Similarity=0.196  Sum_probs=76.7

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccC-cccccCcccCEEecCCCCCCCccCCCC--------------------------C-
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEIS--------------------------S-  309 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~--------------------------~-  309 (466)
                      ..+..+++|+.|++++|.+.+.+| ..+..+++|++|++++|.+.+..+..+                          . 
T Consensus       399 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~~~  478 (680)
T 1ziw_A          399 DAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQP  478 (680)
T ss_dssp             TTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCTTTT
T ss_pred             hhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCccccc
Confidence            446667777777777776655554 456666667777776665433222211                          1 


Q ss_pred             -CcccEEeecCccCcccCh-hhhccCCCCeeecccccccccc----c----cccCCCCCCCEEEecCCCCCCCCCcccCC
Q 012324          310 -GNVCWLFLRGTAIEELPS-SIDRLRRLGYLNLSDCKRLKSL----P----SSLCKLKSLKVLNLCGCSNLQRLPECLGQ  379 (466)
Q Consensus       310 -~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~~~~~~~~~----p----~~~~~l~~L~~L~l~~~~~~~~~p~~l~~  379 (466)
                       .+++.|++++|+++.+|+ .+..+++|++|++++|.+.+..    |    ..+..+++|+.|++++|.+....+..|..
T Consensus       479 l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~  558 (680)
T 1ziw_A          479 LRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKD  558 (680)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCCEEECCSSCCCCCCTTTTTT
T ss_pred             CCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCCEEECCCCCCCCCCHHHccc
Confidence             234444444444444433 2344444555554444432211    0    11344445555555444433221223445


Q ss_pred             CCCCcEEEccCCCccccchh-hhccCCCcEeecccCc
Q 012324          380 LSSPIILNLAKTNIERIPES-IIQLFVLRYLLLSYSE  415 (466)
Q Consensus       380 l~~L~~L~l~~~~l~~lp~~-l~~l~~L~~L~l~~~~  415 (466)
                      +++|+.|++++|+++.+|.. +.++++|+.|++++|.
T Consensus       559 l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L~~N~  595 (680)
T 1ziw_A          559 LFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNL  595 (680)
T ss_dssp             CTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             ccCcceeECCCCCCCcCCHhHhCCCCCCCEEECCCCc
Confidence            55555555555555544432 3445555555555554

>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=99.57  E-value=4.8e-16  Score=148.17  Aligned_cols=156  Identities=21%  Similarity=0.208  Sum_probs=82.6

Q ss_pred             CCCCCCCcEEEcCCCCCCcc-cCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCc-cCc--ccChhhhccC
Q 012324          260 MPRLNNLVILNLRSGKSLKS-LPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGT-AIE--ELPSSIDRLR  333 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~-~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~-~i~--~lp~~l~~l~  333 (466)
                      +..+++|++|++++|.+.+. +|..+..+++|++|++++|.+.+..+..+  ..++++|++++| .++  .++..+..++
T Consensus        89 ~~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~  168 (336)
T 2ast_B           89 HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCS  168 (336)
T ss_dssp             CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCT
T ss_pred             hccCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCC
Confidence            34556666666666654433 55555566666666666665444333221  245566666665 454  2444455566


Q ss_pred             CCCeeecccc-ccccc-cccccCCCC-CCCEEEecCC--CCC-CCCCcccCCCCCCcEEEccCCC-cc-ccchhhhccCC
Q 012324          334 RLGYLNLSDC-KRLKS-LPSSLCKLK-SLKVLNLCGC--SNL-QRLPECLGQLSSPIILNLAKTN-IE-RIPESIIQLFV  405 (466)
Q Consensus       334 ~L~~L~l~~~-~~~~~-~p~~~~~l~-~L~~L~l~~~--~~~-~~~p~~l~~l~~L~~L~l~~~~-l~-~lp~~l~~l~~  405 (466)
                      +|++|++++| .+... ++..+..++ +|++|++++|  .+. ..+|..+..+++|+.|++++|. ++ ..+..+.++++
T Consensus       169 ~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~  248 (336)
T 2ast_B          169 RLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNY  248 (336)
T ss_dssp             TCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTT
T ss_pred             CCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCC
Confidence            6666666665 43322 344455555 5666666555  222 3344445555566666666555 33 34445555566


Q ss_pred             CcEeecccCc
Q 012324          406 LRYLLLSYSE  415 (466)
Q Consensus       406 L~~L~l~~~~  415 (466)
                      |++|++++|.
T Consensus       249 L~~L~l~~~~  258 (336)
T 2ast_B          249 LQHLSLSRCY  258 (336)
T ss_dssp             CCEEECTTCT
T ss_pred             CCEeeCCCCC
Confidence            6666665554

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

Probab=99.57  E-value=1.6e-15  Score=143.29  Aligned_cols=179  Identities=15%  Similarity=-0.029  Sum_probs=115.0

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChh------------
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSS------------  328 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~------------  328 (466)
                      ..+++|++|++++|.+.+..|..+..+++|++|++++|.+.+..+.....++++|++++|.++.+|..            
T Consensus        31 ~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~L~~L~l~~n~  110 (317)
T 3o53_A           31 QSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNN  110 (317)
T ss_dssp             TTGGGCSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEEEEEECTTCCEEECCSSC
T ss_pred             ccCCCCCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCccccccCCCCcCEEECCCCc
Confidence            34679999999999887777778999999999999999987766644446778888888877765421            


Q ss_pred             -----hhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCccc-CCCCCCcEEEccCCCccccchhhhc
Q 012324          329 -----IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL-GQLSSPIILNLAKTNIERIPESIIQ  402 (466)
Q Consensus       329 -----l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l-~~l~~L~~L~l~~~~l~~lp~~l~~  402 (466)
                           ...+++|++|++++|.+.+..+..++.+++|++|++++|.+.+..|..+ ..+++|+.|++++|.++.++. ...
T Consensus       111 l~~~~~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-~~~  189 (317)
T 3o53_A          111 ISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG-QVV  189 (317)
T ss_dssp             CSEEEECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC-CCC
T ss_pred             cCCcCccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCccccc-ccc
Confidence                 0123445555555555444444455566666666666666655545444 356667777777777666543 234


Q ss_pred             cCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          403 LFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       403 l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      +++|++|++++|.+. .+|..+   .++++|+.+....+.+.
T Consensus       190 l~~L~~L~Ls~N~l~-~l~~~~---~~l~~L~~L~L~~N~l~  227 (317)
T 3o53_A          190 FAKLKTLDLSSNKLA-FMGPEF---QSAAGVTWISLRNNKLV  227 (317)
T ss_dssp             CTTCCEEECCSSCCC-EECGGG---GGGTTCSEEECTTSCCC
T ss_pred             cccCCEEECCCCcCC-cchhhh---cccCcccEEECcCCccc
Confidence            677777777776644 344433   34455555554444333

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.57  E-value=9e-14  Score=122.78  Aligned_cols=152  Identities=24%  Similarity=0.267  Sum_probs=123.2

Q ss_pred             cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccChh-hhccCCCCeeecccc
Q 012324          267 VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPSS-IDRLRRLGYLNLSDC  343 (466)
Q Consensus       267 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l~~~  343 (466)
                      +.++.+++. ...+|..+  .++|++|++++|.+.+..+..+  ..++++|++++|.++.+|.. +..+++|++|++++|
T Consensus        10 ~~v~c~~~~-l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n   86 (208)
T 2o6s_A           10 TTVECYSQG-RTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTN   86 (208)
T ss_dssp             TEEECCSSC-CSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEecCCC-ccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCC
Confidence            456666663 34456443  5689999999998776555433  36889999999999988775 589999999999999


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchh-hhccCCCcEeecccCcCCCcCC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPES-IIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~-l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      .+.+..+..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.++.+|.. +..+++|++|++++|++.+..|
T Consensus        87 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  165 (208)
T 2o6s_A           87 QLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCP  165 (208)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBCCCTT
T ss_pred             cCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCeecCCC
Confidence            86655455578999999999999888776666789999999999999999988764 7889999999999998776554

>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=99.57  E-value=1.1e-14  Score=124.02  Aligned_cols=135  Identities=24%  Similarity=0.190  Sum_probs=103.0

Q ss_pred             CCCcEEEcCCCCCC-cccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccc
Q 012324          264 NNLVILNLRSGKSL-KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSD  342 (466)
Q Consensus       264 ~~L~~L~l~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~  342 (466)
                      ++|+.|++++|.+. +.+|..+..+++|++|++++|.                      ++.+ ..++.+++|++|++++
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~----------------------l~~~-~~~~~l~~L~~L~Ls~   80 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVG----------------------LISV-SNLPKLPKLKKLELSE   80 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSC----------------------CCCC-SSCCCCSSCCEEEEES
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCC----------------------CCCh-hhhccCCCCCEEECcC
Confidence            78999999998766 6788878888889888888865                      3333 4566777888888888


Q ss_pred             cccccccccccCCCCCCCEEEecCCCCCCC-CCcccCCCCCCcEEEccCCCccccch----hhhccCCCcEeecccCcCC
Q 012324          343 CKRLKSLPSSLCKLKSLKVLNLCGCSNLQR-LPECLGQLSSPIILNLAKTNIERIPE----SIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       343 ~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~-~p~~l~~l~~L~~L~l~~~~l~~lp~----~l~~l~~L~~L~l~~~~~~  417 (466)
                      |.+.+.+|..+..+++|++|++++|.+.+. .+..+..+++|+.|++++|.++.+|.    .+..+++|++|++++|.. 
T Consensus        81 N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~-  159 (168)
T 2ell_A           81 NRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRED-  159 (168)
T ss_dssp             CCCCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTS-
T ss_pred             CcCchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCCh-
Confidence            776666666666688888888888766543 22678888889999999888887776    678889999999988873 


Q ss_pred             CcCCC
Q 012324          418 QSLPK  422 (466)
Q Consensus       418 ~~~p~  422 (466)
                      ..+|.
T Consensus       160 ~~~~~  164 (168)
T 2ell_A          160 QEAPD  164 (168)
T ss_dssp             CBCCS
T ss_pred             hhccc
Confidence            34443

>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=99.56  E-value=2.3e-14  Score=146.46  Aligned_cols=159  Identities=19%  Similarity=0.194  Sum_probs=138.6

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCC--ccCCC--CCCcccEEeecCccCcc-cChh-hhccCC
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLK--RLPEI--SSGNVCWLFLRGTAIEE-LPSS-IDRLRR  334 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~--~~~~~--~~~~l~~L~l~~~~i~~-lp~~-l~~l~~  334 (466)
                      ..+++|++|++++|.+.+.+|..+.++++|++|++++|.+.+  .+|..  ...++++|++++|.+.. +|.. +..+++
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~  429 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAES  429 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTT
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCccc
Confidence            688999999999999888899999999999999999998775  33433  34688999999999996 8875 788999


Q ss_pred             CCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchh-hhccCCCcEeeccc
Q 012324          335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPES-IIQLFVLRYLLLSY  413 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~-l~~l~~L~~L~l~~  413 (466)
                      |++|++++|.+.+..|..+.  ++|++|++++|.+. .+|..+..+++|+.|++++|+++.+|.. +..+++|+.|++++
T Consensus       430 L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N~l~-~ip~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~l~~  506 (562)
T 3a79_B          430 ILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNNRIM-SIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHD  506 (562)
T ss_dssp             CCEEECCSSCCCGGGGSSCC--TTCSEEECCSSCCC-CCCTTTTSSCCCSEEECCSSCCCCCCTTSTTTCTTCCCEECCS
T ss_pred             CCEEECCCCCCCcchhhhhc--CcCCEEECCCCcCc-ccChhhcCCCCCCEEECCCCCCCCCCHHHHhcCCCCCEEEecC
Confidence            99999999998887777554  79999999998665 7888888999999999999999999987 89999999999999


Q ss_pred             CcCCCcCCC
Q 012324          414 SERFQSLPK  422 (466)
Q Consensus       414 ~~~~~~~p~  422 (466)
                      |++.++.|.
T Consensus       507 N~~~c~c~~  515 (562)
T 3a79_B          507 NPWDCTCPG  515 (562)
T ss_dssp             CCBCCCHHH
T ss_pred             CCcCCCcch
Confidence            998765543

>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=99.56  E-value=2.8e-14  Score=124.30  Aligned_cols=130  Identities=21%  Similarity=0.157  Sum_probs=95.9

Q ss_pred             CEEecCCCCCCCccCCCCCCcccEEeecCccCcccChh--hhccCCCCeeeccccccccccccccCCCCCCCEEEecCCC
Q 012324          291 TKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSS--IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       291 ~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~--l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~  368 (466)
                      ++++++++.+ +.+|..+...+++|++++|.++.++..  ++.+++|++|++++|.+.+..|..+..+++|++|++++|.
T Consensus        11 ~~l~~s~~~l-~~ip~~~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~   89 (192)
T 1w8a_A           11 TTVDCTGRGL-KEIPRDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             TEEECTTSCC-SSCCSCCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEEcCCCCc-CcCccCCCCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCc
Confidence            4566665543 445555555666677777777776653  7788888888888887777667778888888888888887


Q ss_pred             CCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeecccCcCCCcCC
Q 012324          369 NLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       369 ~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      +.+..|..+..+++|+.|++++|.++.+ |..+..+++|++|++++|++.+..+
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c~  143 (192)
T 1w8a_A           90 IKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCH  143 (192)
T ss_dssp             CCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGG
T ss_pred             CCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCccCcCc
Confidence            7777777788888888888888888844 6677888888888888887766544

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.56  E-value=1.3e-14  Score=133.13  Aligned_cols=152  Identities=20%  Similarity=0.167  Sum_probs=127.4

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      .+..+++|++|++++|.+ ..++ .+..+++|++|++++|.+.+..+-....+++.|++++|.++.+|....  ++|++|
T Consensus        36 ~~~~l~~L~~L~l~~n~i-~~l~-~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~L~~N~l~~l~~~~~--~~L~~L  111 (263)
T 1xeu_A           36 SQKELSGVQNFNGDNSNI-QSLA-GMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLKNLNGIPS--ACLSRL  111 (263)
T ss_dssp             CHHHHTTCSEEECTTSCC-CCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCSCCTTCCC--SSCCEE
T ss_pred             chhhcCcCcEEECcCCCc-ccch-HHhhCCCCCEEECCCCccCCChhhccCCCCCEEECCCCccCCcCcccc--CcccEE
Confidence            467889999999999954 4566 588999999999999987776553444688999999999998876433  899999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCC
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ++++|.+.+ ++ .+..+++|+.|++++|.+.+ +| .+..+++|+.|++++|.++.+ ..+..+++|+.|++++|++..
T Consensus       112 ~L~~N~l~~-~~-~l~~l~~L~~L~Ls~N~i~~-~~-~l~~l~~L~~L~L~~N~i~~~-~~l~~l~~L~~L~l~~N~~~~  186 (263)
T 1xeu_A          112 FLDNNELRD-TD-SLIHLKNLEILSIRNNKLKS-IV-MLGFLSKLEVLDLHGNEITNT-GGLTRLKKVNWIDLTGQKCVN  186 (263)
T ss_dssp             ECCSSCCSB-SG-GGTTCTTCCEEECTTSCCCB-CG-GGGGCTTCCEEECTTSCCCBC-TTSTTCCCCCEEEEEEEEEEC
T ss_pred             EccCCccCC-Ch-hhcCcccccEEECCCCcCCC-Ch-HHccCCCCCEEECCCCcCcch-HHhccCCCCCEEeCCCCcccC
Confidence            999987544 44 58999999999999987765 44 788999999999999999987 678999999999999998665


Q ss_pred             c
Q 012324          419 S  419 (466)
Q Consensus       419 ~  419 (466)
                      .
T Consensus       187 ~  187 (263)
T 1xeu_A          187 E  187 (263)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.56  E-value=4.3e-14  Score=125.96  Aligned_cols=151  Identities=18%  Similarity=0.110  Sum_probs=126.7

Q ss_pred             cCEEecCCCCCCCccCCCCCCcccEEeecCccCcccCh--hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCC
Q 012324          290 LTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPS--SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGC  367 (466)
Q Consensus       290 L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~--~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~  367 (466)
                      -+.+++++|.+ ..+|..+...++.|++++|.++.++.  .+..+++|++|++++|.+.+..+..+..+++|++|++++|
T Consensus        13 ~~~l~~s~n~l-~~iP~~~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N   91 (220)
T 2v70_A           13 GTTVDCSNQKL-NKIPEHIPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSN   91 (220)
T ss_dssp             TTEEECCSSCC-SSCCSCCCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CCEeEeCCCCc-ccCccCCCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCC
Confidence            35899998775 45788777888999999999998743  4899999999999999877666668999999999999999


Q ss_pred             CCCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          368 SNLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       368 ~~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      .+.+..|..|..+++|+.|++++|.++.+ |..+.++++|++|++++|.+.+..|..+.   ++++|+.+....+.+.
T Consensus        92 ~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~---~l~~L~~L~L~~N~l~  166 (220)
T 2v70_A           92 RLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFD---TLHSLSTLNLLANPFN  166 (220)
T ss_dssp             CCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSCCCCBCTTTTT---TCTTCCEEECCSCCEE
T ss_pred             ccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCcCCEECHHHhc---CCCCCCEEEecCcCCc
Confidence            98888788899999999999999999966 66899999999999999998776676654   5566666666555554

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

Probab=99.56  E-value=1.4e-14  Score=148.35  Aligned_cols=163  Identities=23%  Similarity=0.256  Sum_probs=141.6

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCC---CCCcccEEeecCccCcc-cChhhhccCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI---SSGNVCWLFLRGTAIEE-LPSSIDRLRR  334 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~~l~~L~l~~~~i~~-lp~~l~~l~~  334 (466)
                      .+..+++|++|++++|.+.+. |..+..+++|++|++++|.+.+..|..   ...++++|++++|.+.. .|..+..+++
T Consensus       368 ~~~~~~~L~~L~l~~n~l~~~-~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  446 (570)
T 2z63_A          368 SDFGTTSLKYLDLSFNGVITM-SSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSS  446 (570)
T ss_dssp             HHHTCSCCCEEECCSCSEEEE-EEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTT
T ss_pred             cccccCccCEEECCCCccccc-cccccccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCCcccccchhhhhcCCc
Confidence            456789999999999965554 444889999999999999987766632   33578999999999985 5667899999


Q ss_pred             CCeeeccccccc-cccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecc
Q 012324          335 LGYLNLSDCKRL-KSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLS  412 (466)
Q Consensus       335 L~~L~l~~~~~~-~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~  412 (466)
                      |++|++++|.+. +.+|..+..+++|++|++++|.+.+..|..+..+++|+.|++++|+++.+|. .+.++++|+.|+++
T Consensus       447 L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  526 (570)
T 2z63_A          447 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH  526 (570)
T ss_dssp             CCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC
T ss_pred             CcEEECcCCcCccccchhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCCCcCCCCCHHHhhcccCCcEEEec
Confidence            999999999876 5789899999999999999999998889999999999999999999997765 68899999999999


Q ss_pred             cCcCCCcCCC
Q 012324          413 YSERFQSLPK  422 (466)
Q Consensus       413 ~~~~~~~~p~  422 (466)
                      +|++.+..|.
T Consensus       527 ~N~~~~~~~~  536 (570)
T 2z63_A          527 TNPWDCSCPR  536 (570)
T ss_dssp             SSCBCCCTTT
T ss_pred             CCcccCCCcc
Confidence            9999887775

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

Probab=99.56  E-value=2.3e-14  Score=153.36  Aligned_cols=170  Identities=20%  Similarity=0.152  Sum_probs=144.1

Q ss_pred             CCCCCCCCCCCcEEEcCCCCCCccc-CcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcc-cChh--h
Q 012324          256 NPMLMPRLNNLVILNLRSGKSLKSL-PSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEE-LPSS--I  329 (466)
Q Consensus       256 ~~~~~~~l~~L~~L~l~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~-lp~~--l  329 (466)
                      .+..|.++++|++|++++|...+.+ |..+.++++|++|++++|.+.+..|..+.  .+|++|++++|.+.. +|..  +
T Consensus        40 ~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~  119 (844)
T 3j0a_A           40 TASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYF  119 (844)
T ss_dssp             CSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCC
T ss_pred             ChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccc
Confidence            3456899999999999999777777 77899999999999999998887776654  588999999999985 5554  8


Q ss_pred             hccCCCCeeeccccccccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCC--CCCcEEEccCCCcc-ccchhhhccCC
Q 012324          330 DRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQL--SSPIILNLAKTNIE-RIPESIIQLFV  405 (466)
Q Consensus       330 ~~l~~L~~L~l~~~~~~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l--~~L~~L~l~~~~l~-~lp~~l~~l~~  405 (466)
                      +++++|++|++++|.+.+..+ ..++++++|++|++++|.+.+..|..+..+  ++|+.|+++.|.+. ..|..++.+++
T Consensus       120 ~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~L~~n~l~~~~~~~~~~~~~  199 (844)
T 3j0a_A          120 RNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMN  199 (844)
T ss_dssp             SSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCEECCSBSCCCCCCCCCSSSC
T ss_pred             cccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceEECCCCccccccccchhhcCC
Confidence            999999999999998766554 578999999999999999988888888877  89999999999988 56666666655


Q ss_pred             ------CcEeecccCcCCCcCCCCeE
Q 012324          406 ------LRYLLLSYSERFQSLPKPLF  425 (466)
Q Consensus       406 ------L~~L~l~~~~~~~~~p~~~~  425 (466)
                            |+.|++++|.+.+..|..+.
T Consensus       200 ~~~~~~L~~L~Ls~n~l~~~~~~~~~  225 (844)
T 3j0a_A          200 PFRNMVLEILDVSGNGWTVDITGNFS  225 (844)
T ss_dssp             TTTTCCBSEEBCSSCCSSTTTTSGGG
T ss_pred             ccccCceeEEecCCCcCchhHHHHHH
Confidence                  99999999988777776544

>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=99.56  E-value=3.2e-16  Score=159.13  Aligned_cols=172  Identities=19%  Similarity=0.116  Sum_probs=131.4

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCC-------------CCCccCCCC------------------
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS-------------KLKRLPEIS------------------  308 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~-------------~~~~~~~~~------------------  308 (466)
                      +..+++|+.|++++|. ...+|..+++|++|+.|++++|.             ..+..|..+                  
T Consensus       345 ~~~~~~L~~L~Ls~n~-L~~Lp~~i~~l~~L~~L~l~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~  423 (567)
T 1dce_A          345 SATDEQLFRCELSVEK-STVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLD  423 (567)
T ss_dssp             CSTTTTSSSCCCCHHH-HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             cccCccceeccCChhh-HHhhHHHHHHHHHHHHhccccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccc
Confidence            3678999999999985 45889999999999999987664             222222110                  


Q ss_pred             ----------------CCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCC
Q 012324          309 ----------------SGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQR  372 (466)
Q Consensus       309 ----------------~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~  372 (466)
                                      ...++.|++++|.++.+|. ++.+++|++|++++|.+. .+|..++.+++|+.|++++|.+.+ 
T Consensus       424 ~L~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~~-  500 (567)
T 1dce_A          424 DLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLR-ALPPALAALRCLEVLQASDNALEN-  500 (567)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCC-CCCGGGGGCTTCCEEECCSSCCCC-
T ss_pred             hhhhhhhhcccccccCccCceEEEecCCCCCCCcC-ccccccCcEeecCccccc-ccchhhhcCCCCCEEECCCCCCCC-
Confidence                            0135679999999998887 889999999999988755 888889999999999999987765 


Q ss_pred             CCcccCCCCCCcEEEccCCCcccc--chhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCcccc
Q 012324          373 LPECLGQLSSPIILNLAKTNIERI--PESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPF  436 (466)
Q Consensus       373 ~p~~l~~l~~L~~L~l~~~~l~~l--p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l  436 (466)
                      +| .++.+++|+.|++++|.++.+  |..++++++|+.|++++|++.+..|........+++|+.+
T Consensus       501 lp-~l~~l~~L~~L~Ls~N~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L  565 (567)
T 1dce_A          501 VD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI  565 (567)
T ss_dssp             CG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             Cc-ccCCCCCCcEEECCCCCCCCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCcc
Confidence            67 788899999999999999877  7889999999999999988766554332222334555443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.54  E-value=7.8e-14  Score=141.02  Aligned_cols=149  Identities=21%  Similarity=0.229  Sum_probs=92.3

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecc
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLS  341 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~  341 (466)
                      .+++|++|++++|.+.+ +|. +.+  +|++|++++|.+.+ +|. ...+|+.|++++|.++.+|.   .+++|++|+++
T Consensus        98 ~l~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls~N~l~~-lp~-~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls  168 (571)
T 3cvr_A           98 LPASLEYLDACDNRLST-LPE-LPA--SLKHLDVDNNQLTM-LPE-LPALLEYINADNNQLTMLPE---LPTSLEVLSVR  168 (571)
T ss_dssp             CCTTCCEEECCSSCCSC-CCC-CCT--TCCEEECCSSCCSC-CCC-CCTTCCEEECCSSCCSCCCC---CCTTCCEEECC
T ss_pred             ccCCCCEEEccCCCCCC-cch-hhc--CCCEEECCCCcCCC-CCC-cCccccEEeCCCCccCcCCC---cCCCcCEEECC
Confidence            34666666666665444 555 433  66666666666554 444 45566667776666666665   45667777777


Q ss_pred             ccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCC-------cEEEccCCCccccchhhhccCCCcEeecccC
Q 012324          342 DCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSP-------IILNLAKTNIERIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       342 ~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L-------~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~  414 (466)
                      +|.+.+ +|. +.  ++|+.|++++|.+. .+|. +..  +|       +.|++++|.++.+|..+.++++|+.|++++|
T Consensus       169 ~N~L~~-lp~-l~--~~L~~L~Ls~N~L~-~lp~-~~~--~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L~~N  240 (571)
T 3cvr_A          169 NNQLTF-LPE-LP--ESLEALDVSTNLLE-SLPA-VPV--RNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDN  240 (571)
T ss_dssp             SSCCSC-CCC-CC--TTCCEEECCSSCCS-SCCC-CC----------CCEEEECCSSCCCCCCGGGGGSCTTEEEECCSS
T ss_pred             CCCCCC-cch-hh--CCCCEEECcCCCCC-chhh-HHH--hhhcccccceEEecCCCcceecCHHHhcCCCCCEEEeeCC
Confidence            665433 555 44  66777777776544 5555 443  55       7777777777777776767777777777777


Q ss_pred             cCCCcCCCCeEec
Q 012324          415 ERFQSLPKPLFLA  427 (466)
Q Consensus       415 ~~~~~~p~~~~~l  427 (466)
                      ++.+.+|..+..+
T Consensus       241 ~l~~~~p~~l~~l  253 (571)
T 3cvr_A          241 PLSSRIRESLSQQ  253 (571)
T ss_dssp             SCCHHHHHHHHHH
T ss_pred             cCCCcCHHHHHHh
Confidence            7766666554433

>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=99.54  E-value=1.2e-13  Score=123.98  Aligned_cols=150  Identities=21%  Similarity=0.175  Sum_probs=124.1

Q ss_pred             cCEEecCCCCCCCccCCCCCCcccEEeecCccCccc-ChhhhccCCCCeeeccccccccccc-cccCCCCCCCEEEecCC
Q 012324          290 LTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGC  367 (466)
Q Consensus       290 L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~l-p~~l~~l~~L~~L~l~~~~~~~~~p-~~~~~l~~L~~L~l~~~  367 (466)
                      -+.++.+++. ...+|..+..++++|++++|.+..+ |..+..+++|++|++++|.+ +.+| ..+..+++|++|++++|
T Consensus        21 ~~~v~c~~~~-l~~ip~~~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l-~~i~~~~~~~l~~L~~L~Ls~N   98 (229)
T 3e6j_A           21 GTTVDCRSKR-HASVPAGIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQL-GALPVGVFDSLTQLTVLDLGTN   98 (229)
T ss_dssp             TTEEECTTSC-CSSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC-CCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEeEccCCC-cCccCCCCCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCC-CCcChhhcccCCCcCEEECCCC
Confidence            4567887654 5678887889999999999999977 56789999999999999986 4555 55789999999999999


Q ss_pred             CCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          368 SNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       368 ~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      .+....+..+..+++|+.|++++|.++.+|..+..+++|++|++++|.+. .+|...  +.++++|+.+....+.+.
T Consensus        99 ~l~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~l~-~~~~~~--~~~l~~L~~L~l~~N~~~  172 (229)
T 3e6j_A           99 QLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQLK-SIPHGA--FDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSCCC-CCCTTT--TTTCTTCCEEECTTSCBC
T ss_pred             cCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCcCC-ccCHHH--HhCCCCCCEEEeeCCCcc
Confidence            88876667789999999999999999999999999999999999999865 455432  346677777777666654

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.54  E-value=4.2e-14  Score=142.98  Aligned_cols=155  Identities=20%  Similarity=0.198  Sum_probs=125.8

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      ++|++|++++|.+. .+|   ..+++|++|++++|.+.+ +|. +..++++|++++|.++.+|.   .+++|++|++++|
T Consensus        80 ~~L~~L~Ls~N~l~-~ip---~~l~~L~~L~Ls~N~l~~-ip~-l~~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N  150 (571)
T 3cvr_A           80 PQITVLEITQNALI-SLP---ELPASLEYLDACDNRLST-LPE-LPASLKHLDVDNNQLTMLPE---LPALLEYINADNN  150 (571)
T ss_dssp             TTCSEEECCSSCCS-CCC---CCCTTCCEEECCSSCCSC-CCC-CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSS
T ss_pred             CCCCEEECcCCCCc-ccc---cccCCCCEEEccCCCCCC-cch-hhcCCCEEECCCCcCCCCCC---cCccccEEeCCCC
Confidence            78999999999665 677   468999999999998776 777 66699999999999999998   7899999999998


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCC-------cEeecccCcC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVL-------RYLLLSYSER  416 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L-------~~L~l~~~~~  416 (466)
                      .+.+ +|.   .+++|++|++++|.+.+ +|. +.  ++|+.|++++|.++.+|. +..  +|       +.|++++|.+
T Consensus       151 ~l~~-lp~---~l~~L~~L~Ls~N~L~~-lp~-l~--~~L~~L~Ls~N~L~~lp~-~~~--~L~~~~~~L~~L~Ls~N~l  219 (571)
T 3cvr_A          151 QLTM-LPE---LPTSLEVLSVRNNQLTF-LPE-LP--ESLEALDVSTNLLESLPA-VPV--RNHHSEETEIFFRCRENRI  219 (571)
T ss_dssp             CCSC-CCC---CCTTCCEEECCSSCCSC-CCC-CC--TTCCEEECCSSCCSSCCC-CC----------CCEEEECCSSCC
T ss_pred             ccCc-CCC---cCCCcCEEECCCCCCCC-cch-hh--CCCCEEECcCCCCCchhh-HHH--hhhcccccceEEecCCCcc
Confidence            8554 776   57899999999987766 777 66  899999999999999988 654  67       9999999885


Q ss_pred             CCcCCCCeEeccCCCCccccccCccc
Q 012324          417 FQSLPKPLFLARGCLALEPFLGIIED  442 (466)
Q Consensus       417 ~~~~p~~~~~l~~~~~L~~l~~~~~~  442 (466)
                      . .+|..++.   +++|+.+....+.
T Consensus       220 ~-~lp~~l~~---l~~L~~L~L~~N~  241 (571)
T 3cvr_A          220 T-HIPENILS---LDPTCTIILEDNP  241 (571)
T ss_dssp             C-CCCGGGGG---SCTTEEEECCSSS
T ss_pred             e-ecCHHHhc---CCCCCEEEeeCCc
Confidence            4 68887765   4455555444443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.54  E-value=4.6e-14  Score=135.82  Aligned_cols=154  Identities=18%  Similarity=0.113  Sum_probs=121.0

Q ss_pred             CCCcEEEcCCCCCCcccCcccc-cCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccCCCCeee
Q 012324          264 NNLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLRRLGYLN  339 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~-~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~  339 (466)
                      +.++.|+|++|.+.+..+..+. ++++|++|++++|.+.+..+..+.  .+|++|++++|.++.++. .+..+++|++|+
T Consensus        39 ~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  118 (361)
T 2xot_A           39 SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLL  118 (361)
T ss_dssp             TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEE
Confidence            4688999999977766666666 899999999999887766555433  578999999999998766 578899999999


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCccc---CCCCCCcEEEccCCCccccch-hhhccCC--CcEeeccc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL---GQLSSPIILNLAKTNIERIPE-SIIQLFV--LRYLLLSY  413 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l---~~l~~L~~L~l~~~~l~~lp~-~l~~l~~--L~~L~l~~  413 (466)
                      +++|.+....|..+..+++|+.|++++|.+...-+..+   ..+++|+.|++++|.++.+|. .+..++.  |+.|++++
T Consensus       119 L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~~~l~~l~l~~  198 (361)
T 2xot_A          119 LYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHN  198 (361)
T ss_dssp             CCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCCCCCCHHHHHHSCHHHHTTEECCS
T ss_pred             CCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCCccCHHHhhhccHhhcceEEecC
Confidence            99988777777788899999999999977665333334   578999999999999998874 6777776  48889988


Q ss_pred             CcCC
Q 012324          414 SERF  417 (466)
Q Consensus       414 ~~~~  417 (466)
                      |++.
T Consensus       199 N~~~  202 (361)
T 2xot_A          199 NPLE  202 (361)
T ss_dssp             SCEE
T ss_pred             CCcc
Confidence            8653

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.54  E-value=9.2e-14  Score=121.04  Aligned_cols=127  Identities=23%  Similarity=0.262  Sum_probs=108.7

Q ss_pred             CEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCC
Q 012324          291 TKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL  370 (466)
Q Consensus       291 ~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~  370 (466)
                      ++++++++. +..+|..+..++++|++++|.++.+|..+..+++|++|++++|.+.+..+..+..+++|++|++++|.+.
T Consensus        13 ~~l~~~~~~-l~~ip~~~~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~   91 (193)
T 2wfh_A           13 TVVRCSNKG-LKVLPKGIPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLR   91 (193)
T ss_dssp             TEEECTTSC-CSSCCSCCCTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             CEEEcCCCC-CCcCCCCCCCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccC
Confidence            466777655 3456666667788888888999999999999999999999999877666677999999999999999888


Q ss_pred             CCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCC
Q 012324          371 QRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       371 ~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ...|..|..+++|+.|++++|.++.+|. .+..+++|++|++++|++..
T Consensus        92 ~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~C  140 (193)
T 2wfh_A           92 CIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLYC  140 (193)
T ss_dssp             BCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCEEC
T ss_pred             EeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCeec
Confidence            8878889999999999999999998887 58889999999999998654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.53  E-value=1.4e-14  Score=120.72  Aligned_cols=126  Identities=23%  Similarity=0.183  Sum_probs=99.1

Q ss_pred             CCCcEEEcCCCCCC-cccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccc
Q 012324          264 NNLVILNLRSGKSL-KSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSD  342 (466)
Q Consensus       264 ~~L~~L~l~~~~~~-~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~  342 (466)
                      ++|+.|++++|.+. +.+|..+..+++|++|++++|.                      ++.+ ..++.+++|++|++++
T Consensus        17 ~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~----------------------l~~~-~~~~~l~~L~~L~Ls~   73 (149)
T 2je0_A           17 SDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVG----------------------LTSI-ANLPKLNKLKKLELSD   73 (149)
T ss_dssp             GGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSC----------------------CCCC-TTCCCCTTCCEEECCS
T ss_pred             ccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCC----------------------CCCc-hhhhcCCCCCEEECCC
Confidence            67888888888776 6788877888888888888854                      3333 4567788888888888


Q ss_pred             cccccccccccCCCCCCCEEEecCCCCCCC-CCcccCCCCCCcEEEccCCCccccch----hhhccCCCcEeecc
Q 012324          343 CKRLKSLPSSLCKLKSLKVLNLCGCSNLQR-LPECLGQLSSPIILNLAKTNIERIPE----SIIQLFVLRYLLLS  412 (466)
Q Consensus       343 ~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~-~p~~l~~l~~L~~L~l~~~~l~~lp~----~l~~l~~L~~L~l~  412 (466)
                      |.+.+.+|..++.+++|++|++++|.+.+. .|..++.+++|+.|++++|.++.+|.    .+..+++|+.|+++
T Consensus        74 n~i~~~~~~~~~~l~~L~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           74 NRVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             SCCCSCTHHHHHHCTTCCEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CcccchHHHHhhhCCCCCEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            887666777677788888888888776652 34778888999999999998887765    67888999998876

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.53  E-value=1.1e-13  Score=123.17  Aligned_cols=131  Identities=21%  Similarity=0.194  Sum_probs=117.1

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChh-hhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSS-IDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l  340 (466)
                      ++++.|++++|.+.+..+..+..+++|++|++++|.+.+..|..+.  .+|++|++++|.++.+|.. +..+++|++|++
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L  111 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLL  111 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEEC
Confidence            6899999999977766666899999999999999998877676554  5889999999999999876 588999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      ++|.+.+..|..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+.
T Consensus       112 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  165 (220)
T 2v9t_B          112 NANKINCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQNPFI  165 (220)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCCCCCEeCHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCCCCcC
Confidence            999987777888999999999999999888877778999999999999999987

>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=99.50  E-value=8.7e-14  Score=144.12  Aligned_cols=155  Identities=23%  Similarity=0.188  Sum_probs=125.3

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccCh-hhhccCCCCeeec
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPS-SIDRLRRLGYLNL  340 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l  340 (466)
                      +++++|+|++|.+.+..+.+|.++++|++|++++|.+.+..|..+.  .+|++|++++|+++.+|. .+.++++|++|++
T Consensus        52 ~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~L  131 (635)
T 4g8a_A           52 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  131 (635)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEEC
T ss_pred             cCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEEC
Confidence            4899999999977766667899999999999999987665554443  578999999999999886 4789999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCC-CCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCc----EeecccC
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQ-RLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLR----YLLLSYS  414 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~-~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~----~L~l~~~  414 (466)
                      ++|.+.+..+..++++++|++|++++|.+.. ..|..++.+++|+.|++++|.++.+ |..+..+++++    .++++.|
T Consensus       132 s~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~l~~~~~~~~ls~n  211 (635)
T 4g8a_A          132 VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLN  211 (635)
T ss_dssp             TTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCCEEECTTC
T ss_pred             CCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCccccccccccccchhhhhhhhhhhhcccC
Confidence            9988655545568999999999999988754 5688889999999999999999965 44666665544    5777777


Q ss_pred             cCCC
Q 012324          415 ERFQ  418 (466)
Q Consensus       415 ~~~~  418 (466)
                      .+..
T Consensus       212 ~l~~  215 (635)
T 4g8a_A          212 PMNF  215 (635)
T ss_dssp             CCCE
T ss_pred             cccc
Confidence            6443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.50  E-value=2.8e-13  Score=130.33  Aligned_cols=151  Identities=23%  Similarity=0.232  Sum_probs=125.6

Q ss_pred             cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC---CCcccEEeecCccCcccCh-hhhccCCCCeeeccc
Q 012324          267 VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS---SGNVCWLFLRGTAIEELPS-SIDRLRRLGYLNLSD  342 (466)
Q Consensus       267 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~---~~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~~  342 (466)
                      +.++++++. ...+|..+  .+.+++|++++|.+.+..+..+   ..+|++|++++|+++.++. .+.++++|++|++++
T Consensus        21 ~~l~c~~~~-l~~iP~~~--~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~   97 (361)
T 2xot_A           21 NILSCSKQQ-LPNVPQSL--PSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS   97 (361)
T ss_dssp             TEEECCSSC-CSSCCSSC--CTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEEeCCCC-cCccCccC--CCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCC
Confidence            578888874 45577654  3568999999998777666543   3678999999999998875 689999999999999


Q ss_pred             cccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhh----hccCCCcEeecccCcCCC
Q 012324          343 CKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESI----IQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       343 ~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l----~~l~~L~~L~l~~~~~~~  418 (466)
                      |.+....+..+..+++|++|++++|.+....|..|..+++|+.|++++|.++.+|..+    ..+++|+.|++++|.+. 
T Consensus        98 N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~l~-  176 (361)
T 2xot_A           98 NHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLK-  176 (361)
T ss_dssp             SCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSCCC-
T ss_pred             CcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCCCC-
Confidence            9866655567899999999999999988888889999999999999999999998765    67999999999999855 


Q ss_pred             cCC
Q 012324          419 SLP  421 (466)
Q Consensus       419 ~~p  421 (466)
                      .+|
T Consensus       177 ~l~  179 (361)
T 2xot_A          177 KLP  179 (361)
T ss_dssp             CCC
T ss_pred             ccC
Confidence            455

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.50  E-value=3.4e-14  Score=130.27  Aligned_cols=165  Identities=18%  Similarity=0.060  Sum_probs=127.9

Q ss_pred             CCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC-CCCCcccEEeecCccCcccChhhhccCCCCeeecc
Q 012324          263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLS  341 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~  341 (466)
                      +.++..+++.++.+.+ ++ .+..+++|++|++++|.+.. ++. ....++++|++++|.++.+|. +..+++|++|+++
T Consensus        18 l~~l~~l~l~~~~i~~-~~-~~~~l~~L~~L~l~~n~i~~-l~~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~   93 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTD-LV-SQKELSGVQNFNGDNSNIQS-LAGMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVN   93 (263)
T ss_dssp             HHHHHHHHHTCSCTTS-EE-CHHHHTTCSEEECTTSCCCC-CTTGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECC
T ss_pred             HHHHHHHHhcCCCccc-cc-chhhcCcCcEEECcCCCccc-chHHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECC
Confidence            4456666676764443 44 47899999999999997654 443 334688999999999999887 9999999999999


Q ss_pred             ccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCC
Q 012324          342 DCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       342 ~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      +|.+. .+|. +.. ++|++|++++|.+.+ ++ .+..+++|+.|++++|.++.++ .+..+++|+.|++++|.+.+.  
T Consensus        94 ~N~l~-~l~~-~~~-~~L~~L~L~~N~l~~-~~-~l~~l~~L~~L~Ls~N~i~~~~-~l~~l~~L~~L~L~~N~i~~~--  165 (263)
T 1xeu_A           94 RNRLK-NLNG-IPS-ACLSRLFLDNNELRD-TD-SLIHLKNLEILSIRNNKLKSIV-MLGFLSKLEVLDLHGNEITNT--  165 (263)
T ss_dssp             SSCCS-CCTT-CCC-SSCCEEECCSSCCSB-SG-GGTTCTTCCEEECTTSCCCBCG-GGGGCTTCCEEECTTSCCCBC--
T ss_pred             CCccC-CcCc-ccc-CcccEEEccCCccCC-Ch-hhcCcccccEEECCCCcCCCCh-HHccCCCCCEEECCCCcCcch--
Confidence            98754 4554 334 999999999987765 44 6999999999999999999886 689999999999999986654  


Q ss_pred             CCeEeccCCCCccccccCccc
Q 012324          422 KPLFLARGCLALEPFLGIIED  442 (466)
Q Consensus       422 ~~~~~l~~~~~L~~l~~~~~~  442 (466)
                      .   .+.++++|+.+....+.
T Consensus       166 ~---~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          166 G---GLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             T---TSTTCCCCCEEEEEEEE
T ss_pred             H---HhccCCCCCEEeCCCCc
Confidence            2   24456666655554443

>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=99.49  E-value=2.8e-14  Score=141.35  Aligned_cols=156  Identities=21%  Similarity=0.214  Sum_probs=90.5

Q ss_pred             HHhhhhhcccCCCCCCCCCCCCCC-------------cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC
Q 012324          243 IHTACNKLIAKTPNPMLMPRLNNL-------------VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS  309 (466)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~l~~L-------------~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~  309 (466)
                      +.+..+...+..  |..++++++|             +.|++++|.+.+ +|.   -.++|++|++++|.+.+ +|.. .
T Consensus        39 L~l~~n~~~~~~--p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~-lp~---~~~~L~~L~l~~n~l~~-lp~~-~  110 (454)
T 1jl5_A           39 YYNAWSEWERNA--PPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSS-LPE---LPPHLESLVASCNSLTE-LPEL-P  110 (454)
T ss_dssp             HHHHHHHHHHTS--CTTSCCCHHHHHHHHHHHHHHTCSEEECTTSCCSC-CCS---CCTTCSEEECCSSCCSS-CCCC-C
T ss_pred             hhccCCcccccC--CcccccchhcchhhhhhhhccCCCEEEecCCcccc-CCC---CcCCCCEEEccCCcCCc-cccc-c
Confidence            344444444433  3456666654             889998886443 554   24688999999888766 5543 2


Q ss_pred             CcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEcc
Q 012324          310 GNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLA  389 (466)
Q Consensus       310 ~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~  389 (466)
                      .++++|++++|.++.+|..   .++|++|++++|.+.+ +| .++++++|++|++++|.+.+ +|..+   .+|+.|+++
T Consensus       111 ~~L~~L~l~~n~l~~l~~~---~~~L~~L~L~~n~l~~-lp-~~~~l~~L~~L~l~~N~l~~-lp~~~---~~L~~L~L~  181 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDL---PPLLEYLGVSNNQLEK-LP-ELQNSSFLKIIDVDNNSLKK-LPDLP---PSLEFIAAG  181 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSC---CTTCCEEECCSSCCSS-CC-CCTTCTTCCEEECCSSCCSC-CCCCC---TTCCEEECC
T ss_pred             CCCcEEECCCCccCcccCC---CCCCCEEECcCCCCCC-Cc-ccCCCCCCCEEECCCCcCcc-cCCCc---ccccEEECc
Confidence            5566666666666655432   1466666666665443 55 36666666666666655443 44322   355555555


Q ss_pred             CCCccccchhhhccCCCcEeecccCcC
Q 012324          390 KTNIERIPESIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       390 ~~~l~~lp~~l~~l~~L~~L~l~~~~~  416 (466)
                      +|.++.+| .++++++|++|++++|.+
T Consensus       182 ~n~l~~l~-~~~~l~~L~~L~l~~N~l  207 (454)
T 1jl5_A          182 NNQLEELP-ELQNLPFLTAIYADNNSL  207 (454)
T ss_dssp             SSCCSSCC-CCTTCTTCCEEECCSSCC
T ss_pred             CCcCCcCc-cccCCCCCCEEECCCCcC
Confidence            55555554 355555555555555543

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.49  E-value=2.2e-15  Score=146.58  Aligned_cols=181  Identities=15%  Similarity=0.021  Sum_probs=109.2

Q ss_pred             CCCCCCcEEEcCCCCCCc----ccCcccccCcccCEEecCCCCCCCccCCCCC---------------CcccEEeecCcc
Q 012324          261 PRLNNLVILNLRSGKSLK----SLPSGIFNLEFLTKLDLSGCSKLKRLPEISS---------------GNVCWLFLRGTA  321 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---------------~~l~~L~l~~~~  321 (466)
                      ..+++|++|++++|.+..    .+|..+..+++|++|++++|.+....+..+.               ..+++|++++|.
T Consensus        91 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~  170 (386)
T 2ca6_A           91 LKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR  170 (386)
T ss_dssp             TTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC
T ss_pred             hhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCC
Confidence            556777777777776655    3566666777777777777765432221111               466777777777


Q ss_pred             Cc--ccC---hhhhccCCCCeeecccccccc-----ccccccCCCCCCCEEEecCCCCC----CCCCcccCCCCCCcEEE
Q 012324          322 IE--ELP---SSIDRLRRLGYLNLSDCKRLK-----SLPSSLCKLKSLKVLNLCGCSNL----QRLPECLGQLSSPIILN  387 (466)
Q Consensus       322 i~--~lp---~~l~~l~~L~~L~l~~~~~~~-----~~p~~~~~l~~L~~L~l~~~~~~----~~~p~~l~~l~~L~~L~  387 (466)
                      ++  .+|   ..+..+++|++|++++|.+..     ..|..+..+++|++|++++|.+.    ..+|..+..+++|+.|+
T Consensus       171 l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~  250 (386)
T 2ca6_A          171 LENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELG  250 (386)
T ss_dssp             CTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEE
T ss_pred             CCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEE
Confidence            65  333   355667777777777766442     23335666777777777776653    45566667777777777


Q ss_pred             ccCCCccc-----cchhhhc--cCCCcEeecccCcCCC----cCCCCeEeccCCCCccccccCcccc
Q 012324          388 LAKTNIER-----IPESIIQ--LFVLRYLLLSYSERFQ----SLPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       388 l~~~~l~~-----lp~~l~~--l~~L~~L~l~~~~~~~----~~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                      +++|.++.     +|..+..  +++|++|++++|.+..    .+|..+.  .+|++|+.+....+.+
T Consensus       251 L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~--~~l~~L~~L~l~~N~l  315 (386)
T 2ca6_A          251 LNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVID--EKMPDLLFLELNGNRF  315 (386)
T ss_dssp             CTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHH--HHCTTCCEEECTTSBS
T ss_pred             CCCCCCchhhHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHH--hcCCCceEEEccCCcC
Confidence            77777662     3455533  6777777777776554    2544331  2345555555444443

>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=99.48  E-value=6.5e-14  Score=119.20  Aligned_cols=136  Identities=23%  Similarity=0.193  Sum_probs=108.1

Q ss_pred             CcccEEeecCccCc--ccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEE
Q 012324          310 GNVCWLFLRGTAIE--ELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILN  387 (466)
Q Consensus       310 ~~l~~L~l~~~~i~--~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~  387 (466)
                      ..++.|++++|.+.  .+|..+..+++|++|++++|.+...  ..+..+++|++|++++|.+.+.+|..+..+++|+.|+
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  101 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLN  101 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEe
Confidence            34555555557777  7888889999999999999985544  6789999999999999998887888888899999999


Q ss_pred             ccCCCccccc--hhhhccCCCcEeecccCcCCCcCCC-CeEeccCCCCccccccCccccCCCCC
Q 012324          388 LAKTNIERIP--ESIIQLFVLRYLLLSYSERFQSLPK-PLFLARGCLALEPFLGIIEDTQRIPH  448 (466)
Q Consensus       388 l~~~~l~~lp--~~l~~l~~L~~L~l~~~~~~~~~p~-~~~~l~~~~~L~~l~~~~~~~~~~~~  448 (466)
                      +++|.++.+|  ..+..+++|++|++++|++.+ +|. ....+.++++|+.+....+....++.
T Consensus       102 Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~-~~~~~~~~~~~l~~L~~L~l~~n~~~~~~~  164 (168)
T 2ell_A          102 LSGNKLKDISTLEPLKKLECLKSLDLFNCEVTN-LNDYRESVFKLLPQLTYLDGYDREDQEAPD  164 (168)
T ss_dssp             CBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGT-STTHHHHHHTTCSSCCEETTEETTSCBCCS
T ss_pred             ccCCccCcchhHHHHhcCCCCCEEEeeCCcCcc-hHHHHHHHHHhCccCcEecCCCCChhhccc
Confidence            9999999876  689999999999999998664 443 11234577788877776665555543

>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=99.46  E-value=2.4e-13  Score=130.17  Aligned_cols=157  Identities=16%  Similarity=0.080  Sum_probs=94.7

Q ss_pred             CCCcEEEcCCCCCCcccC-cccccCcccCEEecCCCCCCCccCCCCCC---cc-cEEeecCccCcccCh-hhhccCCCCe
Q 012324          264 NNLVILNLRSGKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEISSG---NV-CWLFLRGTAIEELPS-SIDRLRRLGY  337 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~~---~l-~~L~l~~~~i~~lp~-~l~~l~~L~~  337 (466)
                      +++++|+|++|.+. .+| ..|.++++|++|+|++|.+.+.+|...+.   .+ +.+.+.+|++..+++ .+..+++|++
T Consensus        30 ~~l~~L~Ls~N~i~-~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~  108 (350)
T 4ay9_X           30 RNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQY  108 (350)
T ss_dssp             TTCSEEEEESCCCS-EECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCE
T ss_pred             CCCCEEEccCCcCC-CcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhcccccc
Confidence            57788888887544 444 45777888888888888777766654432   22 456666677777643 4677778888


Q ss_pred             eeccccccccccccccCCCCC--------------------------CCEEEecCCCCCCCCCcccCCCCCCcEEEcc-C
Q 012324          338 LNLSDCKRLKSLPSSLCKLKS--------------------------LKVLNLCGCSNLQRLPECLGQLSSPIILNLA-K  390 (466)
Q Consensus       338 L~l~~~~~~~~~p~~~~~l~~--------------------------L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~-~  390 (466)
                      |++++|.+....+..+....+                          ++.|++++|.+. .+|.......+|+.+++. +
T Consensus       109 L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~-~i~~~~f~~~~L~~l~l~~~  187 (350)
T 4ay9_X          109 LLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQ-EIHNSAFNGTQLDELNLSDN  187 (350)
T ss_dssp             EEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCC-EECTTSSTTEEEEEEECTTC
T ss_pred             ccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccccccc-CCChhhccccchhHHhhccC
Confidence            877776643322222223333                          445555554433 334333344566666665 3


Q ss_pred             CCccccch-hhhccCCCcEeecccCcCCCcCCCC
Q 012324          391 TNIERIPE-SIIQLFVLRYLLLSYSERFQSLPKP  423 (466)
Q Consensus       391 ~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~  423 (466)
                      |.++.+|. .|.++++|+.|++++|. +..+|..
T Consensus       188 n~l~~i~~~~f~~l~~L~~LdLs~N~-l~~lp~~  220 (350)
T 4ay9_X          188 NNLEELPNDVFHGASGPVILDISRTR-IHSLPSY  220 (350)
T ss_dssp             TTCCCCCTTTTTTEECCSEEECTTSC-CCCCCSS
T ss_pred             CcccCCCHHHhccCcccchhhcCCCC-cCccChh
Confidence            55666665 45677777777777776 4455553

>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=99.45  E-value=1.4e-12  Score=129.11  Aligned_cols=140  Identities=22%  Similarity=0.225  Sum_probs=93.4

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      ++|++|++++|.+.+ +| .++++++|++|++++|.+.+ +|.. ...+++|++++|.++.+| .++.+++|++|++++|
T Consensus       131 ~~L~~L~L~~n~l~~-lp-~~~~l~~L~~L~l~~N~l~~-lp~~-~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l~~N  205 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEK-LP-ELQNSSFLKIIDVDNNSLKK-LPDL-PPSLEFIAAGNNQLEELP-ELQNLPFLTAIYADNN  205 (454)
T ss_dssp             TTCCEEECCSSCCSS-CC-CCTTCTTCCEEECCSSCCSC-CCCC-CTTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSS
T ss_pred             CCCCEEECcCCCCCC-Cc-ccCCCCCCCEEECCCCcCcc-cCCC-cccccEEECcCCcCCcCc-cccCCCCCCEEECCCC
Confidence            578888888776554 66 47788888888888877554 4433 247788888888777776 5777778888887777


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      .+.+ +|..   .++|++|++++|.+. .+| .++.+++|+.|++++|.++.+|..   +++|++|++++|.+.
T Consensus       206 ~l~~-l~~~---~~~L~~L~l~~n~l~-~lp-~~~~l~~L~~L~l~~N~l~~l~~~---~~~L~~L~l~~N~l~  270 (454)
T 1jl5_A          206 SLKK-LPDL---PLSLESIVAGNNILE-ELP-ELQNLPFLTTIYADNNLLKTLPDL---PPSLEALNVRDNYLT  270 (454)
T ss_dssp             CCSS-CCCC---CTTCCEEECCSSCCS-SCC-CCTTCTTCCEEECCSSCCSSCCSC---CTTCCEEECCSSCCS
T ss_pred             cCCc-CCCC---cCcccEEECcCCcCC-ccc-ccCCCCCCCEEECCCCcCCccccc---ccccCEEECCCCccc
Confidence            6443 4432   246777777776554 566 366777777777777777666542   355666666665543

>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=99.44  E-value=4.8e-14  Score=134.30  Aligned_cols=155  Identities=19%  Similarity=0.161  Sum_probs=126.3

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCC-CCC-ccCCC--CCCcccEEeecCc-cCcc--cChhhhcc
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS-KLK-RLPEI--SSGNVCWLFLRGT-AIEE--LPSSIDRL  332 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~-~~~-~~~~~--~~~~l~~L~l~~~-~i~~--lp~~l~~l  332 (466)
                      +..+++|++|++++|.+.+..+..+..+++|++|++++|. +.+ .++..  ...++++|++++| .++.  ++..+..+
T Consensus       114 ~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l  193 (336)
T 2ast_B          114 LSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHV  193 (336)
T ss_dssp             HTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHS
T ss_pred             HhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhc
Confidence            5678999999999998877888888899999999999994 443 24432  3467899999999 8884  67788999


Q ss_pred             C-CCCeeeccccc--cc-cccccccCCCCCCCEEEecCCC-CCCCCCcccCCCCCCcEEEccCCC-cc-ccchhhhccCC
Q 012324          333 R-RLGYLNLSDCK--RL-KSLPSSLCKLKSLKVLNLCGCS-NLQRLPECLGQLSSPIILNLAKTN-IE-RIPESIIQLFV  405 (466)
Q Consensus       333 ~-~L~~L~l~~~~--~~-~~~p~~~~~l~~L~~L~l~~~~-~~~~~p~~l~~l~~L~~L~l~~~~-l~-~lp~~l~~l~~  405 (466)
                      + +|++|++++|.  +. ..+|..+.++++|++|++++|. +....+..+.++++|+.|++++|. +. .....+.++++
T Consensus       194 ~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~  273 (336)
T 2ast_B          194 SETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPT  273 (336)
T ss_dssp             CTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTT
T ss_pred             ccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCC
Confidence            9 99999999984  33 4566777889999999999998 566778889999999999999985 33 22235788999


Q ss_pred             CcEeecccC
Q 012324          406 LRYLLLSYS  414 (466)
Q Consensus       406 L~~L~l~~~  414 (466)
                      |++|++++|
T Consensus       274 L~~L~l~~~  282 (336)
T 2ast_B          274 LKTLQVFGI  282 (336)
T ss_dssp             CCEEECTTS
T ss_pred             CCEEeccCc
Confidence            999999988

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.43  E-value=1.4e-13  Score=144.02  Aligned_cols=143  Identities=22%  Similarity=0.258  Sum_probs=114.4

Q ss_pred             ccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCC
Q 012324          279 SLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKL  356 (466)
Q Consensus       279 ~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l  356 (466)
                      ..+..+..+++|+.|+|++|.+. .+|...  ...|++|+|++|.++.+|..++++++|++|+|++|.+. .+|..++.+
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~l~-~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l  292 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQIF-NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLT-SLPAELGSC  292 (727)
T ss_dssp             -------CCCCCCEEECTTSCCS-CCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCS-SCCSSGGGG
T ss_pred             cChhhhccCCCCcEEECCCCCCC-CCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCC-ccChhhcCC
Confidence            45677889999999999999876 566433  35789999999999999999999999999999999865 889999999


Q ss_pred             CCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-ccchhhhccC-CCcEeecccCcCCCcCCCCe
Q 012324          357 KSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-RIPESIIQLF-VLRYLLLSYSERFQSLPKPL  424 (466)
Q Consensus       357 ~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-~lp~~l~~l~-~L~~L~l~~~~~~~~~p~~~  424 (466)
                      ++|++|++++|.+ +.+|..|+.+++|+.|+|++|.++ .+|..+..+. .+..+++++|.+.+.+|..+
T Consensus       293 ~~L~~L~L~~N~l-~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~~~~p~~l  361 (727)
T 4b8c_D          293 FQLKYFYFFDNMV-TTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEIPLPHER  361 (727)
T ss_dssp             TTCSEEECCSSCC-CCCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC-
T ss_pred             CCCCEEECCCCCC-CccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCcccCcCcccc
Confidence            9999999999766 488989999999999999999999 5566665442 22347899999999999864

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.42  E-value=1.5e-12  Score=111.68  Aligned_cols=130  Identities=21%  Similarity=0.231  Sum_probs=93.0

Q ss_pred             CEEecCCCCCCCccCCCCCCcccEEeecCccCcccChh-hhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCC
Q 012324          291 TKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSS-IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSN  369 (466)
Q Consensus       291 ~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~  369 (466)
                      +.++++++. ...+|......++.|++++|.++.+|.. +..+++|++|++++|.+.+..+..+..+++|++|++++|.+
T Consensus        10 ~~l~~~~~~-l~~~p~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l   88 (177)
T 2o6r_A           10 TEIRCNSKG-LTSVPTGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKL   88 (177)
T ss_dssp             TEEECCSSC-CSSCCTTCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCC-CccCCCCCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCc
Confidence            445555543 2334444445666666666777766654 57888888888888875544445567888888888888877


Q ss_pred             CCCCCcccCCCCCCcEEEccCCCccccchh-hhccCCCcEeecccCcCCCcCC
Q 012324          370 LQRLPECLGQLSSPIILNLAKTNIERIPES-IIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       370 ~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~-l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      .+..+..+..+++|+.|++++|.++.+|.. +..+++|++|++++|++.+..|
T Consensus        89 ~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  141 (177)
T 2o6r_A           89 QSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  141 (177)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCHH
T ss_pred             cccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeeccCc
Confidence            766666678888888888888888877764 4778888888888888766544

>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=99.42  E-value=1.5e-12  Score=134.75  Aligned_cols=183  Identities=21%  Similarity=0.152  Sum_probs=114.2

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC---CcccEEeecCccCccc-ChhhhccCCC
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS---GNVCWLFLRGTAIEEL-PSSIDRLRRL  335 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~~l~~L~l~~~~i~~l-p~~l~~l~~L  335 (466)
                      +..+.+|+.+++..+.. ..++..+..+++|+.+++..+......+...+   ..++.++++.|.+... |..+..+++|
T Consensus       393 ~~~~~~L~~L~~~~~~~-~~~~~~~~~l~~L~~l~l~~~~~~~~~~~~~~~~l~~l~~l~ls~n~l~~~~~~~~~~~~~L  471 (635)
T 4g8a_A          393 DFGTISLKYLDLSFNGV-ITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSL  471 (635)
T ss_dssp             HHSCSCCCEEECCSCSE-EEECSCCTTCTTCCEEECTTSEEESTTSSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTC
T ss_pred             hhhhhhhhhhhcccccc-ccccccccccccccchhhhhccccccccccccccccccccccccccccccccccccccchhh
Confidence            34556777777776643 33444566777777777777665555443322   3457777777777644 3345667777


Q ss_pred             Ceeecccccccc-ccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeeccc
Q 012324          336 GYLNLSDCKRLK-SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSY  413 (466)
Q Consensus       336 ~~L~l~~~~~~~-~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~  413 (466)
                      ++|++++|.... ..|..+..+++|++|++++|.+.+..|..|..+++|+.|++++|+++.++. .+.++++|+.|++++
T Consensus       472 ~~L~Ls~N~~~~~~~~~~~~~l~~L~~L~Ls~N~L~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~  551 (635)
T 4g8a_A          472 EVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL  551 (635)
T ss_dssp             CEEECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCBCCCGGGTTCTTCCEEECTT
T ss_pred             hhhhhhhcccccccCchhhhhccccCEEECCCCccCCcChHHHcCCCCCCEEECCCCcCCCCChhHHhCCCCCCEEECCC
Confidence            777777765433 345566777777777777777666666777777777777777777776543 566777777777777


Q ss_pred             CcCCCcCCCCeEeccCCCCccccccCccccCC
Q 012324          414 SERFQSLPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       414 ~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      |.+.+..|..+..+  .++|+.+....+++..
T Consensus       552 N~l~~~~~~~l~~l--~~~L~~L~L~~Np~~C  581 (635)
T 4g8a_A          552 NHIMTSKKQELQHF--PSSLAFLNLTQNDFAC  581 (635)
T ss_dssp             SCCCBCCSSCTTCC--CTTCCEEECTTCCBCC
T ss_pred             CcCCCCCHHHHHhh--hCcCCEEEeeCCCCcc
Confidence            77666555544322  1345555555555543

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.41  E-value=1.7e-13  Score=143.39  Aligned_cols=149  Identities=23%  Similarity=0.285  Sum_probs=115.4

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChhhhccCC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSSIDRLRR  334 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~l~~l~~  334 (466)
                      +..+..++.|+.|+|++|.+. .+|..+.++++|++|+|++|.+. .+|..+.  .+|++|+|++|.++.+|..++++++
T Consensus       217 ~~~~~~l~~L~~L~Ls~n~l~-~l~~~~~~l~~L~~L~Ls~N~l~-~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~  294 (727)
T 4b8c_D          217 KDSKYDDQLWHALDLSNLQIF-NISANIFKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQ  294 (727)
T ss_dssp             -----CCCCCCEEECTTSCCS-CCCGGGGGCCSCSCCBCTTSCCS-CCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTT
T ss_pred             hhhhccCCCCcEEECCCCCCC-CCChhhcCCCCCCEEEeeCCcCc-ccChhhhCCCCCCEEeCcCCcCCccChhhcCCCC
Confidence            456888999999999999655 78888889999999999999877 7776544  5789999999999999999999999


Q ss_pred             CCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCC-CcEEEccCCCcc-ccchhhhccCCCcEeecc
Q 012324          335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS-PIILNLAKTNIE-RIPESIIQLFVLRYLLLS  412 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~-L~~L~l~~~~l~-~lp~~l~~l~~L~~L~l~  412 (466)
                      |++|++++|.+ +.+|..++.+++|++|++++|.+.+.+|..+..+.. +..+++++|.++ .+|.      .|+.|+++
T Consensus       295 L~~L~L~~N~l-~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~~~~~~~~~~~l~l~~N~l~~~~p~------~l~~l~l~  367 (727)
T 4b8c_D          295 LKYFYFFDNMV-TTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEIPLPH------ERRFIEIN  367 (727)
T ss_dssp             CSEEECCSSCC-CCCCSSTTSCTTCCCEECTTSCCCSHHHHHHHHHHHHHHHHHHHHCCCCCCCCC------C-------
T ss_pred             CCEEECCCCCC-CccChhhhcCCCccEEeCCCCccCCCChHHHhhcchhhhHHhhccCcccCcCcc------ccceeEee
Confidence            99999999874 688988999999999999999999988887765432 234678888887 5554      45666666


Q ss_pred             cC
Q 012324          413 YS  414 (466)
Q Consensus       413 ~~  414 (466)
                      .|
T Consensus       368 ~n  369 (727)
T 4b8c_D          368 TD  369 (727)
T ss_dssp             --
T ss_pred             cc
Confidence            66

>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=99.41  E-value=4.5e-13  Score=114.93  Aligned_cols=130  Identities=21%  Similarity=0.153  Sum_probs=91.9

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCc-ccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLE-FLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~-~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      +.++++|+.|++++|.+. .+|. +..+. +|++|++++|                      .++.+ ..++.+++|++|
T Consensus        15 ~~~~~~L~~L~l~~n~l~-~i~~-~~~~~~~L~~L~Ls~N----------------------~l~~~-~~l~~l~~L~~L   69 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIP-VIEN-LGATLDQFDAIDFSDN----------------------EIRKL-DGFPLLRRLKTL   69 (176)
T ss_dssp             EECTTSCEEEECTTSCCC-SCCC-GGGGTTCCSEEECCSS----------------------CCCEE-CCCCCCSSCCEE
T ss_pred             cCCcCCceEEEeeCCCCc-hhHH-hhhcCCCCCEEECCCC----------------------CCCcc-cccccCCCCCEE
Confidence            455667777777777544 3443 33433 6777776664                      45544 456777888888


Q ss_pred             ecccccccccccccc-CCCCCCCEEEecCCCCCCCCCc--ccCCCCCCcEEEccCCCccccchh----hhccCCCcEeec
Q 012324          339 NLSDCKRLKSLPSSL-CKLKSLKVLNLCGCSNLQRLPE--CLGQLSSPIILNLAKTNIERIPES----IIQLFVLRYLLL  411 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~-~~l~~L~~L~l~~~~~~~~~p~--~l~~l~~L~~L~l~~~~l~~lp~~----l~~l~~L~~L~l  411 (466)
                      ++++|.+. .+|+.+ ..+++|++|++++|.+ +.+|.  .+..+++|+.|++++|.+..+|..    +..+++|+.|++
T Consensus        70 ~Ls~N~l~-~~~~~~~~~l~~L~~L~L~~N~i-~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~  147 (176)
T 1a9n_A           70 LVNNNRIC-RIGEGLDQALPDLTELILTNNSL-VELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDF  147 (176)
T ss_dssp             ECCSSCCC-EECSCHHHHCTTCCEEECCSCCC-CCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             ECCCCccc-ccCcchhhcCCCCCEEECCCCcC-CcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCC
Confidence            88887754 445444 7788888888888765 45665  778888899999998888888775    788899999998


Q ss_pred             ccCcC
Q 012324          412 SYSER  416 (466)
Q Consensus       412 ~~~~~  416 (466)
                      +.|..
T Consensus       148 ~~n~~  152 (176)
T 1a9n_A          148 QKVKL  152 (176)
T ss_dssp             EECCH
T ss_pred             CcCCH
Confidence            88753

>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=99.41  E-value=2.8e-12  Score=131.27  Aligned_cols=76  Identities=24%  Similarity=0.274  Sum_probs=47.2

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecc
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLS  341 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~  341 (466)
                      .+++|++|++++|.+ ..+|.   .+++|++|++++|.+.+ +|. ...+++.|++++|.++.+|..   +++|++|+++
T Consensus        79 ~l~~L~~L~Ls~N~l-~~lp~---~l~~L~~L~Ls~N~l~~-l~~-~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~Ls  149 (622)
T 3g06_A           79 LPPELRTLEVSGNQL-TSLPV---LPPGLLELSIFSNPLTH-LPA-LPSGLCKLWIFGNQLTSLPVL---PPGLQELSVS  149 (622)
T ss_dssp             CCTTCCEEEECSCCC-SCCCC---CCTTCCEEEECSCCCCC-CCC-CCTTCCEEECCSSCCSCCCCC---CTTCCEEECC
T ss_pred             cCCCCCEEEcCCCcC-CcCCC---CCCCCCEEECcCCcCCC-CCC-CCCCcCEEECCCCCCCcCCCC---CCCCCEEECc
Confidence            346677777766643 34554   55667777777665443 333 445667777777777776653   3677777777


Q ss_pred             ccccc
Q 012324          342 DCKRL  346 (466)
Q Consensus       342 ~~~~~  346 (466)
                      +|.+.
T Consensus       150 ~N~l~  154 (622)
T 3g06_A          150 DNQLA  154 (622)
T ss_dssp             SSCCS
T ss_pred             CCcCC
Confidence            77543

>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=99.41  E-value=1.2e-12  Score=113.81  Aligned_cols=125  Identities=20%  Similarity=0.183  Sum_probs=103.1

Q ss_pred             cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCC---CCCcccEEeecCccCccc-ChhhhccCCCCeeeccc
Q 012324          267 VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEI---SSGNVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSD  342 (466)
Q Consensus       267 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~~l~~L~l~~~~i~~l-p~~l~~l~~L~~L~l~~  342 (466)
                      ++++++++.+ +.+|..+..  +|++|++++|.+.+..+..   ...++++|++++|.++.+ |..+.++++|++|++++
T Consensus        11 ~~l~~s~~~l-~~ip~~~~~--~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~   87 (192)
T 1w8a_A           11 TTVDCTGRGL-KEIPRDIPL--HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCC-SSCCSCCCT--TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCc-CcCccCCCC--CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCC
Confidence            6788877744 667765533  7888888888766555532   235778888888999877 66889999999999999


Q ss_pred             cccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc
Q 012324          343 CKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       343 ~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      |.+.+..+..+..+++|++|++++|.+.+..|..+..+++|+.|++++|.+.
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             CcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCcc
Confidence            9987777777899999999999999999888999999999999999999988

>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=99.40  E-value=3.5e-12  Score=130.53  Aligned_cols=78  Identities=24%  Similarity=0.211  Sum_probs=50.0

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhh---cc------
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSID---RL------  332 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~---~l------  332 (466)
                      .+++|++|++++|.+. .+|.   .+++|+.|++++|.+.. +|.. ..+|++|++++|.++.+|..+.   .+      
T Consensus        99 ~l~~L~~L~Ls~N~l~-~l~~---~l~~L~~L~L~~N~l~~-lp~~-l~~L~~L~Ls~N~l~~l~~~~~~L~~L~L~~N~  172 (622)
T 3g06_A           99 LPPGLLELSIFSNPLT-HLPA---LPSGLCKLWIFGNQLTS-LPVL-PPGLQELSVSDNQLASLPALPSELCKLWAYNNQ  172 (622)
T ss_dssp             CCTTCCEEEECSCCCC-CCCC---CCTTCCEEECCSSCCSC-CCCC-CTTCCEEECCSSCCSCCCCCCTTCCEEECCSSC
T ss_pred             CCCCCCEEECcCCcCC-CCCC---CCCCcCEEECCCCCCCc-CCCC-CCCCCEEECcCCcCCCcCCccCCCCEEECCCCC
Confidence            6688999999888544 3554   56777888888776544 4443 2566777777777766554222   22      


Q ss_pred             --------CCCCeeecccccc
Q 012324          333 --------RRLGYLNLSDCKR  345 (466)
Q Consensus       333 --------~~L~~L~l~~~~~  345 (466)
                              ++|++|++++|.+
T Consensus       173 l~~l~~~~~~L~~L~Ls~N~l  193 (622)
T 3g06_A          173 LTSLPMLPSGLQELSVSDNQL  193 (622)
T ss_dssp             CSCCCCCCTTCCEEECCSSCC
T ss_pred             CCCCcccCCCCcEEECCCCCC
Confidence                    6666677766653

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.40  E-value=4.7e-14  Score=137.11  Aligned_cols=162  Identities=17%  Similarity=0.096  Sum_probs=130.8

Q ss_pred             CCCCCCCcEEEcCCCCCCccc----CcccccC---------cccCEEecCCCCCC-CccCC---C--CCCcccEEeecCc
Q 012324          260 MPRLNNLVILNLRSGKSLKSL----PSGIFNL---------EFLTKLDLSGCSKL-KRLPE---I--SSGNVCWLFLRGT  320 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~----~~~l~~l---------~~L~~L~l~~~~~~-~~~~~---~--~~~~l~~L~l~~~  320 (466)
                      +..+++|++|++++|.+....    +..+..+         ++|++|++++|.+. ..+|.   .  ...+++.|++++|
T Consensus       118 l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n  197 (386)
T 2ca6_A          118 LSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQN  197 (386)
T ss_dssp             HHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSS
T ss_pred             HHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCC
Confidence            567799999999999775433    3334444         89999999999876 33442   1  2358899999999


Q ss_pred             cCc------ccChhhhccCCCCeeeccccccc----cccccccCCCCCCCEEEecCCCCCCC----CCccc--CCCCCCc
Q 012324          321 AIE------ELPSSIDRLRRLGYLNLSDCKRL----KSLPSSLCKLKSLKVLNLCGCSNLQR----LPECL--GQLSSPI  384 (466)
Q Consensus       321 ~i~------~lp~~l~~l~~L~~L~l~~~~~~----~~~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l--~~l~~L~  384 (466)
                      .++      -.|..+..+++|++|++++|.+.    ..+|..+..+++|++|++++|.+...    +|..+  +.+++|+
T Consensus       198 ~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~  277 (386)
T 2ca6_A          198 GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQ  277 (386)
T ss_dssp             CCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCC
T ss_pred             CCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeE
Confidence            998      23447889999999999999874    67788889999999999999987765    56666  4499999


Q ss_pred             EEEccCCCccc-----cchhh-hccCCCcEeecccCcCCCcCC
Q 012324          385 ILNLAKTNIER-----IPESI-IQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       385 ~L~l~~~~l~~-----lp~~l-~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      .|++++|.++.     +|..+ .++++|++|++++|++.+..|
T Consensus       278 ~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l~~~~~  320 (386)
T 2ca6_A          278 TLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSEEDD  320 (386)
T ss_dssp             EEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCTTSH
T ss_pred             EEECcCCcCCHHHHHHHHHHHHhcCCCceEEEccCCcCCcchh
Confidence            99999999996     88877 668999999999999876554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.39  E-value=2.8e-13  Score=112.75  Aligned_cols=125  Identities=21%  Similarity=0.116  Sum_probs=97.2

Q ss_pred             cccEEeecCccCc--ccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEc
Q 012324          311 NVCWLFLRGTAIE--ELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNL  388 (466)
Q Consensus       311 ~l~~L~l~~~~i~--~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l  388 (466)
                      .++.|++++|.++  .+|..++.+++|++|++++|.+.+.  ..++.+++|++|++++|.+.+.+|..+..+++|+.|++
T Consensus        18 ~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l   95 (149)
T 2je0_A           18 DVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNL   95 (149)
T ss_dssp             GCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEEC
T ss_pred             cCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEEC
Confidence            3445555556676  7787788999999999999976554  66899999999999999988878888888999999999


Q ss_pred             cCCCccccc--hhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccc
Q 012324          389 AKTNIERIP--ESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFL  437 (466)
Q Consensus       389 ~~~~l~~lp--~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~  437 (466)
                      ++|.++.+|  ..++++++|++|++++|++.+..+-....+..+++|+.+.
T Consensus        96 s~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~  146 (149)
T 2je0_A           96 SGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLD  146 (149)
T ss_dssp             TTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEET
T ss_pred             CCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCccccc
Confidence            999999765  7899999999999999986554331111233455555443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.36  E-value=3.2e-12  Score=129.79  Aligned_cols=120  Identities=22%  Similarity=0.137  Sum_probs=97.3

Q ss_pred             ccCEEecCCCCCCCccCC-CCCCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCC
Q 012324          289 FLTKLDLSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGC  367 (466)
Q Consensus       289 ~L~~L~l~~~~~~~~~~~-~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~  367 (466)
                      .|++|++++|.+.+ +|. ....+|+.|++++|.++.+|..++.+++|++|++++|.+.+ +| .++.+++|+.|++++|
T Consensus       442 ~L~~L~Ls~n~l~~-lp~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~-lp-~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          442 DVRVLHLAHKDLTV-LCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN-VD-GVANLPRLQELLLCNN  518 (567)
T ss_dssp             TCSEEECTTSCCSS-CCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC-CG-GGTTCSSCCEEECCSS
T ss_pred             CceEEEecCCCCCC-CcCccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCC-Cc-ccCCCCCCcEEECCCC
Confidence            46667777766544 443 11235677777778899999999999999999999998655 77 7999999999999999


Q ss_pred             CCCCCC-CcccCCCCCCcEEEccCCCccccchhh----hccCCCcEeec
Q 012324          368 SNLQRL-PECLGQLSSPIILNLAKTNIERIPESI----IQLFVLRYLLL  411 (466)
Q Consensus       368 ~~~~~~-p~~l~~l~~L~~L~l~~~~l~~lp~~l----~~l~~L~~L~l  411 (466)
                      .+.+.. |..++.+++|+.|++++|.++.+|+.+    ..+++|+.|++
T Consensus       519 ~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          519 RLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEEC
T ss_pred             CCCCCCCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccCC
Confidence            888776 999999999999999999999777643    44899999864

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

Probab=99.33  E-value=6.7e-14  Score=134.73  Aligned_cols=158  Identities=16%  Similarity=0.073  Sum_probs=85.1

Q ss_pred             CCCC-CCcEEEcCCCCCCcccCcccccC-----cccCEEecCCCCCCCccCCC------CC-CcccEEeecCccCcccCh
Q 012324          261 PRLN-NLVILNLRSGKSLKSLPSGIFNL-----EFLTKLDLSGCSKLKRLPEI------SS-GNVCWLFLRGTAIEELPS  327 (466)
Q Consensus       261 ~~l~-~L~~L~l~~~~~~~~~~~~l~~l-----~~L~~L~l~~~~~~~~~~~~------~~-~~l~~L~l~~~~i~~lp~  327 (466)
                      ..++ +|++|++++|.+.+..+..+..+     ++|++|++++|.+.+..+..      .. ..+++|++++|.++..+.
T Consensus        47 ~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~  126 (362)
T 3goz_A           47 ANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSS  126 (362)
T ss_dssp             HTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCH
T ss_pred             HhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHH
Confidence            3445 66666666665555444444443     66666666666655443321      11 356666666666664443


Q ss_pred             -hhh----c-cCCCCeeecccccccc----ccccccCCCC-CCCEEEecCCCCCCCCCcc----cCCC-CCCcEEEccCC
Q 012324          328 -SID----R-LRRLGYLNLSDCKRLK----SLPSSLCKLK-SLKVLNLCGCSNLQRLPEC----LGQL-SSPIILNLAKT  391 (466)
Q Consensus       328 -~l~----~-l~~L~~L~l~~~~~~~----~~p~~~~~l~-~L~~L~l~~~~~~~~~p~~----l~~l-~~L~~L~l~~~  391 (466)
                       .+.    . .++|++|++++|.+..    .++..+..++ +|++|++++|.+....+..    +..+ ++|+.|++++|
T Consensus       127 ~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N  206 (362)
T 3goz_A          127 SEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSAN  206 (362)
T ss_dssp             HHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTS
T ss_pred             HHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCC
Confidence             222    2 2466666666665443    2223334443 6666666666555444432    2333 46666666666


Q ss_pred             Cccc-----cchhhhcc-CCCcEeecccCcCCC
Q 012324          392 NIER-----IPESIIQL-FVLRYLLLSYSERFQ  418 (466)
Q Consensus       392 ~l~~-----lp~~l~~l-~~L~~L~l~~~~~~~  418 (466)
                      .++.     ++..+..+ ++|++|++++|.+..
T Consensus       207 ~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~  239 (362)
T 3goz_A          207 LLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHG  239 (362)
T ss_dssp             CGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCC
T ss_pred             CCChhHHHHHHHHHhcCCCCceEEECcCCCCCc
Confidence            6664     45555543 366666666665433

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.30  E-value=1.2e-11  Score=105.19  Aligned_cols=100  Identities=20%  Similarity=0.212  Sum_probs=46.9

Q ss_pred             EeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc
Q 012324          315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       315 L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      ++++++.++.+|..+.  ++|++|++++|.+.+..|..+..+++|++|++++|.+.+..+..|..+++|+.|++++|+++
T Consensus        14 l~~s~n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l~   91 (170)
T 3g39_A           14 VDCSGKSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLK   91 (170)
T ss_dssp             EECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEeCCCCcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCccC
Confidence            3333344444444331  44455555554443333444445555555555554444333333445555555555555555


Q ss_pred             ccch-hhhccCCCcEeecccCcC
Q 012324          395 RIPE-SIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       395 ~lp~-~l~~l~~L~~L~l~~~~~  416 (466)
                      .+|. .+.++++|++|++++|++
T Consensus        92 ~~~~~~~~~l~~L~~L~L~~N~~  114 (170)
T 3g39_A           92 SIPRGAFDNLKSLTHIWLLNNPW  114 (170)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCB
T ss_pred             EeCHHHhcCCCCCCEEEeCCCCC
Confidence            4443 244555555555555543

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.29  E-value=1.3e-11  Score=105.34  Aligned_cols=99  Identities=17%  Similarity=0.179  Sum_probs=45.0

Q ss_pred             EeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc
Q 012324          315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       315 L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      ++++++.++.+|..+.  ++|++|++++|.+.+..|..+..+++|++|++++|.+.+..+..|..+++|+.|++++|.++
T Consensus        17 l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~   94 (174)
T 2r9u_A           17 VNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLK   94 (174)
T ss_dssp             EECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC
T ss_pred             EEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccc
Confidence            3333344444444332  44444444444433333444444555555555544443322223444555555555555555


Q ss_pred             ccchh-hhccCCCcEeecccCc
Q 012324          395 RIPES-IIQLFVLRYLLLSYSE  415 (466)
Q Consensus       395 ~lp~~-l~~l~~L~~L~l~~~~  415 (466)
                      .+|.. +..+++|++|++++|+
T Consensus        95 ~l~~~~~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           95 SIPRGAFDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             CCCTTTTTTCTTCSEEECCSSC
T ss_pred             eeCHHHhccccCCCEEEeCCCC
Confidence            44442 4445555555555544

>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=99.28  E-value=4.5e-14  Score=123.71  Aligned_cols=126  Identities=21%  Similarity=0.087  Sum_probs=71.5

Q ss_pred             CcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCC
Q 012324          281 PSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKS  358 (466)
Q Consensus       281 ~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~  358 (466)
                      |..+..+++|++|++++|.+.+ +| .+.  .++++|++++|.++.+|..+..+++|++|++++|.+.+ +| .+..+++
T Consensus        41 ~~~~~~l~~L~~L~ls~n~l~~-l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~-l~-~~~~l~~  116 (198)
T 1ds9_A           41 DATLSTLKACKHLALSTNNIEK-IS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIAS-LS-GIEKLVN  116 (198)
T ss_dssp             HHHHHHTTTCSEEECSEEEESC-CC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCC-HH-HHHHHHH
T ss_pred             hHHHhcCCCCCEEECCCCCCcc-cc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCc-CC-ccccCCC
Confidence            3378888889999988876444 33 111  34566666666666666555555666666666655332 33 3555566


Q ss_pred             CCEEEecCCCCCCCCC-cccCCCCCCcEEEccCCCccccch-----------hhhccCCCcEee
Q 012324          359 LKVLNLCGCSNLQRLP-ECLGQLSSPIILNLAKTNIERIPE-----------SIIQLFVLRYLL  410 (466)
Q Consensus       359 L~~L~l~~~~~~~~~p-~~l~~l~~L~~L~l~~~~l~~lp~-----------~l~~l~~L~~L~  410 (466)
                      |++|++++|.+....+ ..+..+++|+.|++++|.+...++           .+..+++|+.|+
T Consensus       117 L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld  180 (198)
T 1ds9_A          117 LRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             SSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC
T ss_pred             CCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC
Confidence            6666666654433211 245556666666666666553221           145566666555

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.27  E-value=5.3e-12  Score=108.15  Aligned_cols=122  Identities=16%  Similarity=0.088  Sum_probs=91.4

Q ss_pred             cEEeecCccCcccChhhhccC-CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCC
Q 012324          313 CWLFLRGTAIEELPSSIDRLR-RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKT  391 (466)
Q Consensus       313 ~~L~l~~~~i~~lp~~l~~l~-~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~  391 (466)
                      +.|++++|.++.+|. +..+. +|++|++++|.+.+.  ..++.+++|++|++++|.+.+..|..+..+++|+.|++++|
T Consensus        22 ~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l~~~--~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N   98 (176)
T 1a9n_A           22 RELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRKL--DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNN   98 (176)
T ss_dssp             EEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCCEE--CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSC
T ss_pred             eEEEeeCCCCchhHH-hhhcCCCCCEEECCCCCCCcc--cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCC
Confidence            333333456666654 45554 999999999986554  56899999999999998877543444589999999999999


Q ss_pred             Cccccch--hhhccCCCcEeecccCcCCCcCCCC-eEeccCCCCcccccc
Q 012324          392 NIERIPE--SIIQLFVLRYLLLSYSERFQSLPKP-LFLARGCLALEPFLG  438 (466)
Q Consensus       392 ~l~~lp~--~l~~l~~L~~L~l~~~~~~~~~p~~-~~~l~~~~~L~~l~~  438 (466)
                      .++.+|.  .+..+++|++|++++|++. .+|.. ...+..+++|+.+..
T Consensus        99 ~i~~~~~~~~l~~l~~L~~L~l~~N~i~-~~~~~~~~~~~~l~~L~~Ld~  147 (176)
T 1a9n_A           99 SLVELGDLDPLASLKSLTYLCILRNPVT-NKKHYRLYVIYKVPQVRVLDF  147 (176)
T ss_dssp             CCCCGGGGGGGGGCTTCCEEECCSSGGG-GSTTHHHHHHHHCTTCSEETT
T ss_pred             cCCcchhhHhhhcCCCCCEEEecCCCCC-CcHhHHHHHHHHCCccceeCC
Confidence            9998887  8899999999999999865 56653 112345566665554

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.27  E-value=2.5e-11  Score=105.58  Aligned_cols=126  Identities=18%  Similarity=0.174  Sum_probs=105.1

Q ss_pred             cEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCC
Q 012324          313 CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN  392 (466)
Q Consensus       313 ~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~  392 (466)
                      ++++++++.++.+|..+.  ++|++|++++|.+ ..+|..+..+++|++|++++|.+.+..+..|..+++|+.|++++|.
T Consensus        13 ~~l~~~~~~l~~ip~~~~--~~l~~L~L~~n~i-~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~   89 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGIP--RDVTELYLDGNQF-TLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNR   89 (193)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCCEEECCSSCC-CSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEcCCCCCCcCCCCCC--CCCCEEECCCCcC-chhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCc
Confidence            689999999999998664  6899999999874 5788889999999999999999888777889999999999999999


Q ss_pred             ccccch-hhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccC
Q 012324          393 IERIPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       393 l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      ++.++. .+..+++|++|++++|.+. .+|...  +.++++|+.+....+.+.
T Consensus        90 l~~i~~~~f~~l~~L~~L~L~~N~l~-~~~~~~--~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           90 LRCIPPRTFDGLKSLRLLSLHGNDIS-VVPEGA--FNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             CCBCCTTTTTTCTTCCEEECCSSCCC-BCCTTT--TTTCTTCCEEECCSSCEE
T ss_pred             cCEeCHHHhCCCCCCCEEECCCCCCC-eeChhh--hhcCccccEEEeCCCCee
Confidence            997765 6899999999999999865 455532  235666776666666554

>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=99.26  E-value=2.9e-11  Score=115.60  Aligned_cols=172  Identities=20%  Similarity=0.219  Sum_probs=112.2

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccC--------------------------cccccCcccCEEecCCCCCCCccCCCCCC--
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLP--------------------------SGIFNLEFLTKLDLSGCSKLKRLPEISSG--  310 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~--------------------------~~l~~l~~L~~L~l~~~~~~~~~~~~~~~--  310 (466)
                      .|.++++|++|+|++|.+.+.+|                          ..+..+++|++|++++|.+....+.....  
T Consensus        49 ~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~  128 (350)
T 4ay9_X           49 AFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSL  128 (350)
T ss_dssp             SSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBS
T ss_pred             HHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhccccccccccccccccCCchhhcccc
Confidence            45666666666666665444433                          33444555555555555443332222222  


Q ss_pred             cccEEeecC-ccCcccChh-hhcc-CCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCc-ccCCCCCCcEE
Q 012324          311 NVCWLFLRG-TAIEELPSS-IDRL-RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIIL  386 (466)
Q Consensus       311 ~l~~L~l~~-~~i~~lp~~-l~~l-~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~-~l~~l~~L~~L  386 (466)
                      .+..|++.+ +++..+|.. +..+ ..+++|++++|. +..+|.......+|+.+++.+++..+.+|. .|..+++|+.|
T Consensus       129 ~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~-i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~L  207 (350)
T 4ay9_X          129 QKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVIL  207 (350)
T ss_dssp             SCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEE
T ss_pred             hhhhhhhccccccccccccchhhcchhhhhhcccccc-ccCCChhhccccchhHHhhccCCcccCCCHHHhccCcccchh
Confidence            234455533 445555442 3333 357888888877 456777777788999999998888888885 57999999999


Q ss_pred             EccCCCccccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccc
Q 012324          387 NLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFL  437 (466)
Q Consensus       387 ~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~  437 (466)
                      ++++|+++.+|..  .+.+|+.|.+.++..++.+|.    +.++++|+.+.
T Consensus       208 dLs~N~l~~lp~~--~~~~L~~L~~l~~~~l~~lP~----l~~l~~L~~l~  252 (350)
T 4ay9_X          208 DISRTRIHSLPSY--GLENLKKLRARSTYNLKKLPT----LEKLVALMEAS  252 (350)
T ss_dssp             ECTTSCCCCCCSS--SCTTCCEEECTTCTTCCCCCC----TTTCCSCCEEE
T ss_pred             hcCCCCcCccChh--hhccchHhhhccCCCcCcCCC----chhCcChhhCc
Confidence            9999999999873  366777888777777888884    45566666544

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.25  E-value=1e-10  Score=100.19  Aligned_cols=129  Identities=22%  Similarity=0.157  Sum_probs=93.2

Q ss_pred             CcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccChh-hhccCCCCeeeccc
Q 012324          266 LVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPSS-IDRLRRLGYLNLSD  342 (466)
Q Consensus       266 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l~~  342 (466)
                      .+.++++++. ...+|..+  .++|+.|++++|.+.+..+..+  ..++++|++++|.++.+|.. +..+++|++|++++
T Consensus         9 ~~~l~~~~~~-l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~   85 (177)
T 2o6r_A            9 GTEIRCNSKG-LTSVPTGI--PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHE   85 (177)
T ss_dssp             TTEEECCSSC-CSSCCTTC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEecCCC-CccCCCCC--CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCC
Confidence            3556666653 33445333  3567777777776554333322  24667777777888877765 68999999999999


Q ss_pred             cccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccc
Q 012324          343 CKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIP  397 (466)
Q Consensus       343 ~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp  397 (466)
                      |.+.+..+..+..+++|++|++++|.+.+..+..+..+++|+.|++++|.+...+
T Consensus        86 N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~  140 (177)
T 2o6r_A           86 NKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSC  140 (177)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCCH
T ss_pred             CCccccCHHHhhCCcccCEEECcCCcceEeCHHHhcCCcccCEEEecCCCeeccC
Confidence            8866555555789999999999998877555555788999999999999988443

>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=99.22  E-value=7.2e-13  Score=131.85  Aligned_cols=154  Identities=21%  Similarity=0.126  Sum_probs=85.9

Q ss_pred             CCCcEEEcCCCCCCcc----cCcccccCcccCEEecCCCCCCCcc-----CC--CCCCcccEEeecCccCcc-----cCh
Q 012324          264 NNLVILNLRSGKSLKS----LPSGIFNLEFLTKLDLSGCSKLKRL-----PE--ISSGNVCWLFLRGTAIEE-----LPS  327 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~-----~~--~~~~~l~~L~l~~~~i~~-----lp~  327 (466)
                      ++|++|++++|.+...    ++..+..+++|++|++++|.+....     +.  .....+++|++++|.++.     ++.
T Consensus       199 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~  278 (461)
T 1z7x_W          199 CQLEALKLESCGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCR  278 (461)
T ss_dssp             CCCCEEECTTSCCBTTHHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHH
T ss_pred             CCceEEEccCCCCcHHHHHHHHHHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHH
Confidence            4677777777755542    4555666677777777776544321     11  123456777777776664     566


Q ss_pred             hhhccCCCCeeeccccccccccccccC-----CCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCccc-cc
Q 012324          328 SIDRLRRLGYLNLSDCKRLKSLPSSLC-----KLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNIER-IP  397 (466)
Q Consensus       328 ~l~~l~~L~~L~l~~~~~~~~~p~~~~-----~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~~-lp  397 (466)
                      .+..+++|++|++++|.+....+..+.     ..++|++|++++|.+...    +|..+..+++|+.|++++|.++. .+
T Consensus       279 ~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~  358 (461)
T 1z7x_W          279 VLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGV  358 (461)
T ss_dssp             HHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHH
T ss_pred             HHhhCCCcceEECCCCCCchHHHHHHHHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccccccH
Confidence            666667777777776654333222221     224666666666665443    34445555666666666666552 12


Q ss_pred             hhhhc-----cCCCcEeecccCcCC
Q 012324          398 ESIIQ-----LFVLRYLLLSYSERF  417 (466)
Q Consensus       398 ~~l~~-----l~~L~~L~l~~~~~~  417 (466)
                      ..+..     .++|++|++++|.+.
T Consensus       359 ~~l~~~l~~~~~~L~~L~L~~n~i~  383 (461)
T 1z7x_W          359 RELCQGLGQPGSVLRVLWLADCDVS  383 (461)
T ss_dssp             HHHHHHHTSTTCCCCEEECTTSCCC
T ss_pred             HHHHHHHcCCCCceEEEECCCCCCC
Confidence            22222     456666666666543

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

Probab=99.20  E-value=3.5e-12  Score=122.71  Aligned_cols=183  Identities=18%  Similarity=0.050  Sum_probs=130.7

Q ss_pred             CCCCCCcEEEcCCCCCCcccC----cccccCc-ccCEEecCCCCCCCccCCCC-------CCcccEEeecCccCcccCh-
Q 012324          261 PRLNNLVILNLRSGKSLKSLP----SGIFNLE-FLTKLDLSGCSKLKRLPEIS-------SGNVCWLFLRGTAIEELPS-  327 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~----~~l~~l~-~L~~L~l~~~~~~~~~~~~~-------~~~l~~L~l~~~~i~~lp~-  327 (466)
                      ...++|++|++++|.+.+..+    ..+..++ +|++|++++|.+.+..+..+       ...+++|++++|.++..+. 
T Consensus        19 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~   98 (362)
T 3goz_A           19 SIPHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSD   98 (362)
T ss_dssp             TSCTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHH
T ss_pred             hCCCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHH
Confidence            445679999999997665544    6677888 89999999998776654321       2678999999999986544 


Q ss_pred             h----hhcc-CCCCeeeccccccccccccc----cCC-CCCCCEEEecCCCCCCC----CCcccCCCC-CCcEEEccCCC
Q 012324          328 S----IDRL-RRLGYLNLSDCKRLKSLPSS----LCK-LKSLKVLNLCGCSNLQR----LPECLGQLS-SPIILNLAKTN  392 (466)
Q Consensus       328 ~----l~~l-~~L~~L~l~~~~~~~~~p~~----~~~-l~~L~~L~l~~~~~~~~----~p~~l~~l~-~L~~L~l~~~~  392 (466)
                      .    +..+ ++|++|++++|.+....+..    +.. .++|++|++++|.+...    ++..+..++ +|+.|++++|.
T Consensus        99 ~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~  178 (362)
T 3goz_A           99 ELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNN  178 (362)
T ss_dssp             HHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSC
T ss_pred             HHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCC
Confidence            3    4444 89999999999876554443    334 36999999999887753    344456665 99999999999


Q ss_pred             cccc-ch----hhhcc-CCCcEeecccCcCCCc----CCCCeEeccCCCCccccccCccccCC
Q 012324          393 IERI-PE----SIIQL-FVLRYLLLSYSERFQS----LPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       393 l~~l-p~----~l~~l-~~L~~L~l~~~~~~~~----~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      ++.. +.    .+..+ ++|++|++++|.+...    ++..+..  .+++|+.+....+.+..
T Consensus       179 l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~--~~~~L~~L~Ls~N~l~~  239 (362)
T 3goz_A          179 LASKNCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSS--IPNHVVSLNLCLNCLHG  239 (362)
T ss_dssp             GGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHH--SCTTCCEEECCSSCCCC
T ss_pred             CchhhHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhc--CCCCceEEECcCCCCCc
Confidence            9843 33    34455 5999999999986542    2222221  13577777766665544

>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=99.19  E-value=9.4e-14  Score=121.63  Aligned_cols=149  Identities=15%  Similarity=0.104  Sum_probs=114.5

Q ss_pred             ccCcccCEEecCCCCCCCccCC------CC--CCcccEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCC
Q 012324          285 FNLEFLTKLDLSGCSKLKRLPE------IS--SGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKL  356 (466)
Q Consensus       285 ~~l~~L~~L~l~~~~~~~~~~~------~~--~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l  356 (466)
                      .....++.++++.+.+.+..|.      .+  ..++++|++++|.++.+| .+..+++|++|++++|.+. .+|..+..+
T Consensus        15 ~~~~~l~~l~l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~-~l~~~~~~~   92 (198)
T 1ds9_A           15 EERKSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIK-KIENLDAVA   92 (198)
T ss_dssp             HHTTCCCCTTCSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEEC-SCSSHHHHH
T ss_pred             HhcccccCcchheeEeccccCcHhhhhHHHhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcc-cccchhhcC
Confidence            3445555566666655555443      22  257899999999999998 8999999999999998754 788777778


Q ss_pred             CCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch--hhhccCCCcEeecccCcCCCcCCCC-------eEec
Q 012324          357 KSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE--SIIQLFVLRYLLLSYSERFQSLPKP-------LFLA  427 (466)
Q Consensus       357 ~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~--~l~~l~~L~~L~l~~~~~~~~~p~~-------~~~l  427 (466)
                      ++|++|++++|.+.+ +| .+..+++|+.|++++|.++.++.  .+..+++|++|++++|++.+..|..       ...+
T Consensus        93 ~~L~~L~L~~N~l~~-l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~  170 (198)
T 1ds9_A           93 DTLEELWISYNQIAS-LS-GIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVV  170 (198)
T ss_dssp             HHCSEEEEEEEECCC-HH-HHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHH
T ss_pred             CcCCEEECcCCcCCc-CC-ccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHH
Confidence            999999999987665 55 68889999999999999997765  7889999999999999987766542       1123


Q ss_pred             cCCCCccccc
Q 012324          428 RGCLALEPFL  437 (466)
Q Consensus       428 ~~~~~L~~l~  437 (466)
                      ..+++|+.+.
T Consensus       171 ~~l~~L~~Ld  180 (198)
T 1ds9_A          171 KRLPNLKKLD  180 (198)
T ss_dssp             HHCSSCSEEC
T ss_pred             HhCCCcEEEC
Confidence            4555666554

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.18  E-value=1.9e-10  Score=98.12  Aligned_cols=109  Identities=20%  Similarity=0.197  Sum_probs=83.4

Q ss_pred             CEEecCCCCCCCccCCCCCCcccEEeecCccCccc-ChhhhccCCCCeeecccccccccccc-ccCCCCCCCEEEecCCC
Q 012324          291 TKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       291 ~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~-~~~~l~~L~~L~l~~~~  368 (466)
                      +.+++++|.+ +.+|..+...+++|++++|.++.+ |..+.++++|++|++++|.+.+ +|. .+..+++|++|++++|.
T Consensus        15 ~~l~~~~n~l-~~iP~~~~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~-i~~~~~~~l~~L~~L~L~~N~   92 (174)
T 2r9u_A           15 TLVNCQNIRL-ASVPAGIPTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTA-IPTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             SEEECCSSCC-SSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCC-CCTTTTTTCTTCCEEECCSSC
T ss_pred             cEEEeCCCCC-CccCCCcCCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCc-cChhHhCCcchhhEEECCCCc
Confidence            4566666543 455655556677777777888877 4568899999999999987554 554 46899999999999988


Q ss_pred             CCCCCCcccCCCCCCcEEEccCCCccccchhhh
Q 012324          369 NLQRLPECLGQLSSPIILNLAKTNIERIPESII  401 (466)
Q Consensus       369 ~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~  401 (466)
                      +.+..+..+..+++|+.|++++|.+...+..+.
T Consensus        93 l~~l~~~~~~~l~~L~~L~L~~N~~~c~~~~~~  125 (174)
T 2r9u_A           93 LKSIPRGAFDNLKSLTHIYLYNNPWDCECRDIM  125 (174)
T ss_dssp             CCCCCTTTTTTCTTCSEEECCSSCBCTTBGGGH
T ss_pred             cceeCHHHhccccCCCEEEeCCCCcccccccHH
Confidence            776555569999999999999999986665433

>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=99.18  E-value=1.2e-12  Score=130.14  Aligned_cols=130  Identities=19%  Similarity=0.089  Sum_probs=56.3

Q ss_pred             CCCcEEEcCCCCCCcc----cCcccccCcccCEEecCCCCCCCccCCCC-------CCcccEEeecCccCcc-----cCh
Q 012324          264 NNLVILNLRSGKSLKS----LPSGIFNLEFLTKLDLSGCSKLKRLPEIS-------SGNVCWLFLRGTAIEE-----LPS  327 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~~-------~~~l~~L~l~~~~i~~-----lp~  327 (466)
                      ++|++|++++|.+.+.    ++..+..+++|++|++++|.+....+..+       ...++.|++++|.++.     ++.
T Consensus       142 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~  221 (461)
T 1z7x_W          142 CRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCG  221 (461)
T ss_dssp             CCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHHH
T ss_pred             CcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHHH
Confidence            3455555555544332    23334445555555555554332221111       1244555555555543     344


Q ss_pred             hhhccCCCCeeecccccccccc-----ccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCc
Q 012324          328 SIDRLRRLGYLNLSDCKRLKSL-----PSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNI  393 (466)
Q Consensus       328 ~l~~l~~L~~L~l~~~~~~~~~-----p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l  393 (466)
                      .+..+++|++|++++|.+....     +.....+++|++|++++|.+...    ++..+..+++|+.|++++|.+
T Consensus       222 ~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i  296 (461)
T 1z7x_W          222 IVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNEL  296 (461)
T ss_dssp             HHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCC
T ss_pred             HHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCC
Confidence            4445555555555554432211     11112344555555555443322    333334444444444444444

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.18  E-value=1.9e-10  Score=97.74  Aligned_cols=108  Identities=23%  Similarity=0.184  Sum_probs=83.7

Q ss_pred             cCEEecCCCCCCCccCCCCCCcccEEeecCccCccc-ChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCC
Q 012324          290 LTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEEL-PSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       290 L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~  368 (466)
                      .+.+++++|.+ ..+|..+...+++|++++|.++.+ |..+.++++|++|++++|.+.+..+..+..+++|++|++++|.
T Consensus        11 ~~~l~~s~n~l-~~ip~~~~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~   89 (170)
T 3g39_A           11 GTTVDCSGKSL-ASVPTGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ   89 (170)
T ss_dssp             TTEEECTTSCC-SSCCSCCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEEEeCCCCc-CccCccCCCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCc
Confidence            45666666553 335555556677777777888877 5568899999999999998665444556899999999999988


Q ss_pred             CCCCCCcccCCCCCCcEEEccCCCccccch
Q 012324          369 NLQRLPECLGQLSSPIILNLAKTNIERIPE  398 (466)
Q Consensus       369 ~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~  398 (466)
                      +.+..+..+..+++|+.|++++|.+...+.
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N~~~c~c~  119 (170)
T 3g39_A           90 LKSIPRGAFDNLKSLTHIWLLNNPWDCACS  119 (170)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCBCTTBG
T ss_pred             cCEeCHHHhcCCCCCCEEEeCCCCCCCCch
Confidence            877666679999999999999999874443

>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=99.02  E-value=7.1e-10  Score=105.82  Aligned_cols=100  Identities=19%  Similarity=0.135  Sum_probs=51.8

Q ss_pred             EecCCCCCCCccCCCCCC--cccEEeecC-ccCcccCh-hhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCC
Q 012324          293 LDLSGCSKLKRLPEISSG--NVCWLFLRG-TAIEELPS-SIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCS  368 (466)
Q Consensus       293 L~l~~~~~~~~~~~~~~~--~l~~L~l~~-~~i~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~  368 (466)
                      ++.++++.+..+|. +..  +|+.|+|++ |.++.+|+ .++++++|++|+|++|.+.+..|..+.++++|++|+|++|.
T Consensus        13 v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~   91 (347)
T 2ifg_A           13 LRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             EECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCc
Confidence            45555422333454 332  356666654 56655553 35556666666666655444444455556666666666555


Q ss_pred             CCCCCCcccCCCCCCcEEEccCCCcc
Q 012324          369 NLQRLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       369 ~~~~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      +.+..+..+..++ |+.|++.+|.+.
T Consensus        92 l~~~~~~~~~~~~-L~~l~l~~N~~~  116 (347)
T 2ifg_A           92 LESLSWKTVQGLS-LQELVLSGNPLH  116 (347)
T ss_dssp             CSCCCSTTTCSCC-CCEEECCSSCCC
T ss_pred             cceeCHHHcccCC-ceEEEeeCCCcc
Confidence            4433333333333 666666665555

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

Probab=99.01  E-value=3.8e-11  Score=115.43  Aligned_cols=155  Identities=17%  Similarity=0.046  Sum_probs=114.1

Q ss_pred             CCCcEEEcCCCCCCcccCccccc-----CcccCEEecCCCCCCCccCCCCC---CcccEEeecCccCccc-----Chhh-
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFN-----LEFLTKLDLSGCSKLKRLPEISS---GNVCWLFLRGTAIEEL-----PSSI-  329 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~-----l~~L~~L~l~~~~~~~~~~~~~~---~~l~~L~l~~~~i~~l-----p~~l-  329 (466)
                      ++|+.|++++|.+...-...+..     .++|++|++++|.+.......+.   .+++.|++++|.++..     ...+ 
T Consensus        72 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~  151 (372)
T 3un9_A           72 SSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLL  151 (372)
T ss_dssp             TTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHH
T ss_pred             hhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHH
Confidence            57899999999766543333322     37899999999987654333222   3679999999999733     2223 


Q ss_pred             hccCCCCeeecccccccc----ccccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCcc-----cc
Q 012324          330 DRLRRLGYLNLSDCKRLK----SLPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNIE-----RI  396 (466)
Q Consensus       330 ~~l~~L~~L~l~~~~~~~----~~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~-----~l  396 (466)
                      ...++|++|++++|.+..    .++..+..+++|++|++++|.+...    ++..+...++|+.|++++|.++     .+
T Consensus       152 ~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l  231 (372)
T 3un9_A          152 HDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALAL  231 (372)
T ss_dssp             STTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHHH
T ss_pred             hcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHHH
Confidence            246889999999997643    2445567889999999999886542    3566778889999999999998     24


Q ss_pred             chhhhccCCCcEeecccCcCCC
Q 012324          397 PESIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       397 p~~l~~l~~L~~L~l~~~~~~~  418 (466)
                      +..+...++|++|++++|.+..
T Consensus       232 ~~~L~~~~~L~~L~Ls~N~i~~  253 (372)
T 3un9_A          232 ARAAREHPSLELLHLYFNELSS  253 (372)
T ss_dssp             HHHHHHCSSCCEEECTTSSCCH
T ss_pred             HHHHHhCCCCCEEeccCCCCCH
Confidence            4556678999999999998543

>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=98.97  E-value=1.3e-10  Score=119.40  Aligned_cols=153  Identities=16%  Similarity=0.073  Sum_probs=99.2

Q ss_pred             CCCCCcEEEcCCCCCC---cccCcccc------------cCcccCEEecCCCCCCCccCCCC---C-CcccEEeecCcc-
Q 012324          262 RLNNLVILNLRSGKSL---KSLPSGIF------------NLEFLTKLDLSGCSKLKRLPEIS---S-GNVCWLFLRGTA-  321 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~---~~~~~~l~------------~l~~L~~L~l~~~~~~~~~~~~~---~-~~l~~L~l~~~~-  321 (466)
                      .+++|+.|++++|...   +.+|..++            .+++|++|++++|.+.+..+..+   . .++++|+++++. 
T Consensus        71 ~~~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~  150 (592)
T 3ogk_B           71 RFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSG  150 (592)
T ss_dssp             HCTTCSEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEE
T ss_pred             hCCCCeEEEecCCcchhhcccccccccccchHHHHHHHhhCCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCC
Confidence            4566788888765321   22232222            67788888888876554433222   1 237888887765 


Q ss_pred             Cc--ccChhhhccCCCCeeeccccccccc----cccccCCCCCCCEEEecCCCCC----CCCCcccCCCCCCcEEEccCC
Q 012324          322 IE--ELPSSIDRLRRLGYLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNL----QRLPECLGQLSSPIILNLAKT  391 (466)
Q Consensus       322 i~--~lp~~l~~l~~L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~----~~~p~~l~~l~~L~~L~l~~~  391 (466)
                      +.  .++.....+++|++|++++|.+.+.    ++.....+++|++|++++|...    ..++..+.++++|+.|++++|
T Consensus       151 ~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~  230 (592)
T 3ogk_B          151 FTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDF  230 (592)
T ss_dssp             EEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSC
T ss_pred             cCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCc
Confidence            22  2333445778888888888765443    3333456778888888877665    234445567788888888888


Q ss_pred             CccccchhhhccCCCcEeecccC
Q 012324          392 NIERIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       392 ~l~~lp~~l~~l~~L~~L~l~~~  414 (466)
                      .+..+|..+.++++|++|+++.+
T Consensus       231 ~~~~l~~~~~~~~~L~~L~l~~~  253 (592)
T 3ogk_B          231 EILELVGFFKAAANLEEFCGGSL  253 (592)
T ss_dssp             BGGGGHHHHHHCTTCCEEEECBC
T ss_pred             cHHHHHHHHhhhhHHHhhccccc
Confidence            88888777888888888888753

>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=98.92  E-value=5.7e-09  Score=98.72  Aligned_cols=101  Identities=16%  Similarity=0.134  Sum_probs=77.6

Q ss_pred             cCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCc-EEEccCCCccccc-hhhhccCCCcEe
Q 012324          332 LRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPI-ILNLAKTNIERIP-ESIIQLFVLRYL  409 (466)
Q Consensus       332 l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~-~L~l~~~~l~~lp-~~l~~l~~L~~L  409 (466)
                      +++|+.+++.+|.+...-+..+..+.+|+.+++.++ ....-+..|..+++|+ .+.+.. +++.++ ..|.++++|+.+
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l  302 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYV  302 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEE
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEE
Confidence            789999999987744433456888999999999885 5555556799999999 999988 777775 478899999999


Q ss_pred             ecccCcCCCcCCCCeEeccCCCCccccc
Q 012324          410 LLSYSERFQSLPKPLFLARGCLALEPFL  437 (466)
Q Consensus       410 ~l~~~~~~~~~p~~~~~l~~~~~L~~l~  437 (466)
                      ++..|. +..++...+  .+|++|+.++
T Consensus       303 ~l~~n~-i~~I~~~aF--~~~~~L~~ly  327 (329)
T 3sb4_A          303 LATGDK-ITTLGDELF--GNGVPSKLIY  327 (329)
T ss_dssp             EECSSC-CCEECTTTT--CTTCCCCEEE
T ss_pred             EeCCCc-cCccchhhh--cCCcchhhhc
Confidence            997766 455665443  4788887664

>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=98.91  E-value=2.1e-10  Score=117.77  Aligned_cols=150  Identities=15%  Similarity=-0.013  Sum_probs=88.1

Q ss_pred             CCCCCcEEEcCCCCCCcc----cCcccccCcccCEEecCCCCCCC----ccCCC--CCCcccEEeecCccCcccChhhhc
Q 012324          262 RLNNLVILNLRSGKSLKS----LPSGIFNLEFLTKLDLSGCSKLK----RLPEI--SSGNVCWLFLRGTAIEELPSSIDR  331 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~----~~~~~--~~~~l~~L~l~~~~i~~lp~~l~~  331 (466)
                      .+++|++|++++|.+.+.    ++..+..+++|++|++++|.+.+    .++..  ...+|+.|+++++.+..+|..+..
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~  241 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKA  241 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHH
T ss_pred             hCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHHHHhh
Confidence            567888888888865443    33345577888888888887652    22221  235778888888888888877888


Q ss_pred             cCCCCeeeccccccc---cccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc--ccchhhhccCCC
Q 012324          332 LRRLGYLNLSDCKRL---KSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE--RIPESIIQLFVL  406 (466)
Q Consensus       332 l~~L~~L~l~~~~~~---~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~--~lp~~l~~l~~L  406 (466)
                      +++|++|+++.+...   ...+..+..+++|+.|+++++ ....+|..+..+++|+.|++++|.++  .++..+.++++|
T Consensus       242 ~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~-~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L  320 (592)
T 3ogk_B          242 AANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYM-GPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNL  320 (592)
T ss_dssp             CTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTC-CTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTC
T ss_pred             hhHHHhhcccccccccchHHHHHHhhccccccccCcccc-chhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCC
Confidence            888888888643221   122233445555555555442 23344444455555555555555543  222223444444


Q ss_pred             cEeecc
Q 012324          407 RYLLLS  412 (466)
Q Consensus       407 ~~L~l~  412 (466)
                      ++|+++
T Consensus       321 ~~L~L~  326 (592)
T 3ogk_B          321 EVLETR  326 (592)
T ss_dssp             CEEEEE
T ss_pred             CEEecc
Confidence            444444

>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=98.85  E-value=1.2e-08  Score=96.55  Aligned_cols=87  Identities=15%  Similarity=0.132  Sum_probs=64.3

Q ss_pred             CCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCc-EeecccCcCCCcCCCCeEeccCCCCc
Q 012324          356 LKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLR-YLLLSYSERFQSLPKPLFLARGCLAL  433 (466)
Q Consensus       356 l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~-~L~l~~~~~~~~~p~~~~~l~~~~~L  433 (466)
                      +++|+.+++++|.....-+..|..+++|+.+++..| ++.++. .|.++++|+ .+.+..  .+..++..-+  .+|++|
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~~~aF--~~c~~L  299 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA--SVTAIEFGAF--MGCDNL  299 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT--TCCEECTTTT--TTCTTE
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc--cceEEchhhh--hCCccC
Confidence            688999999987766555567999999999999887 777765 688899999 999976  3556665443  578888


Q ss_pred             cccccCccccCCCC
Q 012324          434 EPFLGIIEDTQRIP  447 (466)
Q Consensus       434 ~~l~~~~~~~~~~~  447 (466)
                      +.+....+.+..+.
T Consensus       300 ~~l~l~~n~i~~I~  313 (329)
T 3sb4_A          300 RYVLATGDKITTLG  313 (329)
T ss_dssp             EEEEECSSCCCEEC
T ss_pred             CEEEeCCCccCccc
Confidence            87765444444443

>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=98.79  E-value=2.4e-08  Score=95.20  Aligned_cols=89  Identities=22%  Similarity=0.069  Sum_probs=49.3

Q ss_pred             cCcccccCcccCEEecCC-CCCCCccCCCC--CCcccEEeecCccCcccCh-hhhccCCCCeeeccccccccccccccCC
Q 012324          280 LPSGIFNLEFLTKLDLSG-CSKLKRLPEIS--SGNVCWLFLRGTAIEELPS-SIDRLRRLGYLNLSDCKRLKSLPSSLCK  355 (466)
Q Consensus       280 ~~~~l~~l~~L~~L~l~~-~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~  355 (466)
                      +|. +..+++|++|+|++ |.+.+..+..+  ..+|+.|+|++|+++.+|+ .+.++++|++|+|++|.+. .+|+.+..
T Consensus        24 ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~-~~~~~~~~  101 (347)
T 2ifg_A           24 LHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALE-SLSWKTVQ  101 (347)
T ss_dssp             TTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCS-CCCSTTTC
T ss_pred             cCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccc-eeCHHHcc
Confidence            555 55555555555554 44333332222  2345555555566665544 4677777777777777644 44443333


Q ss_pred             CCCCCEEEecCCCCC
Q 012324          356 LKSLKVLNLCGCSNL  370 (466)
Q Consensus       356 l~~L~~L~l~~~~~~  370 (466)
                      ...|+.|++.+|.+.
T Consensus       102 ~~~L~~l~l~~N~~~  116 (347)
T 2ifg_A          102 GLSLQELVLSGNPLH  116 (347)
T ss_dssp             SCCCCEEECCSSCCC
T ss_pred             cCCceEEEeeCCCcc
Confidence            333777777776654

>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=98.69  E-value=3.4e-09  Score=108.71  Aligned_cols=150  Identities=21%  Similarity=0.092  Sum_probs=74.0

Q ss_pred             CCCCCcEEEcCCCCCCcc----cCcccccCcccCEEecCCCC--CCCc-cCC--CCCCcccEEeecCc-cCcccChhhhc
Q 012324          262 RLNNLVILNLRSGKSLKS----LPSGIFNLEFLTKLDLSGCS--KLKR-LPE--ISSGNVCWLFLRGT-AIEELPSSIDR  331 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~--~~~~-~~~--~~~~~l~~L~l~~~-~i~~lp~~l~~  331 (466)
                      .+++|++|++++|.+.+.    ++.....+++|+.|++++|.  .... ++.  ....+|+.|++++| .+..+|..+..
T Consensus       154 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~  233 (594)
T 2p1m_B          154 TCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQR  233 (594)
T ss_dssp             HCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHH
T ss_pred             hCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhc
Confidence            456666666666653332    22222345566666666664  1100 110  01245666666665 44455555666


Q ss_pred             cCCCCeeecccccc------------------------------ccccccccCCCCCCCEEEecCCCCCCCC-CcccCCC
Q 012324          332 LRRLGYLNLSDCKR------------------------------LKSLPSSLCKLKSLKVLNLCGCSNLQRL-PECLGQL  380 (466)
Q Consensus       332 l~~L~~L~l~~~~~------------------------------~~~~p~~~~~l~~L~~L~l~~~~~~~~~-p~~l~~l  380 (466)
                      +++|++|++..+..                              ...++..+..+++|++|++++|.+.... +..+..+
T Consensus       234 ~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~~~~l~~~~~~~  313 (594)
T 2p1m_B          234 APQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQC  313 (594)
T ss_dssp             CTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCCHHHHHHHHTTC
T ss_pred             CCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCCHHHHHHHHhcC
Confidence            66666666443310                              0011221224556666666666533221 2224556


Q ss_pred             CCCcEEEccCCCcc--ccchhhhccCCCcEeecc
Q 012324          381 SSPIILNLAKTNIE--RIPESIIQLFVLRYLLLS  412 (466)
Q Consensus       381 ~~L~~L~l~~~~l~--~lp~~l~~l~~L~~L~l~  412 (466)
                      ++|+.|++++| +.  .++.....+++|++|++.
T Consensus       314 ~~L~~L~l~~~-~~~~~l~~l~~~~~~L~~L~L~  346 (594)
T 2p1m_B          314 PKLQRLWVLDY-IEDAGLEVLASTCKDLRELRVF  346 (594)
T ss_dssp             TTCCEEEEEGG-GHHHHHHHHHHHCTTCCEEEEE
T ss_pred             CCcCEEeCcCc-cCHHHHHHHHHhCCCCCEEEEe
Confidence            66666666665 33  233333446677777663

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

Probab=98.68  E-value=1.6e-08  Score=96.34  Aligned_cols=155  Identities=13%  Similarity=0.125  Sum_probs=100.3

Q ss_pred             CCCCCcEEEcCCCCC---------CcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcc-cChhhh-
Q 012324          262 RLNNLVILNLRSGKS---------LKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEE-LPSSID-  330 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~---------~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~-lp~~l~-  330 (466)
                      ++++|+.|.+.+...         .+.+...+..+++|+.|++++|... .++.....+|+.|++..+.+.. ....++ 
T Consensus       137 ~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l-~l~~~~~~~L~~L~L~~~~l~~~~l~~l~~  215 (362)
T 2ra8_A          137 KFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNL-SIGKKPRPNLKSLEIISGGLPDSVVEDILG  215 (362)
T ss_dssp             HHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTC-BCCSCBCTTCSEEEEECSBCCHHHHHHHHH
T ss_pred             hcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCc-eeccccCCCCcEEEEecCCCChHHHHHHHH
Confidence            345777777754321         1123344566788899988887432 2333335678899988877652 222333 


Q ss_pred             -ccCCCCeeecccc--cccc-----cccccc--CCCCCCCEEEecCCCCCCCCCccc---CCCCCCcEEEccCCCccc--
Q 012324          331 -RLRRLGYLNLSDC--KRLK-----SLPSSL--CKLKSLKVLNLCGCSNLQRLPECL---GQLSSPIILNLAKTNIER--  395 (466)
Q Consensus       331 -~l~~L~~L~l~~~--~~~~-----~~p~~~--~~l~~L~~L~l~~~~~~~~~p~~l---~~l~~L~~L~l~~~~l~~--  395 (466)
                       .+++|++|+|+.+  ...+     .+...+  ..+++|++|++.+|.+....+..+   ..+++|+.|+++.|.+..  
T Consensus       216 ~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~G  295 (362)
T 2ra8_A          216 SDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEG  295 (362)
T ss_dssp             SBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHHH
T ss_pred             ccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChHH
Confidence             7899999998532  1111     111222  358899999999887654333332   357899999999999873  


Q ss_pred             ---cchhhhccCCCcEeecccCcCC
Q 012324          396 ---IPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       396 ---lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                         ++..+.++++|+.|+++.|.+.
T Consensus       296 ~~~L~~~L~~l~~L~~L~L~~n~i~  320 (362)
T 2ra8_A          296 ARLLLDHVDKIKHLKFINMKYNYLS  320 (362)
T ss_dssp             HHHHHTTHHHHTTCSEEECCSBBCC
T ss_pred             HHHHHhhcccCCcceEEECCCCcCC
Confidence               4555678899999999988643

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

Probab=98.66  E-value=2.1e-09  Score=103.21  Aligned_cols=132  Identities=17%  Similarity=0.027  Sum_probs=101.7

Q ss_pred             CCCCcEEEcCCCCCCcccCccc-ccCcccCEEecCCCCCCCccCCC-------CCCcccEEeecCccCcc-----cChhh
Q 012324          263 LNNLVILNLRSGKSLKSLPSGI-FNLEFLTKLDLSGCSKLKRLPEI-------SSGNVCWLFLRGTAIEE-----LPSSI  329 (466)
Q Consensus       263 l~~L~~L~l~~~~~~~~~~~~l-~~l~~L~~L~l~~~~~~~~~~~~-------~~~~l~~L~l~~~~i~~-----lp~~l  329 (466)
                      .++|+.|+|++|.+...-...+ ..+++|+.|++++|.+.......       ....++.|++++|.++.     ++..+
T Consensus       100 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L  179 (372)
T 3un9_A          100 RHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGL  179 (372)
T ss_dssp             SSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHH
T ss_pred             CCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHH
Confidence            4699999999997765433223 34678999999999876543221       23578999999999973     56667


Q ss_pred             hccCCCCeeeccccccccc----cccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCcc
Q 012324          330 DRLRRLGYLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       330 ~~l~~L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      ...++|++|++++|.+...    ++..+...++|++|++++|.+...    ++..+...++|+.|++++|.++
T Consensus       180 ~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          180 AGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTAALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             HTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHHHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             hcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHHHHHHHHHHHhCCCCCEEeccCCCCC
Confidence            8899999999999986543    355677788999999999987653    4455667789999999999998

>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=98.56  E-value=6.7e-09  Score=106.54  Aligned_cols=87  Identities=14%  Similarity=0.101  Sum_probs=47.2

Q ss_pred             hhccCCCCeeeccccccccccccccCC-CCCCCEEEecCCCCCCCCCccc-CCCCCCcEEEccCCCcc--ccchhhhccC
Q 012324          329 IDRLRRLGYLNLSDCKRLKSLPSSLCK-LKSLKVLNLCGCSNLQRLPECL-GQLSSPIILNLAKTNIE--RIPESIIQLF  404 (466)
Q Consensus       329 l~~l~~L~~L~l~~~~~~~~~p~~~~~-l~~L~~L~l~~~~~~~~~p~~l-~~l~~L~~L~l~~~~l~--~lp~~l~~l~  404 (466)
                      +..+++|++|++++ .+....+..++. +++|+.|++++|.+.+..+..+ ..+++|+.|++++|.++  .+...+..++
T Consensus       428 ~~~~~~L~~L~L~~-~l~~~~~~~l~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~L~~L~L~~n~~~~~~~~~~~~~l~  506 (594)
T 2p1m_B          428 VEHCKDLRRLSLSG-LLTDKVFEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLE  506 (594)
T ss_dssp             HHHCTTCCEEECCS-SCCHHHHHHHHHHCTTCCEEEEESCCSSHHHHHHHHHHCTTCCEEEEESCSCCHHHHHHTGGGGG
T ss_pred             HhhCCCccEEeecC-cccHHHHHHHHHhchhccEeeccCCCCcHHHHHHHHhcCCCcCEEECcCCCCcHHHHHHHHHhCC
Confidence            34455556665544 222222233333 5666666666666544333333 44667777777777665  2222344566


Q ss_pred             CCcEeecccCcC
Q 012324          405 VLRYLLLSYSER  416 (466)
Q Consensus       405 ~L~~L~l~~~~~  416 (466)
                      +|++|++++|+.
T Consensus       507 ~L~~L~l~~~~~  518 (594)
T 2p1m_B          507 TMRSLWMSSCSV  518 (594)
T ss_dssp             GSSEEEEESSCC
T ss_pred             CCCEEeeeCCCC
Confidence            777777777654

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.46  E-value=2.9e-06  Score=82.07  Aligned_cols=168  Identities=11%  Similarity=0.096  Sum_probs=82.1

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC---CcccEEeecCccCcccChh-hhccCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS---GNVCWLFLRGTAIEELPSS-IDRLRR  334 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~~l~~L~l~~~~i~~lp~~-l~~l~~  334 (466)
                      .|.+|++|+.+++.+|.+ ..++.....+.+|+.+.+..+  ...++...+   .+|+.+++..+ +..++.. +.+ .+
T Consensus       175 aF~~c~~L~~l~l~~n~l-~~I~~~aF~~~~L~~l~lp~~--l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~  249 (401)
T 4fdw_A          175 IFYYCYNLKKADLSKTKI-TKLPASTFVYAGIEEVLLPVT--LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SG  249 (401)
T ss_dssp             TTTTCTTCCEEECTTSCC-SEECTTTTTTCCCSEEECCTT--CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CC
T ss_pred             HhhCcccCCeeecCCCcc-eEechhhEeecccCEEEeCCc--hheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CC
Confidence            466667777777765533 233332223455666665533  223332211   24555555542 4444332 222 45


Q ss_pred             CCeeeccccccccccccccCCCCCCCEEEecCCCCC-----CCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcE
Q 012324          335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL-----QRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRY  408 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~-----~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~  408 (466)
                      |+.+.+.. .+...-...+..+++|+.+.+.++...     ...+..|..|++|+.+.+. ++++.++. .|.++++|+.
T Consensus       250 L~~i~lp~-~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~-~~i~~I~~~aF~~c~~L~~  327 (401)
T 4fdw_A          250 ITTVKLPN-GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIP-ESIRILGQGLLGGNRKVTQ  327 (401)
T ss_dssp             CSEEEEET-TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCC-TTCCEECTTTTTTCCSCCE
T ss_pred             ccEEEeCC-CccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeC-CceEEEhhhhhcCCCCccE
Confidence            55555532 222222344556666666666554332     1223456666666666666 34555543 4556666666


Q ss_pred             eecccCcCCCcCCCCeEeccCCCCcccccc
Q 012324          409 LLLSYSERFQSLPKPLFLARGCLALEPFLG  438 (466)
Q Consensus       409 L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~  438 (466)
                      +.+..+  +..++..-+  .+| +|+.+..
T Consensus       328 l~lp~~--l~~I~~~aF--~~~-~L~~l~l  352 (401)
T 4fdw_A          328 LTIPAN--VTQINFSAF--NNT-GIKEVKV  352 (401)
T ss_dssp             EEECTT--CCEECTTSS--SSS-CCCEEEE
T ss_pred             EEECcc--ccEEcHHhC--CCC-CCCEEEE
Confidence            666443  334443322  344 5554443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.27  E-value=1.4e-05  Score=77.38  Aligned_cols=169  Identities=11%  Similarity=0.029  Sum_probs=116.2

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCC-CCcccEEeecCccCcccCh-hhhccCCCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEIS-SGNVCWLFLRGTAIEELPS-SIDRLRRLG  336 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~-~~~l~~L~l~~~~i~~lp~-~l~~l~~L~  336 (466)
                      .|.++ +|+.+.+..+ +...-+..|.+|++|+.+++.+|.+.......+ ...++.+.+.. ++..++. .+.++++|+
T Consensus       153 aF~~~-~L~~i~lp~~-l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~-~l~~I~~~aF~~~~~L~  229 (401)
T 4fdw_A          153 AFFNS-TVQEIVFPST-LEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPV-TLKEIGSQAFLKTSQLK  229 (401)
T ss_dssp             TTTTC-CCCEEECCTT-CCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCT-TCCEECTTTTTTCTTCC
T ss_pred             hcCCC-CceEEEeCCC-ccEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEEEeCC-chheehhhHhhCCCCCC
Confidence            35554 5888888753 444444668889999999998876443222222 24678888874 4676655 577888999


Q ss_pred             eeecccccccccccc-ccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc-----ccch-hhhccCCCcEe
Q 012324          337 YLNLSDCKRLKSLPS-SLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE-----RIPE-SIIQLFVLRYL  409 (466)
Q Consensus       337 ~L~l~~~~~~~~~p~-~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~-----~lp~-~l~~l~~L~~L  409 (466)
                      .+.+..+  ...++. .+.. .+|+.+.+.. +....-+..|.++++|+.+.+.++.+.     .++. .|.++++|+.+
T Consensus       230 ~l~l~~~--l~~I~~~aF~~-~~L~~i~lp~-~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l  305 (401)
T 4fdw_A          230 TIEIPEN--VSTIGQEAFRE-SGITTVKLPN-GVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARF  305 (401)
T ss_dssp             CEECCTT--CCEECTTTTTT-CCCSEEEEET-TCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEE
T ss_pred             EEecCCC--ccCcccccccc-CCccEEEeCC-CccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeE
Confidence            9998863  344443 3444 7899999955 455455678999999999999887765     4544 78889999999


Q ss_pred             ecccCcCCCcCCCCeEeccCCCCcccccc
Q 012324          410 LLSYSERFQSLPKPLFLARGCLALEPFLG  438 (466)
Q Consensus       410 ~l~~~~~~~~~p~~~~~l~~~~~L~~l~~  438 (466)
                      .+..+  +..++...+  .+|.+|+.+..
T Consensus       306 ~l~~~--i~~I~~~aF--~~c~~L~~l~l  330 (401)
T 4fdw_A          306 EIPES--IRILGQGLL--GGNRKVTQLTI  330 (401)
T ss_dssp             CCCTT--CCEECTTTT--TTCCSCCEEEE
T ss_pred             EeCCc--eEEEhhhhh--cCCCCccEEEE
Confidence            99843  566666543  46777776543

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

Probab=98.19  E-value=3.8e-07  Score=78.27  Aligned_cols=119  Identities=14%  Similarity=0.078  Sum_probs=70.9

Q ss_pred             CcccccCcccCEEecCCC-CCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccccccccc----cccccCC
Q 012324          281 PSGIFNLEFLTKLDLSGC-SKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKS----LPSSLCK  355 (466)
Q Consensus       281 ~~~l~~l~~L~~L~l~~~-~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~----~p~~~~~  355 (466)
                      ...+...+.|++|++++| .+...                 .+..+...+...++|++|++++|.+...    +...+..
T Consensus        29 ~~~l~~~~~L~~L~L~~n~~i~~~-----------------g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~   91 (185)
T 1io0_A           29 KRIQNNDPDLEEVNLNNIMNIPVP-----------------TLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKV   91 (185)
T ss_dssp             HHHHTTCTTCCEEECTTCTTCCHH-----------------HHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCCCEEEecCCCCCCHH-----------------HHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHh
Confidence            334556777888888776 43221                 1113344455556677777776654332    2233445


Q ss_pred             CCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEc--cCCCcc-----ccchhhhccCCCcEeecccCcC
Q 012324          356 LKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNL--AKTNIE-----RIPESIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       356 l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l--~~~~l~-----~lp~~l~~l~~L~~L~l~~~~~  416 (466)
                      .++|++|++++|.+...    +.+.+...+.|+.|++  ++|.+.     .+...+...++|++|++++|.+
T Consensus        92 n~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A           92 NNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             CSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             CCCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence            56677777777665432    3445666677788887  677776     2444556667788888877753

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.17  E-value=7.3e-06  Score=77.75  Aligned_cols=189  Identities=14%  Similarity=0.202  Sum_probs=109.9

Q ss_pred             eEEEEEeCCCChH--------h-HHHHHhcCCCCCCCcEEEEEeCChhhHhhc-----------C-cceEEEccCCChhh
Q 012324            2 KVLIVFDDVTCFS--------Q-LESIIRSLDWLTPVSRIIITTRNKQVLRNW-----------G-VRKIYEIEALENHH   60 (466)
Q Consensus         2 r~LlvlDd~~~~~--------~-~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~-----------~-~~~~~~l~~L~~~~   60 (466)
                      +.+|||||+....        + +..+...+. ...+.++|+|++...+....           + ....+++.+|+.+|
T Consensus       129 ~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~-~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e  207 (350)
T 2qen_A          129 EFIVAFDEAQYLRFYGSRGGKELLALFAYAYD-SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDT  207 (350)
T ss_dssp             CEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH-HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHH
T ss_pred             CEEEEEeCHHHHhccCccchhhHHHHHHHHHH-hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHH
Confidence            6899999997633        2 333332211 12467899999876542211           1 12479999999999


Q ss_pred             HHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCceeehhhhhhccc-CCHHHHHHHHHHHHhccchhHHHHHHHHHhcC-
Q 012324           61 ALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYE-REKEVSESAINKLQRILHPSILEVLKISYDSL-  138 (466)
Q Consensus        61 ~~~Lf~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~-~~~~~w~~~~~~l~~~~~~~~~~~l~~sy~~L-  138 (466)
                      +.+++....-......  ..+.+.++.+.++|+|.++..++..+.. .+...+   ...+.+.    +...+...+..+ 
T Consensus       208 ~~~~l~~~~~~~~~~~--~~~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~---~~~~~~~----~~~~~~~~l~~l~  278 (350)
T 2qen_A          208 SVEFLKRGFREVNLDV--PENEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRA---MKRTLEV----AKGLIMGELEELR  278 (350)
T ss_dssp             HHHHHHHHHHTTTCCC--CHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHH---HHHHHHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCC--CHHHHHHHHHHhCCCHHHHHHHHHHHhccccHhHH---HHHHHHH----HHHHHHHHHHHHH
Confidence            9999987542211111  1456788999999999999988865432 222211   1111111    111111112222 


Q ss_pred             --chhhhhhhceeeccCCCccHHHHHHHHHhc--CCCc---cchhhhhhcccceEEcCCCeEEe-cHHHHHHH
Q 012324          139 --DNKEKNIFLDVACFFQGEDVNLVMKFLNAS--GFYP---EIGISVLVDKSLIAIGSYNKIRM-HDLLQELG  203 (466)
Q Consensus       139 --~~~~~~~~~~~~~fp~~~~~~~l~~~~~~~--~~~~---~~~~~~L~~~sl~~~~~~~~~~~-hdlv~~~~  203 (466)
                        ++..+..+..+|.  .......+.......  +...   ..+++.|.+.+++... .+.|++ |++++++.
T Consensus       279 ~~~~~~~~~l~~la~--g~~~~~~l~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~  348 (350)
T 2qen_A          279 RRSPRYVDILRAIAL--GYNRWSLIRDYLAVKGTKIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVL  348 (350)
T ss_dssp             HHCHHHHHHHHHHHT--TCCSHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHH
T ss_pred             hCChhHHHHHHHHHh--CCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHH
Confidence              6777888888877  224444454443222  2322   2448889999999875 355655 67887764

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.10  E-value=9e-06  Score=77.30  Aligned_cols=189  Identities=16%  Similarity=0.149  Sum_probs=110.3

Q ss_pred             eEEEEEeCCCCh-----HhHHHHHhcCCCCCCCcEEEEEeCChhhHhh----------c-Cc-ceEEEccCCChhhHHHH
Q 012324            2 KVLIVFDDVTCF-----SQLESIIRSLDWLTPVSRIIITTRNKQVLRN----------W-GV-RKIYEIEALENHHALEL   64 (466)
Q Consensus         2 r~LlvlDd~~~~-----~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~----------~-~~-~~~~~l~~L~~~~~~~L   64 (466)
                      +++|||||+...     .+|..+...+.+...+.++|+|+|.......          . +. ...+.+.+|+.+|+.++
T Consensus       138 ~~vlvlDe~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~  217 (357)
T 2fna_A          138 NVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEF  217 (357)
T ss_dssp             CEEEEEETGGGGGGCTTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHH
T ss_pred             CeEEEEECHHHhhccCchhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHH
Confidence            689999999653     2333333222222246789999998753221          1 11 25899999999999999


Q ss_pred             HHHhhcC-CCCCCchHHHHHHHHHHHhCCCceeehhhhhhccc-CCHHHHHHHHHHHHhccchhHHHHHHHHH---hcCc
Q 012324           65 FSRHAFK-RNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYE-REKEVSESAINKLQRILHPSILEVLKISY---DSLD  139 (466)
Q Consensus        65 f~~~~~~-~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~-~~~~~w~~~~~~l~~~~~~~~~~~l~~sy---~~L~  139 (466)
                      +...+.. +...+.     ...|.+.++|.|+++..++..+.. .+...|.   ..+.+.....+...+.-.+   ..++
T Consensus       218 l~~~~~~~~~~~~~-----~~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~l~  289 (357)
T 2fna_A          218 LRRGFQEADIDFKD-----YEVVYEKIGGIPGWLTYFGFIYLDNKNLDFAI---NQTLEYAKKLILKEFENFLHGREIAR  289 (357)
T ss_dssp             HHHHHHHHTCCCCC-----HHHHHHHHCSCHHHHHHHHHHHHHHCCHHHHH---HHHHHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHHHcCCCCCc-----HHHHHHHhCCCHHHHHHHHHHHccccchHHHH---HHHHHHHHHHHHHHHHHHhhcccccc
Confidence            9875421 112221     178999999999999988876543 2332231   1111111011111121111   1678


Q ss_pred             hhhhhhhceeeccCCCccHHHHHHHHH-hcC--CCc---cchhhhhhcccceEEcCCCeEE-ecHHHHHH
Q 012324          140 NKEKNIFLDVACFFQGEDVNLVMKFLN-ASG--FYP---EIGISVLVDKSLIAIGSYNKIR-MHDLLQEL  202 (466)
Q Consensus       140 ~~~~~~~~~~~~fp~~~~~~~l~~~~~-~~~--~~~---~~~~~~L~~~sl~~~~~~~~~~-~hdlv~~~  202 (466)
                      +..+..+..+|.-  . +...+..... ..|  ...   ...++.|.+.+++...+ +.|+ .|++++++
T Consensus       290 ~~~~~~l~~la~g--~-~~~~l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~~-~~y~f~~~~~~~~  355 (357)
T 2fna_A          290 KRYLNIMRTLSKC--G-KWSDVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKEG-EKYCPSEPLISLA  355 (357)
T ss_dssp             HHHHHHHHHHTTC--B-CHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEESS-SCEEESSHHHHHH
T ss_pred             HHHHHHHHHHHcC--C-CHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEecC-CEEEecCHHHHHh
Confidence            8888888888872  2 4444443221 223  222   34588899999998764 5566 56888875

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

Probab=98.09  E-value=5.3e-07  Score=77.36  Aligned_cols=118  Identities=14%  Similarity=0.048  Sum_probs=82.2

Q ss_pred             CCCCCCCcEEEcCCC-CCCcc----cCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCC
Q 012324          260 MPRLNNLVILNLRSG-KSLKS----LPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRR  334 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~-~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~  334 (466)
                      +...++|+.|+|++| .+...    +...+...++|++|++++|.+...                 ....+...+...++
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~-----------------g~~~l~~~L~~n~~   94 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDP-----------------VAFALAEMLKVNNT   94 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHH-----------------HHHHHHHHHHHCSS
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChH-----------------HHHHHHHHHHhCCC
Confidence            456689999999998 66543    445566778899999998764321                 11234555666678


Q ss_pred             CCeeeccccccccc----cccccCCCCCCCEEEe--cCCCCCCC----CCcccCCCCCCcEEEccCCCcc
Q 012324          335 LGYLNLSDCKRLKS----LPSSLCKLKSLKVLNL--CGCSNLQR----LPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       335 L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l--~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      |++|++++|.+...    +...+...++|++|++  ++|.+...    +.+.+...+.|+.|++++|.+.
T Consensus        95 L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A           95 LKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             CCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             cCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCCC
Confidence            88888888775443    3455677788999999  66666543    3345556688999999988876

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

Probab=98.06  E-value=1.1e-06  Score=83.62  Aligned_cols=136  Identities=13%  Similarity=-0.001  Sum_probs=88.2

Q ss_pred             CcccccCcccCEEecCCCCCCC---------ccCC--CCCCcccEEeecCccCcccChhhhccCCCCeeecccccccccc
Q 012324          281 PSGIFNLEFLTKLDLSGCSKLK---------RLPE--ISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSL  349 (466)
Q Consensus       281 ~~~l~~l~~L~~L~l~~~~~~~---------~~~~--~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~  349 (466)
                      ..++.++++|+.|.+.......         .++.  ...+.|+.|+++++.-..++. + .+++|++|++..|.+....
T Consensus       132 ~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~l~~~~  209 (362)
T 2ra8_A          132 VENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGGLPDSV  209 (362)
T ss_dssp             HTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSBCCHHH
T ss_pred             HHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCCCChHH
Confidence            4456678999999987643211         1111  123578999998874234554 3 3889999999887754443


Q ss_pred             ccccC--CCCCCCEEEecCC--CCCC-----CCCccc--CCCCCCcEEEccCCCcc-ccchhhh---ccCCCcEeecccC
Q 012324          350 PSSLC--KLKSLKVLNLCGC--SNLQ-----RLPECL--GQLSSPIILNLAKTNIE-RIPESII---QLFVLRYLLLSYS  414 (466)
Q Consensus       350 p~~~~--~l~~L~~L~l~~~--~~~~-----~~p~~l--~~l~~L~~L~l~~~~l~-~lp~~l~---~l~~L~~L~l~~~  414 (466)
                      ...+.  .+++|+.|+++.+  ...+     .+...+  ..+++|+.|++++|.+. ..+..+.   .+++|++|+++.|
T Consensus       210 l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n  289 (362)
T 2ra8_A          210 VEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAG  289 (362)
T ss_dssp             HHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSS
T ss_pred             HHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCC
Confidence            33343  7899999998532  1111     111222  35899999999999887 3333333   5889999999988


Q ss_pred             cCCC
Q 012324          415 ERFQ  418 (466)
Q Consensus       415 ~~~~  418 (466)
                      .+..
T Consensus       290 ~L~d  293 (362)
T 2ra8_A          290 VLTD  293 (362)
T ss_dssp             CCBH
T ss_pred             CCCh
Confidence            7544

>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=98.02  E-value=2e-06  Score=72.17  Aligned_cols=85  Identities=19%  Similarity=0.251  Sum_probs=42.4

Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCC-CCCCCcccCCC----CCCcEEEccCC-Ccc-ccchhhhccCCC
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSN-LQRLPECLGQL----SSPIILNLAKT-NIE-RIPESIIQLFVL  406 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~-~~~~p~~l~~l----~~L~~L~l~~~-~l~-~lp~~l~~l~~L  406 (466)
                      +|+.|++++|.+....-..+..+++|++|++++|.. +...-..+..+    ++|++|++++| +++ .-...+.++++|
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L~~~~~L  141 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNL  141 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHGGGCTTC
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHHhcCCCC
Confidence            455555555543333333345566666666666542 22222233332    24666666654 355 112345566667


Q ss_pred             cEeecccCcCCC
Q 012324          407 RYLLLSYSERFQ  418 (466)
Q Consensus       407 ~~L~l~~~~~~~  418 (466)
                      ++|++++|+.++
T Consensus       142 ~~L~L~~c~~It  153 (176)
T 3e4g_A          142 KYLFLSDLPGVK  153 (176)
T ss_dssp             CEEEEESCTTCC
T ss_pred             CEEECCCCCCCC
Confidence            777766665443

>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=6e-06  Score=74.55  Aligned_cols=62  Identities=26%  Similarity=0.265  Sum_probs=29.0

Q ss_pred             ccCCCCeeecccccccc--ccccccCCCCCCCEEEecCCCCCCCCCcccCCCC--CCcEEEccCCCcc
Q 012324          331 RLRRLGYLNLSDCKRLK--SLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS--SPIILNLAKTNIE  394 (466)
Q Consensus       331 ~l~~L~~L~l~~~~~~~--~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~--~L~~L~l~~~~l~  394 (466)
                      ++++|+.|+|++|.+.+  .+|..+..+++|+.|++++|.+.+.  ..+..+.  +|+.|++++|.+.
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~--~~l~~l~~l~L~~L~L~~Npl~  233 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE--RELDKIKGLKLEELWLDGNSLC  233 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG--GGGGGGTTSCCSEEECTTSTTG
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc--hhhhhcccCCcceEEccCCcCc
Confidence            45556666665555433  2333344555555555555444332  1122222  4555555555544

>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=97.77  E-value=1.5e-05  Score=72.03  Aligned_cols=84  Identities=15%  Similarity=0.133  Sum_probs=65.6

Q ss_pred             CCCCCCCEEEecCCCCCC--CCCcccCCCCCCcEEEccCCCccccchhhhccC--CCcEeecccCcCCCcCCCC----eE
Q 012324          354 CKLKSLKVLNLCGCSNLQ--RLPECLGQLSSPIILNLAKTNIERIPESIIQLF--VLRYLLLSYSERFQSLPKP----LF  425 (466)
Q Consensus       354 ~~l~~L~~L~l~~~~~~~--~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~--~L~~L~l~~~~~~~~~p~~----~~  425 (466)
                      .++++|+.|++++|.+.+  .+|..+..+++|+.|+|++|.++.+ ..+..+.  +|+.|++++|++.+.+|..    ..
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~  245 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISA  245 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHH
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHHH
Confidence            468899999999998877  5667778899999999999999977 3455555  9999999999998888752    12


Q ss_pred             eccCCCCcccccc
Q 012324          426 LARGCLALEPFLG  438 (466)
Q Consensus       426 ~l~~~~~L~~l~~  438 (466)
                      .+..+++|+.+.+
T Consensus       246 il~~~P~L~~LDg  258 (267)
T 3rw6_A          246 IRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHCTTCCEESS
T ss_pred             HHHHCcccCeECC
Confidence            2445666665554

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.76  E-value=1.7e-05  Score=66.52  Aligned_cols=36  Identities=11%  Similarity=0.218  Sum_probs=24.4

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCC
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS  299 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~  299 (466)
                      -+|+.||+++|.++..-...+..+++|+.|+|++|.
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~   96 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCH   96 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCC
Confidence            367777887776555544456677777777777764

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.22  E-value=0.00076  Score=59.77  Aligned_cols=99  Identities=11%  Similarity=0.105  Sum_probs=69.9

Q ss_pred             eEEEEEeCCCC--hHhHHHHHhcCCCCCCCcEEEEEeCChhhH-hh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTC--FSQLESIIRSLDWLTPVSRIIITTRNKQVL-RN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~--~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~-~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +.+||+||++.  .+.++.+...+.....+.++|+||+..... .. ......+++++++.+|..+++.+.+......  
T Consensus       127 ~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~--  204 (250)
T 1njg_A          127 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--  204 (250)
T ss_dssp             SEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCC--
T ss_pred             ceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCC--
Confidence            57999999954  456777776665555678888888765421 11 1223689999999999999999877432211  


Q ss_pred             hHHHHHHHHHHHhCCCceeehhhhh
Q 012324           78 GYEKLSSKVMKYAQGVPLALKVLGC  102 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~~~~~  102 (466)
                      -..+....|++.|+|.|..+..+..
T Consensus       205 ~~~~~~~~l~~~~~G~~~~~~~~~~  229 (250)
T 1njg_A          205 HEPRALQLLARAAEGSLRDALSLTD  229 (250)
T ss_dssp             BCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            1245677899999999988776654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=97.12  E-value=0.0047  Score=59.38  Aligned_cols=80  Identities=20%  Similarity=0.206  Sum_probs=50.3

Q ss_pred             cCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCCcCCCCeEeccCCC
Q 012324          353 LCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLARGCL  431 (466)
Q Consensus       353 ~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~  431 (466)
                      +..+.+|+.+.+.. +....-..+|.++++|+.+.+.. +++.+.. .|.++++|+.+.+..+  +..++..-+  .+|.
T Consensus       293 F~~~~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~-~v~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF--~~C~  366 (394)
T 4fs7_A          293 FYGCSSLTEVKLLD-SVKFIGEEAFESCTSLVSIDLPY-LVEEIGKRSFRGCTSLSNINFPLS--LRKIGANAF--QGCI  366 (394)
T ss_dssp             TTTCTTCCEEEECT-TCCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCTTCCEECCCTT--CCEECTTTB--TTCT
T ss_pred             cccccccccccccc-ccceechhhhcCCCCCCEEEeCC-cccEEhHHhccCCCCCCEEEECcc--ccEehHHHh--hCCC
Confidence            45566777777754 33333345677788888888754 3665543 6777888888887654  445555433  4777


Q ss_pred             Ccccccc
Q 012324          432 ALEPFLG  438 (466)
Q Consensus       432 ~L~~l~~  438 (466)
                      +|+.+..
T Consensus       367 ~L~~i~l  373 (394)
T 4fs7_A          367 NLKKVEL  373 (394)
T ss_dssp             TCCEEEE
T ss_pred             CCCEEEE
Confidence            7776443

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.77  E-value=0.0088  Score=57.43  Aligned_cols=16  Identities=6%  Similarity=0.243  Sum_probs=9.9

Q ss_pred             cccccCcccCEEecCC
Q 012324          282 SGIFNLEFLTKLDLSG  297 (466)
Q Consensus       282 ~~l~~l~~L~~L~l~~  297 (466)
                      ..+.++.+|+.+.+..
T Consensus       259 ~aF~~c~~L~~i~lp~  274 (394)
T 4gt6_A          259 HAFDSCAYLASVKMPD  274 (394)
T ss_dssp             TTTTTCSSCCEEECCT
T ss_pred             ceeeecccccEEeccc
Confidence            3456666777766654

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=96.50  E-value=0.023  Score=54.44  Aligned_cols=162  Identities=9%  Similarity=0.007  Sum_probs=102.4

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC---CCCCcccEEeecCccCcccChhhhccCCCCe
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPSSIDRLRRLGY  337 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~  337 (466)
                      .....|+.+.+... ....-...+..+..|+.+.+..+..  .++.   .....++.+....+.+.  ...+..+.+|+.
T Consensus       227 ~~~~~l~~i~ip~~-~~~i~~~~f~~~~~l~~~~~~~~~~--~i~~~~F~~~~~l~~~~~~~~~i~--~~~F~~~~~L~~  301 (394)
T 4fs7_A          227 LSKTGVKNIIIPDS-FTELGKSVFYGCTDLESISIQNNKL--RIGGSLFYNCSGLKKVIYGSVIVP--EKTFYGCSSLTE  301 (394)
T ss_dssp             TTTCCCCEEEECTT-CCEECSSTTTTCSSCCEEEECCTTC--EECSCTTTTCTTCCEEEECSSEEC--TTTTTTCTTCCE
T ss_pred             cccCCCceEEECCC-ceecccccccccccceeEEcCCCcc--eeeccccccccccceeccCceeec--cccccccccccc
Confidence            34567888888654 3322334466788888888876532  2222   22234455555443322  124677888998


Q ss_pred             eecccccccccc-ccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCc
Q 012324          338 LNLSDCKRLKSL-PSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       338 L~l~~~~~~~~~-p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~  415 (466)
                      +.+..+  ...+ ...+..+.+|+.+.+.. +....-..+|.++++|+.+.+..+ ++.+.. .|.++++|+.+.+..+-
T Consensus       302 i~l~~~--i~~I~~~aF~~c~~L~~i~lp~-~v~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~lp~~~  377 (394)
T 4fs7_A          302 VKLLDS--VKFIGEEAFESCTSLVSIDLPY-LVEEIGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLKKVELPKRL  377 (394)
T ss_dssp             EEECTT--CCEECTTTTTTCTTCCEECCCT-TCCEECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCCEEEEEGGG
T ss_pred             cccccc--cceechhhhcCCCCCCEEEeCC-cccEEhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCCEEEECCCC
Confidence            888753  3333 35577889999999865 344444568899999999999765 676654 78889999999987542


Q ss_pred             CCCcCCCCeEeccCCCCcccc
Q 012324          416 RFQSLPKPLFLARGCLALEPF  436 (466)
Q Consensus       416 ~~~~~p~~~~~l~~~~~L~~l  436 (466)
                        ..+..   ...+|++|+.+
T Consensus       378 --~~~~~---~F~~c~~L~~I  393 (394)
T 4fs7_A          378 --EQYRY---DFEDTTKFKWI  393 (394)
T ss_dssp             --GGGGG---GBCTTCEEEEE
T ss_pred             --EEhhh---eecCCCCCcEE
Confidence              22322   24577777643

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.37  E-value=0.032  Score=53.12  Aligned_cols=146  Identities=12%  Similarity=0.072  Sum_probs=78.9

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC---CCCCcccEEeecCccCcccCh-hhhccCCCC
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE---ISSGNVCWLFLRGTAIEELPS-SIDRLRRLG  336 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~---~~~~~l~~L~l~~~~i~~lp~-~l~~l~~L~  336 (466)
                      ..+..+..+.+... ........+..+.+|+.+.+..+  ...++.   .....++.+.+..+ ++.++. .+.++.+|+
T Consensus       191 ~~~~~~~~~~~~~~-~~~i~~~~f~~~~~l~~i~~~~~--~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~  266 (379)
T 4h09_A          191 PAAKTGTEFTIPST-VKTVTAYGFSYGKNLKKITITSG--VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALK  266 (379)
T ss_dssp             CTTCCCSEEECCTT-CCEECTTTTTTCSSCSEEECCTT--CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCC
T ss_pred             cccccccccccccc-eeEEeecccccccccceeeeccc--eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhc
Confidence            33444444444332 22222233444555555555432  111111   11234455555433 444433 456677777


Q ss_pred             eeeccccccccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeeccc
Q 012324          337 YLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSY  413 (466)
Q Consensus       337 ~L~l~~~~~~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~  413 (466)
                      .+.+..+  ...++ ..+..+.+|+.+.+.++.....-...|.++.+|+.+.+..+ ++.+.. .|.++++|+.+.+..
T Consensus       267 ~i~l~~~--i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~~i~ip~  342 (379)
T 4h09_A          267 TLNFYAK--VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSVTLPTA-LKTIQVYAFKNCKALSTISYPK  342 (379)
T ss_dssp             EEEECCC--CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCCCCCCT
T ss_pred             ccccccc--ceeccccccccccccccccccccccceehhhhhcCCCCCCEEEcCcc-ccEEHHHHhhCCCCCCEEEECC
Confidence            7777542  23333 34667788888888765554444567788888888888643 565544 577778888777753

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=96.32  E-value=0.0025  Score=61.58  Aligned_cols=179  Identities=11%  Similarity=0.128  Sum_probs=97.4

Q ss_pred             CeEEEEEeCCCCh--------HhHHHHHhcCCCC---C--CCcEEEEEeCChhhHhhcC---------cceEEEccCCCh
Q 012324            1 MKVLIVFDDVTCF--------SQLESIIRSLDWL---T--PVSRIIITTRNKQVLRNWG---------VRKIYEIEALEN   58 (466)
Q Consensus         1 kr~LlvlDd~~~~--------~~~~~l~~~~~~~---~--~gs~IlvTTR~~~v~~~~~---------~~~~~~l~~L~~   58 (466)
                      ++++|||||++..        +.+..+...+.+.   +  ....||+||+..++.....         ....+++++++.
T Consensus       138 ~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~  217 (412)
T 1w5s_A          138 HYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKS  217 (412)
T ss_dssp             CEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCH
T ss_pred             CeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCH
Confidence            4789999999753        2344333322211   2  3344787887665432111         123499999999


Q ss_pred             hhHHHHHHHhh---cCCCCCCchHHHHHHHHHHHhC------CCceeehhhhhhcc------cC---CHHHHHHHHHHHH
Q 012324           59 HHALELFSRHA---FKRNHPDVGYEKLSSKVMKYAQ------GVPLALKVLGCFLY------ER---EKEVSESAINKLQ  120 (466)
Q Consensus        59 ~~~~~Lf~~~~---~~~~~~~~~~~~~~~~i~~~c~------glPlai~~~~~~l~------~~---~~~~w~~~~~~l~  120 (466)
                      ++++++|...+   +.+...+   .+.+..|++.++      |.|..+..+.....      ..   +...+..+.....
T Consensus       218 ~e~~~ll~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~  294 (412)
T 1w5s_A          218 RELYTILEQRAELGLRDTVWE---PRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENE  294 (412)
T ss_dssp             HHHHHHHHHHHHHHBCTTSCC---HHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhcCCCCCCC---hHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence            99999997654   3322222   456778888899      99976655543211      01   1222222222110


Q ss_pred             hccchhHHHHHHHHHhcCchhhhhhhceeeccC----CCccHHHHHHHH-----HhcCCCc------cchhhhhhcccce
Q 012324          121 RILHPSILEVLKISYDSLDNKEKNIFLDVACFF----QGEDVNLVMKFL-----NASGFYP------EIGISVLVDKSLI  185 (466)
Q Consensus       121 ~~~~~~~~~~l~~sy~~L~~~~~~~~~~~~~fp----~~~~~~~l~~~~-----~~~~~~~------~~~~~~L~~~sl~  185 (466)
                         .   ...+..++..||+..+.++..++.+.    ..+....+...+     ...|..+      ...++.|.+.+++
T Consensus       295 ---~---~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli  368 (412)
T 1w5s_A          295 ---A---ASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLV  368 (412)
T ss_dssp             -----------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSE
T ss_pred             ---c---cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCE
Confidence               0   12233455788888888888787653    123343332222     1223221      2347888889998


Q ss_pred             EEc
Q 012324          186 AIG  188 (466)
Q Consensus       186 ~~~  188 (466)
                      ...
T Consensus       369 ~~~  371 (412)
T 1w5s_A          369 DAK  371 (412)
T ss_dssp             EEE
T ss_pred             Eee
Confidence            764

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.19  E-value=0.067  Score=50.83  Aligned_cols=172  Identities=13%  Similarity=0.081  Sum_probs=106.2

Q ss_pred             CCCCCCCCcEEEcCCCCCCcc------------cCcccccCcccCEEecCCCCCC-CccCCCCCCcccEEeecCccCccc
Q 012324          259 LMPRLNNLVILNLRSGKSLKS------------LPSGIFNLEFLTKLDLSGCSKL-KRLPEISSGNVCWLFLRGTAIEEL  325 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~------------~~~~l~~l~~L~~L~l~~~~~~-~~~~~~~~~~l~~L~l~~~~i~~l  325 (466)
                      .+..+..+..+.+..+.....            ....+..+..+..+.+...... ..........++.+.+..+ +..+
T Consensus       153 ~f~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~~~~l~~i~~~~~-~~~i  231 (379)
T 4h09_A          153 IGYKAENLEKIEVSSNNKNYVAENYVLYNKNKTILESYPAAKTGTEFTIPSTVKTVTAYGFSYGKNLKKITITSG-VTTL  231 (379)
T ss_dssp             TTTTCTTCCEEEECTTCSSEEEETTEEEETTSSEEEECCTTCCCSEEECCTTCCEECTTTTTTCSSCSEEECCTT-CCEE
T ss_pred             hhcccccccccccccccceeecccceecccccceeccccccccccccccccceeEEeecccccccccceeeeccc-eeEE
Confidence            467778888887765432211            1122334444555544432111 1111222345666666543 4444


Q ss_pred             C-hhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhcc
Q 012324          326 P-SSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQL  403 (466)
Q Consensus       326 p-~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l  403 (466)
                      + ..+.++..|+.+.+..+ ....-...+..+.+|+.+.+.. .........|..+++|+.+.+..+.++.++. .|.++
T Consensus       232 ~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~-~i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c  309 (379)
T 4h09_A          232 GDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYA-KVKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDC  309 (379)
T ss_dssp             CTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECC-CCSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTC
T ss_pred             ccccccCCccceEEEcCCC-ccEeCccccceeehhccccccc-cceeccccccccccccccccccccccceehhhhhcCC
Confidence            3 35678889999988753 2222234567888999999965 3443334578899999999999998987765 78899


Q ss_pred             CCCcEeecccCcCCCcCCCCeEeccCCCCccccc
Q 012324          404 FVLRYLLLSYSERFQSLPKPLFLARGCLALEPFL  437 (466)
Q Consensus       404 ~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~  437 (466)
                      ++|+.+.+..+  +..++..-+  .+|.+|+.+.
T Consensus       310 ~~L~~i~lp~~--l~~I~~~aF--~~C~~L~~i~  339 (379)
T 4h09_A          310 VKLSSVTLPTA--LKTIQVYAF--KNCKALSTIS  339 (379)
T ss_dssp             TTCCEEECCTT--CCEECTTTT--TTCTTCCCCC
T ss_pred             CCCCEEEcCcc--ccEEHHHHh--hCCCCCCEEE
Confidence            99999999644  455555433  4777777644

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.05  E-value=0.064  Score=51.31  Aligned_cols=102  Identities=16%  Similarity=0.183  Sum_probs=62.0

Q ss_pred             CcccEEeecCccCcccChhhhccCCCCeeeccccccccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEc
Q 012324          310 GNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNL  388 (466)
Q Consensus       310 ~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l  388 (466)
                      ..++.+.+..+...--...+.++.+|+.+.+.. . ...++ ..+..+.+|+.+.+.. +.......+|..|++|+.+.+
T Consensus       265 ~~L~~i~lp~~~~~I~~~aF~~c~~L~~i~l~~-~-i~~I~~~aF~~c~~L~~i~lp~-~v~~I~~~aF~~C~~L~~i~i  341 (394)
T 4gt6_A          265 AYLASVKMPDSVVSIGTGAFMNCPALQDIEFSS-R-ITELPESVFAGCISLKSIDIPE-GITQILDDAFAGCEQLERIAI  341 (394)
T ss_dssp             SSCCEEECCTTCCEECTTTTTTCTTCCEEECCT-T-CCEECTTTTTTCTTCCEEECCT-TCCEECTTTTTTCTTCCEEEE
T ss_pred             ccccEEecccccceecCcccccccccccccCCC-c-ccccCceeecCCCCcCEEEeCC-cccEehHhHhhCCCCCCEEEE
Confidence            345666665433222223456777777777753 2 33333 4466777888887765 343334456777888888887


Q ss_pred             cCCCccccch-hhhccCCCcEeecccCc
Q 012324          389 AKTNIERIPE-SIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       389 ~~~~l~~lp~-~l~~l~~L~~L~l~~~~  415 (466)
                      .. +++.+.. .|.++++|+.+.+.++.
T Consensus       342 p~-sv~~I~~~aF~~C~~L~~i~~~~~~  368 (394)
T 4gt6_A          342 PS-SVTKIPESAFSNCTALNNIEYSGSR  368 (394)
T ss_dssp             CT-TCCBCCGGGGTTCTTCCEEEESSCH
T ss_pred             Cc-ccCEEhHhHhhCCCCCCEEEECCce
Confidence            54 3565543 67778888888777653

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=95.86  E-value=0.0056  Score=52.11  Aligned_cols=15  Identities=7%  Similarity=-0.002  Sum_probs=9.6

Q ss_pred             cccCcccCEEecCCC
Q 012324          284 IFNLEFLTKLDLSGC  298 (466)
Q Consensus       284 l~~l~~L~~L~l~~~  298 (466)
                      +.+-+.|+.|++++|
T Consensus        37 l~~n~~L~~L~L~~n   51 (197)
T 1pgv_A           37 REDDTDLKEVNINNM   51 (197)
T ss_dssp             HTTCSSCCEEECTTC
T ss_pred             HhcCCCccEEECCCC
Confidence            344566777777764

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.70  E-value=0.023  Score=44.92  Aligned_cols=35  Identities=23%  Similarity=0.198  Sum_probs=20.2

Q ss_pred             CCcEEEccCCCccccch-hhhccCCCcEeecccCcC
Q 012324          382 SPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       382 ~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~  416 (466)
                      +|+.|+|++|+|+.+|. .|..+++|+.|+|++|++
T Consensus        32 ~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           32 DTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             TCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             CCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            45666666666665554 345566666666666553

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=95.45  E-value=0.02  Score=49.51  Aligned_cols=97  Identities=8%  Similarity=0.062  Sum_probs=63.8

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChhhH-hh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQVL-RN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~v~-~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +.+||+||++..  ...+.+...+.....+.++|+||+..... .. ......+++++++.++..+++.+.+......  
T Consensus       103 ~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~~~--  180 (226)
T 2chg_A          103 FKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVK--  180 (226)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--
T ss_pred             ceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHHHHHHHHHHcCCC--
Confidence            578999999754  34555555544445677888888876321 11 1222489999999999999998876421111  


Q ss_pred             hHHHHHHHHHHHhCCCceeehhh
Q 012324           78 GYEKLSSKVMKYAQGVPLALKVL  100 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~~~  100 (466)
                      -..+..+.+++.++|.|..+..+
T Consensus       181 ~~~~~~~~l~~~~~g~~r~l~~~  203 (226)
T 2chg_A          181 ITEDGLEALIYISGGDFRKAINA  203 (226)
T ss_dssp             BCHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHH
Confidence            11456677889999999765443

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.95  E-value=0.032  Score=51.66  Aligned_cols=95  Identities=8%  Similarity=0.110  Sum_probs=62.5

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChhh-Hhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQV-LRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~v-~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +.++|+||++..  +.++.+...+.+...++++|+||+...- ... ......+++++++.++..+++...+......  
T Consensus       108 ~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~--  185 (323)
T 1sxj_B          108 HKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVK--  185 (323)
T ss_dssp             CEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--
T ss_pred             ceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHHHHHHHHHHHcCCC--
Confidence            678999999753  3455555444434567788888876532 111 1223589999999999999998876321111  


Q ss_pred             hHHHHHHHHHHHhCCCceeeh
Q 012324           78 GYEKLSSKVMKYAQGVPLALK   98 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~   98 (466)
                      -..+.+..+++.++|.|..+.
T Consensus       186 ~~~~~~~~l~~~~~G~~r~a~  206 (323)
T 1sxj_B          186 YTNDGLEAIIFTAEGDMRQAI  206 (323)
T ss_dssp             BCHHHHHHHHHHHTTCHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHH
Confidence            114566789999999995543

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.90  E-value=0.079  Score=50.34  Aligned_cols=175  Identities=15%  Similarity=0.064  Sum_probs=94.9

Q ss_pred             EEEEEeCCCChHh---HHHHHhcCCCCCCCcEEEEEeCChhhHhhc------CcceEEEccCCChhhHHHHHHHhhc---
Q 012324            3 VLIVFDDVTCFSQ---LESIIRSLDWLTPVSRIIITTRNKQVLRNW------GVRKIYEIEALENHHALELFSRHAF---   70 (466)
Q Consensus         3 ~LlvlDd~~~~~~---~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~------~~~~~~~l~~L~~~~~~~Lf~~~~~---   70 (466)
                      .+|||||++....   .+.+...+.....+..||+||+.......+      .....+.+++++.++..+++...+.   
T Consensus       135 ~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~  214 (384)
T 2qby_B          135 AIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGL  214 (384)
T ss_dssp             EEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTS
T ss_pred             CEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhc
Confidence            3899999975432   122021211111677889999876321111      1123899999999999999998753   


Q ss_pred             CCCCCCchHHHHHHHHHHHhC---CCceeeh-hhhh--hcc-c---CCHHHHHHHHHHHHhccchhHHHHHHHHHhcCch
Q 012324           71 KRNHPDVGYEKLSSKVMKYAQ---GVPLALK-VLGC--FLY-E---REKEVSESAINKLQRILHPSILEVLKISYDSLDN  140 (466)
Q Consensus        71 ~~~~~~~~~~~~~~~i~~~c~---glPlai~-~~~~--~l~-~---~~~~~w~~~~~~l~~~~~~~~~~~l~~sy~~L~~  140 (466)
                      .+...+   .+..+.+++.++   |.|..+. .+..  .++ +   -+.+.+..+++...       ...+..++..|++
T Consensus       215 ~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~i~~~~v~~~~~~~~-------~~~~~~~~~~l~~  284 (384)
T 2qby_B          215 IKGTYD---DEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGIIRKEHVDKAIVDYE-------QERLIEAVKALPF  284 (384)
T ss_dssp             CTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSCCCHHHHHHHHHHHH-------HHHHHHHHHSSCH
T ss_pred             ccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHh-------cchHHHHHHcCCH
Confidence            222223   334566777777   8776332 2221  111 1   14555665555532       2346667788888


Q ss_pred             hhhhhhceeeccCCCccHH-HHHHHHHhcCCCc------cchhhhhhcccceEE
Q 012324          141 KEKNIFLDVACFFQGEDVN-LVMKFLNASGFYP------EIGISVLVDKSLIAI  187 (466)
Q Consensus       141 ~~~~~~~~~~~fp~~~~~~-~l~~~~~~~~~~~------~~~~~~L~~~sl~~~  187 (466)
                      ..+..+..++....+.++. .....-...|..+      ...+..|...+++..
T Consensus       285 ~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~L~~~gli~~  338 (384)
T 2qby_B          285 HYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRFSDIISELDMFGIVKI  338 (384)
T ss_dssp             HHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCEEE
Confidence            7777766666511101222 1111112222111      223677888888876

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=94.81  E-value=0.058  Score=42.56  Aligned_cols=53  Identities=23%  Similarity=0.259  Sum_probs=29.1

Q ss_pred             EEecCCCCCC-CccCCCCCCcccEEeecCccCcccChh-hhccCCCCeeeccccc
Q 012324          292 KLDLSGCSKL-KRLPEISSGNVCWLFLRGTAIEELPSS-IDRLRRLGYLNLSDCK  344 (466)
Q Consensus       292 ~L~l~~~~~~-~~~~~~~~~~l~~L~l~~~~i~~lp~~-l~~l~~L~~L~l~~~~  344 (466)
                      .++-+++.+. ..+|..+..+++.|+|++|+|+.+|.. +..+++|++|+|.+|.
T Consensus        12 ~v~Cs~~~L~~~~vP~~lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAFPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             EEECCSSCCCTTTSCSCCCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             EEEeCCCCCccccCCCCCCcCCCEEECCCCcCCccChhhhhhccccCEEEecCCC
Confidence            3444444332 245555555566666666666666553 4556666666666554

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.72  E-value=0.071  Score=50.55  Aligned_cols=140  Identities=14%  Similarity=0.089  Sum_probs=79.2

Q ss_pred             eEEEEEeCCCCh------HhHHHHHhcCCC-CCCCcEEEEEeCChhhHhhcC-------cceEEEccCCChhhHHHHHHH
Q 012324            2 KVLIVFDDVTCF------SQLESIIRSLDW-LTPVSRIIITTRNKQVLRNWG-------VRKIYEIEALENHHALELFSR   67 (466)
Q Consensus         2 r~LlvlDd~~~~------~~~~~l~~~~~~-~~~gs~IlvTTR~~~v~~~~~-------~~~~~~l~~L~~~~~~~Lf~~   67 (466)
                      +.+||||+++..      +.+..+...+.. ...+..+|+||+.......+.       ....+.+++++.++..+++.+
T Consensus       129 ~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~  208 (386)
T 2qby_A          129 QVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTK  208 (386)
T ss_dssp             CEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHH
T ss_pred             eEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHH
Confidence            679999998643      234444433311 133456788888765433221       125899999999999999988


Q ss_pred             hhc---CCCCCCchHHHHHHHHHHHhC---CCceeehhhhhhcc------c--C-CHHHHHHHHHHHHhccchhHHHHHH
Q 012324           68 HAF---KRNHPDVGYEKLSSKVMKYAQ---GVPLALKVLGCFLY------E--R-EKEVSESAINKLQRILHPSILEVLK  132 (466)
Q Consensus        68 ~~~---~~~~~~~~~~~~~~~i~~~c~---glPlai~~~~~~l~------~--~-~~~~w~~~~~~l~~~~~~~~~~~l~  132 (466)
                      .+.   .....+   .+..+.+++.++   |.|..+..+.....      +  . +.+....+.....       ...+.
T Consensus       209 ~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~~~~~  278 (386)
T 2qby_A          209 RAQMAFKPGVLP---DNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEIE-------RDRVR  278 (386)
T ss_dssp             HHHHHBCSSCSC---HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHH-------HHHHH
T ss_pred             HHHhhccCCCCC---HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHHh-------hchHH
Confidence            642   222222   445566777776   98875443322111      1  1 3344444443322       23455


Q ss_pred             HHHhcCchhhhhhhceeec
Q 012324          133 ISYDSLDNKEKNIFLDVAC  151 (466)
Q Consensus       133 ~sy~~L~~~~~~~~~~~~~  151 (466)
                      -.+..++...+..+..++.
T Consensus       279 ~~~~~l~~~~~~il~ai~~  297 (386)
T 2qby_A          279 DIILTLPFHSKLVLMAVVS  297 (386)
T ss_dssp             HHHHTSCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHH
Confidence            6677888777766665553

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=94.37  E-value=0.026  Score=48.00  Aligned_cols=104  Identities=13%  Similarity=0.028  Sum_probs=48.8

Q ss_pred             cccEEeecCc-cCc-----ccChhhhccCCCCeeecccccccccc----ccccCCCCCCCEEEecCCCCCCC----CCcc
Q 012324          311 NVCWLFLRGT-AIE-----ELPSSIDRLRRLGYLNLSDCKRLKSL----PSSLCKLKSLKVLNLCGCSNLQR----LPEC  376 (466)
Q Consensus       311 ~l~~L~l~~~-~i~-----~lp~~l~~l~~L~~L~l~~~~~~~~~----p~~~~~l~~L~~L~l~~~~~~~~----~p~~  376 (466)
                      .++.|+++++ .|.     .+...+..-+.|+.|+|++|.+....    .+.+..-+.|++|++++|.+...    +-+.
T Consensus        42 ~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~ala~a  121 (197)
T 1pgv_A           42 DLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRS  121 (197)
T ss_dssp             SCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHH
T ss_pred             CccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHHHHHH
Confidence            4556666653 544     23344444556666666665543221    12233445566666665544322    1223


Q ss_pred             cCCCCCCcEEEccCC---Ccc-----ccchhhhccCCCcEeecccC
Q 012324          377 LGQLSSPIILNLAKT---NIE-----RIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       377 l~~l~~L~~L~l~~~---~l~-----~lp~~l~~l~~L~~L~l~~~  414 (466)
                      +..-+.|+.|+++++   .+.     .+...+..-+.|..|+++.|
T Consensus       122 L~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~  167 (197)
T 1pgv_A          122 TLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  167 (197)
T ss_dssp             TTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCC
Confidence            344445666666543   222     12233444455555555543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=93.11  E-value=0.57  Score=44.19  Aligned_cols=139  Identities=15%  Similarity=0.096  Sum_probs=77.4

Q ss_pred             CeEEEEEeCCCChHh-------HHHHHhcCCCC--CCCcEEEEEeCChhhH--------hhcCcceEEEccCCChhhHHH
Q 012324            1 MKVLIVFDDVTCFSQ-------LESIIRSLDWL--TPVSRIIITTRNKQVL--------RNWGVRKIYEIEALENHHALE   63 (466)
Q Consensus         1 kr~LlvlDd~~~~~~-------~~~l~~~~~~~--~~gs~IlvTTR~~~v~--------~~~~~~~~~~l~~L~~~~~~~   63 (466)
                      ++.+||||++.....       ...+.......  ..+..+|.||+.....        ..+. ...+.+++++.++..+
T Consensus       130 ~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~~~~~l~~~l~~r~~-~~~i~l~~l~~~~~~~  208 (387)
T 2v1u_A          130 GIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLG-EVELVFPPYTAPQLRD  208 (387)
T ss_dssp             SEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCSTTSSSSCHHHHTTTT-SEECCBCCCCHHHHHH
T ss_pred             CeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCchHhhhCHHHHhcCC-CeEEeeCCCCHHHHHH
Confidence            367999999975432       22223222211  3455678888766321        1121 1489999999999999


Q ss_pred             HHHHhh---cCCCCCCchHHHHHHHHHHHhC---CCceeehhhh-hhc--c---c---CCHHHHHHHHHHHHhccchhHH
Q 012324           64 LFSRHA---FKRNHPDVGYEKLSSKVMKYAQ---GVPLALKVLG-CFL--Y---E---REKEVSESAINKLQRILHPSIL  128 (466)
Q Consensus        64 Lf~~~~---~~~~~~~~~~~~~~~~i~~~c~---glPlai~~~~-~~l--~---~---~~~~~w~~~~~~l~~~~~~~~~  128 (466)
                      ++.+.+   +.+...++   +..+.+++.++   |.|-.+..+. ...  .   +   -+.+.+..+.....       .
T Consensus       209 il~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~  278 (387)
T 2v1u_A          209 ILETRAEEAFNPGVLDP---DVVPLCAALAAREHGDARRALDLLRVAGEIAERRREERVRREHVYSARAEIE-------R  278 (387)
T ss_dssp             HHHHHHHHHBCTTTBCS---SHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHHH-------H
T ss_pred             HHHHHHHhhccCCCCCH---HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHh-------h
Confidence            999875   23222232   34566777777   9984333222 111  1   1   13444555544432       2


Q ss_pred             HHHHHHHhcCchhhhhhhceee
Q 012324          129 EVLKISYDSLDNKEKNIFLDVA  150 (466)
Q Consensus       129 ~~l~~sy~~L~~~~~~~~~~~~  150 (466)
                      ..+.-++..|+...+..+..++
T Consensus       279 ~~~~~~~~~l~~~~~~~l~a~~  300 (387)
T 2v1u_A          279 DRVSEVVRTLPLHAKLVLLSIM  300 (387)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHH
T ss_pred             chHHHHHHcCCHHHHHHHHHHH
Confidence            2355567888887776666555

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=92.05  E-value=0.33  Score=44.69  Aligned_cols=98  Identities=11%  Similarity=0.121  Sum_probs=65.0

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChhh-Hhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQV-LRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~v-~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +.++|+||++..  +.++.+...+.+...+.++|+||....- ... ......+++++++.++..+++.+.+......  
T Consensus       111 ~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~~l~~~~~~~~~~--  188 (327)
T 1iqp_A          111 FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE--  188 (327)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTTCE--
T ss_pred             CeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHHHHHHHHHhcCCC--
Confidence            568999999753  4466666555444567788888876532 111 1112479999999999999998876432211  


Q ss_pred             hHHHHHHHHHHHhCCCceeehhhh
Q 012324           78 GYEKLSSKVMKYAQGVPLALKVLG  101 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~~~~  101 (466)
                      -..+....|++.++|.|..+..+.
T Consensus       189 ~~~~~~~~l~~~~~g~~r~~~~~l  212 (327)
T 1iqp_A          189 LTEEGLQAILYIAEGDMRRAINIL  212 (327)
T ss_dssp             ECHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCHHHHHHHH
Confidence            124567788899999887655443

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=89.31  E-value=0.75  Score=43.21  Aligned_cols=98  Identities=10%  Similarity=0.096  Sum_probs=63.6

Q ss_pred             eEEEEEeCCCC--hHhHHHHHhcCCCCCCCcEEEEEeCChh-hHh-hcCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTC--FSQLESIIRSLDWLTPVSRIIITTRNKQ-VLR-NWGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~--~~~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~-~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+||+..  .+..+.+...+.+...+..+|++|.+.. +.. .......+++++++.++..+++.+.+-.....  
T Consensus       120 ~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~--  197 (373)
T 1jr3_A          120 FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--  197 (373)
T ss_dssp             SEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--
T ss_pred             eEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCC--
Confidence            46899999864  3446666666554455667777776543 111 12223689999999999999998765321111  


Q ss_pred             hHHHHHHHHHHHhCCCceeehhhh
Q 012324           78 GYEKLSSKVMKYAQGVPLALKVLG  101 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~~~~  101 (466)
                      -..+....|++.++|.|..+..+.
T Consensus       198 ~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          198 HEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             BCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCHHHHHHHH
Confidence            114556778999999998766543

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=88.75  E-value=1.6  Score=39.72  Aligned_cols=95  Identities=8%  Similarity=0.093  Sum_probs=63.1

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChh-hHhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQ-VLRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+|++...  +..+.+...+.+...+.++|+||.... +... ......+++++++.++..+++.+.+......  
T Consensus       103 ~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~--  180 (319)
T 2chq_A          103 FKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVK--  180 (319)
T ss_dssp             CEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHHHTTCCC--
T ss_pred             ceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHHHHcCCC--
Confidence            568999998643  446667666665556778888886653 1111 1223589999999999999998876432221  


Q ss_pred             hHHHHHHHHHHHhCCCceeeh
Q 012324           78 GYEKLSSKVMKYAQGVPLALK   98 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~   98 (466)
                      -..+....+++.++|.+..+.
T Consensus       181 i~~~~l~~l~~~~~G~~r~~~  201 (319)
T 2chq_A          181 ITEDGLEALIYISGGDFRKAI  201 (319)
T ss_dssp             BCHHHHHHHHHTTTTCHHHHH
T ss_pred             CCHHHHHHHHHHcCCCHHHHH
Confidence            124556778888888876544

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=88.42  E-value=0.65  Score=43.90  Aligned_cols=95  Identities=15%  Similarity=0.155  Sum_probs=61.7

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCC----CCcEEEEEeCChhhHhhcC-------cceEEEccCCChhhHHHHHHHh
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLT----PVSRIIITTRNKQVLRNWG-------VRKIYEIEALENHHALELFSRH   68 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~----~gs~IlvTTR~~~v~~~~~-------~~~~~~l~~L~~~~~~~Lf~~~   68 (466)
                      +.+||||+++..  +....+...+....    .+..||++|+.........       ....+.+++++.++..+++...
T Consensus       126 ~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~  205 (389)
T 1fnn_A          126 YMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDR  205 (389)
T ss_dssp             CEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHH
T ss_pred             eEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHH
Confidence            578999999653  34556655543321    4667888888765433322       1137999999999999999887


Q ss_pred             hcC---CCCCCchHHHHHHHHHHHh---------CCCceeehh
Q 012324           69 AFK---RNHPDVGYEKLSSKVMKYA---------QGVPLALKV   99 (466)
Q Consensus        69 ~~~---~~~~~~~~~~~~~~i~~~c---------~glPlai~~   99 (466)
                      +..   ....   ..+....+++.+         +|.|..+..
T Consensus       206 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~  245 (389)
T 1fnn_A          206 AKAGLAEGSY---SEDILQMIADITGAQTPLDTNRGDARLAID  245 (389)
T ss_dssp             HHHHBCTTSS---CHHHHHHHHHHHSBSSTTCTTSCCHHHHHH
T ss_pred             HHhhcCCCCC---CHHHHHHHHHHHhhcccCCCCCCcHHHHHH
Confidence            532   2222   245677788888         687754443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=84.73  E-value=0.63  Score=40.47  Aligned_cols=93  Identities=16%  Similarity=0.189  Sum_probs=52.6

Q ss_pred             EEEEEeCCCChH--h--HHHHHhcCCC-CCCCc-EEEEEeCChh---------hHhhcCcceEEEccCCChhhHHHHHHH
Q 012324            3 VLIVFDDVTCFS--Q--LESIIRSLDW-LTPVS-RIIITTRNKQ---------VLRNWGVRKIYEIEALENHHALELFSR   67 (466)
Q Consensus         3 ~LlvlDd~~~~~--~--~~~l~~~~~~-~~~gs-~IlvTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~Lf~~   67 (466)
                      -++|+||+....  .  .+.+...+.. ...+. +||+||+...         +...+.....+++++++.++..+++.+
T Consensus       106 ~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~  185 (242)
T 3bos_A          106 DLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQR  185 (242)
T ss_dssp             SEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHH
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHH
Confidence            478999986432  1  2222222110 01222 4777776431         122222236899999999999999988


Q ss_pred             hhcCCCCCCchHHHHHHHHHHHhCCCceee
Q 012324           68 HAFKRNHPDVGYEKLSSKVMKYAQGVPLAL   97 (466)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~i~~~c~glPlai   97 (466)
                      .+......  -..+....+++.++|.+-.+
T Consensus       186 ~~~~~~~~--~~~~~~~~l~~~~~g~~r~l  213 (242)
T 3bos_A          186 RAAMRGLQ--LPEDVGRFLLNRMARDLRTL  213 (242)
T ss_dssp             HHHHTTCC--CCHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHcCCC--CCHHHHHHHHHHccCCHHHH
Confidence            76322111  12455667888888766443

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=83.86  E-value=3.6  Score=38.02  Aligned_cols=93  Identities=13%  Similarity=0.189  Sum_probs=62.9

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChh-hHhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQ-VLRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+|++...  +..+.+...+.+...+..+|++|.+.+ +... ..-...+++++++.++..+.+.+..    ..+ 
T Consensus       109 ~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~~~-  183 (334)
T 1a5t_A          109 AKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV----TMS-  183 (334)
T ss_dssp             CEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC----CCC-
T ss_pred             cEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc----CCC-
Confidence            457899998753  346667766665556677777777653 2221 2233589999999999999988765    111 


Q ss_pred             hHHHHHHHHHHHhCCCceeehhhh
Q 012324           78 GYEKLSSKVMKYAQGVPLALKVLG  101 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPlai~~~~  101 (466)
                        .+.+..+++.++|.|..+..+.
T Consensus       184 --~~~~~~l~~~s~G~~r~a~~~l  205 (334)
T 1a5t_A          184 --QDALLAALRLSAGSPGAALALF  205 (334)
T ss_dssp             --HHHHHHHHHHTTTCHHHHHHTT
T ss_pred             --HHHHHHHHHHcCCCHHHHHHHh
Confidence              3455778899999997654433

---

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	466
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-20
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	4e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.002
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	6e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	4e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	5e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.001
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	7e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	0.001
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	0.001

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 87.6 bits (216), Expect = 6e-20
 Identities = 26/146 (17%), Positives = 48/146 (32%), Gaps = 8/146 (5%)

Query: 2   KVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRN-WGVRKIYEIEALENHH 60
             L VFDDV                    R ++TTR+ ++        +  E+ +LE   
Sbjct: 136 NTLFVFDDV------VQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 189

Query: 61  ALELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQ 120
             +    +       +   E + +K ++ + G P  L +       +  E      NKL+
Sbjct: 190 CYDFLEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLE 248

Query: 121 RILHPSILEVLKISYDSLDNKEKNIF 146
                 +  +   SY SL    +   
Sbjct: 249 SRGLVGVECITPYSYKSLAMALQRCV 274

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 43.7 bits (101), Expect = 3e-05
 Identities = 15/80 (18%), Positives = 30/80 (37%), Gaps = 6/80 (7%)

Query: 284 IFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC 343
                 L +L++S   KL  LP      +  L      + E+P     L+    L++   
Sbjct: 280 CDLPPSLEELNVSNN-KLIELPA-LPPRLERLIASFNHLAEVPELPQNLK---QLHVEYN 334

Query: 344 KRLKSLPSSLCKLKSLKVLN 363
             L+  P     ++ L++ +
Sbjct: 335 P-LREFPDIPESVEDLRMNS 353

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 43.3 bits (100), Expect = 4e-05
 Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 8/79 (10%)

Query: 329 IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNL 388
            D    L  LN+S+ K L  LP+   +L+ L        ++L  +PE    L     L++
Sbjct: 280 CDLPPSLEELNVSNNK-LIELPALPPRLERLI----ASFNHLAEVPELPQNLKQ---LHV 331

Query: 389 AKTNIERIPESIIQLFVLR 407
               +   P+    +  LR
Sbjct: 332 EYNPLREFPDIPESVEDLR 350

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 42.1 bits (97), Expect = 1e-04
 Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 8/72 (11%)

Query: 311 NVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNL 370
           ++  L +    + ELP+   RL R   L  S    L  +P      ++LK L++     L
Sbjct: 285 SLEELNVSNNKLIELPALPPRLER---LIASFN-HLAEVPEL---PQNLKQLHVEYN-PL 336

Query: 371 QRLPECLGQLSS 382
           +  P+    +  
Sbjct: 337 REFPDIPESVED 348

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 41.7 bits (96), Expect = 1e-04
 Identities = 23/119 (19%), Positives = 42/119 (35%), Gaps = 7/119 (5%)

Query: 221 WHHEDIYEVLTYNTHYSKLNQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSL 280
              + +  +      +S L+++         +      L     +L  LN+ S   L  L
Sbjct: 241 ELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNV-SNNKLIEL 299

Query: 281 PSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN 339
           P+    LE   +L  S    L  +PE    N+  L +    + E P   + +  L  +N
Sbjct: 300 PALPPRLE---RLIASFN-HLAEVPE-LPQNLKQLHVEYNPLREFPDIPESVEDL-RMN 352

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 38.3 bits (87), Expect = 0.002
 Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 7/83 (8%)

Query: 318 RGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECL 377
           R  A+  L   +DR  +   L L++   L SLP     L+SL       C++L  LPE  
Sbjct: 25  REMAVSRLRDCLDR--QAHELELNNLG-LSSLPELPPHLESLV----ASCNSLTELPELP 77

Query: 378 GQLSSPIILNLAKTNIERIPESI 400
             L S ++ N     +  +P  +
Sbjct: 78  QSLKSLLVDNNNLKALSDLPPLL 100

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 42.3 bits (98), Expect = 6e-05
 Identities = 26/152 (17%), Positives = 55/152 (36%), Gaps = 6/152 (3%)

Query: 265 NLVILNLRSGKSLKSLPSGIF-NLEFLTKLDLSGCSKLKRLPEISSG--NVCWLFLRGTA 321
           +  +L+L     +  +  G F NL+ L  L L      K  P   +    +  L+L    
Sbjct: 32  DTALLDL-QNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ 90

Query: 322 IEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS 381
           ++ELP  + +  +   ++ ++  +++    +      +  L      +          + 
Sbjct: 91  LKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMK 150

Query: 382 SPIILNLAKTNIERIPESIIQLFVLRYLLLSY 413
               + +A TNI  IP+ +     L  L L  
Sbjct: 151 KLSYIRIADTNITTIPQGLPPS--LTELHLDG 180

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 41.6 bits (96), Expect = 1e-04
 Identities = 28/164 (17%), Positives = 51/164 (31%), Gaps = 26/164 (15%)

Query: 273 SGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRL 332
           S   L+ +P  +        LDL    K+  +                           L
Sbjct: 18  SDLGLEKVPKDLPPD--TALLDLQNN-KITEIK--------------------DGDFKNL 54

Query: 333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN 392
           + L  L L + K  K  P +   L  L+ L L     L+ LPE + +      L + +  
Sbjct: 55  KNLHTLILINNKISKISPGAFAPLVKLERLYLSKN-QLKELPEKMPKTLQ--ELRVHENE 111

Query: 393 IERIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPF 436
           I ++ +S+        ++   +   +S        +G   L   
Sbjct: 112 ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYI 155

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 40.0 bits (92), Expect = 4e-04
 Identities = 33/177 (18%), Positives = 59/177 (33%), Gaps = 3/177 (1%)

Query: 240 NQIIHTACNKLIAKTPNPMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCS 299
            Q +    N++     +         +V L     KS          ++ L+ + ++   
Sbjct: 102 LQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADT- 160

Query: 300 KLKRLPEISSGNVCWLFLRGTAIEE-LPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKS 358
            +  +P+    ++  L L G  I +   +S+  L  L  L LS          SL     
Sbjct: 161 NITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPH 220

Query: 359 LKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSE 415
           L+ L+L     L ++P  L       ++ L   NI  I  +            SYS 
Sbjct: 221 LRELHLNNN-KLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSG 276

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.3 bits (90), Expect = 5e-04
 Identities = 23/120 (19%), Positives = 42/120 (35%), Gaps = 21/120 (17%)

Query: 256 NPMLMPRLNNLVILNLRSGKSLKSLPS-GIFNLEFLTKLDLSGCSKLKRLPEISSGNVCW 314
           +P +  RL +  ++  R  +S    P    F+   +  +DLS                  
Sbjct: 13  HPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIE------------- 59

Query: 315 LFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP 374
                  +  L   + +  +L  L+L   +    + ++L K  +L  LNL GCS      
Sbjct: 60  -------VSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFA 112

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (88), Expect = 0.001
 Identities = 20/98 (20%), Positives = 37/98 (37%), Gaps = 15/98 (15%)

Query: 291 TKLDLSGCSKL-KRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSD------- 342
             LDL+G +        + S  V       + +++  +      R+ +++LS+       
Sbjct: 3   QTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVST 62

Query: 343 -------CKRLKSLPSSLCKLKSLKVLNLCGCSNLQRL 373
                  C +L++L     +L    V  L   SNL RL
Sbjct: 63  LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRL 100

>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 = 39.2 bits (90), Expect = 7e-04
 Identities = 30/126 (23%), Positives = 49/126 (38%), Gaps = 7/126 (5%)

Query: 263 LNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAI 322
           L  L  L L + +     P  +  L  LT L+L+        P  +  N+ +L L    I
Sbjct: 262 LTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNI 319

Query: 323 EELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS 382
            ++   +  L +L  L  ++ K   S  SSL  L ++  L+      +  L   L  L+ 
Sbjct: 320 SDISP-VSSLTKLQRLFFANNKV--SDVSSLANLTNINWLSAGHN-QISDLTP-LANLTR 374

Query: 383 PIILNL 388
              L L
Sbjct: 375 ITQLGL 380

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 37.0 bits (85), Expect = 0.001
 Identities = 26/116 (22%), Positives = 45/116 (38%), Gaps = 4/116 (3%)

Query: 268 ILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPS 327
           +L+L + K L  L   +  L  +T LDLS        P +++     +        E   
Sbjct: 2   VLHL-AHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 328 SIDRLRRLGYLNLSDCK-RLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSS 382
            +  L RL  L L + + +  +    L     L +LNL G  +L +      +L+ 
Sbjct: 60  GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGN-SLCQEEGIQERLAE 114

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 38.2 bits (87), Expect = 0.001
 Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 337 YLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLA 389
            L+L + +   +LP  L +LK L  LN+   +    +P+  G L    +   A
Sbjct: 248 GLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDVSAYA 299

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	466
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.93
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.75
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.73
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.61
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.57
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.57
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.57
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.55
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.53
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.52
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.51
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.48
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.45
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.45
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.43
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.42
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.41
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.37
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.37
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.35
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.35
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.34
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.34
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.15
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.1
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.1
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.08
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.07
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.06
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.92
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.87
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.76
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.71
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.62
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.44
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.03
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.89
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.7
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.69
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.25
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.11
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.58
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.93
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	93.15
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	86.5
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	83.62

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.93  E-value=1.1e-26  Score=212.35  Aligned_cols=142  Identities=18%  Similarity=0.137  Sum_probs=126.3

Q ss_pred             CeEEEEEeCCCChHhHHHHHhcCCCCCCCcEEEEEeCChhhHhhcCcc-eEEEccCCChhhHHHHHHHhhcCCCCCCchH
Q 012324            1 MKVLIVFDDVTCFSQLESIIRSLDWLTPVSRIIITTRNKQVLRNWGVR-KIYEIEALENHHALELFSRHAFKRNHPDVGY   79 (466)
Q Consensus         1 kr~LlvlDd~~~~~~~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~~~~-~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~   79 (466)
                      ||+|+||||+|+.++|..+..      .|||||||||++.++..+... +.|++++|+.+|||+||.+++|..... +..
T Consensus       135 kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~-~~~  207 (277)
T d2a5yb3         135 PNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKE  207 (277)
T ss_dssp             TTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHH
T ss_pred             CCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCc-hhh
Confidence            689999999999999987754      389999999999999887654 689999999999999999998865543 456


Q ss_pred             HHHHHHHHHHhCCCceeehhhhhhcccCCHHHHHHHHHHHHhccchhHHHHHHHHHhcCchhhhhhhcee
Q 012324           80 EKLSSKVMKYAQGVPLALKVLGCFLYEREKEVSESAINKLQRILHPSILEVLKISYDSLDNKEKNIFLDV  149 (466)
Q Consensus        80 ~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~~~~l~~sy~~L~~~~~~~~~~~  149 (466)
                      ++++++|+++|+|+|||++++|+.|+.++.+.|.+..+++.......+..++.+||++||+++|+||.++
T Consensus       208 ~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         208 EDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            8899999999999999999999999999999999999999877778899999999999999999999763

>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=99.75  E-value=3.6e-19  Score=165.95  Aligned_cols=122  Identities=20%  Similarity=0.244  Sum_probs=86.8

Q ss_pred             hhhhcccCCCCCCCCCCCCCCcEEEcCC-CCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccC
Q 012324          246 ACNKLIAKTPNPMLMPRLNNLVILNLRS-GKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAI  322 (466)
Q Consensus       246 ~~~~~~~~~~~~~~~~~l~~L~~L~l~~-~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i  322 (466)
                      ..+...+..+.|..++++++|++|+|++ |.+.+.+|..++++++|++|++++|.+.+..+..+.  ..++.++++.|.+
T Consensus        58 ~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~  137 (313)
T d1ogqa_          58 SGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNAL  137 (313)
T ss_dssp             ECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEE
T ss_pred             CCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccc
Confidence            3333333334566788999999999986 677888999999999999999999987776664333  3567788877766


Q ss_pred             c-ccChhhhccCCCCeeeccccccccccccccCCCCCC-CEEEecCC
Q 012324          323 E-ELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSL-KVLNLCGC  367 (466)
Q Consensus       323 ~-~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L-~~L~l~~~  367 (466)
                      . .+|..++++++|+++++++|...+.+|..+..+..+ +.+.+++|
T Consensus       138 ~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n  184 (313)
T d1ogqa_         138 SGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN  184 (313)
T ss_dssp             ESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSS
T ss_pred             cccCchhhccCcccceeeccccccccccccccccccccccccccccc
Confidence            5 567777888888888887777666666655555554 44444443

>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=99.73  E-value=4.8e-17  Score=147.55  Aligned_cols=177  Identities=21%  Similarity=0.112  Sum_probs=143.7

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      +++++|+|++|.+.+.-+..+.++++|++|++++|.+....+.....+|++|++++|++...+..+..+++|++|++++|
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~l~~~  110 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFN  110 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSS
T ss_pred             cCCCEEECcCCcCCCcCHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            57999999999766655577889999999999999865433344557889999999999988888999999999999998


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCCcCCC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                      ...+..+..+..+.++++|++++|.+....+..+..+++|+.+++++|+++.++. .+..+++|++|++++|.+ ..+|+
T Consensus       111 ~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L-~~lp~  189 (266)
T d1p9ag_         111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSL-YTIPK  189 (266)
T ss_dssp             CCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCC-CCCCT
T ss_pred             ccceeeccccccccccccccccccccceeccccccccccchhcccccccccccCccccccccccceeecccCCC-cccCh
Confidence            8766666777888999999999987776666777889999999999999997765 578899999999999884 48888


Q ss_pred             CeEeccCCCCccccccCccccC
Q 012324          423 PLFLARGCLALEPFLGIIEDTQ  444 (466)
Q Consensus       423 ~~~~l~~~~~L~~l~~~~~~~~  444 (466)
                      .++.   ++.|+.+...++.|.
T Consensus       190 ~~~~---~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         190 GFFG---SHLLPFAFLHGNPWL  208 (266)
T ss_dssp             TTTT---TCCCSEEECCSCCBC
T ss_pred             hHCC---CCCCCEEEecCCCCC
Confidence            7764   455666666666554

>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=99.61  E-value=5.5e-15  Score=133.71  Aligned_cols=158  Identities=20%  Similarity=0.126  Sum_probs=133.9

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC-CCCCcccEEeecCccCcccCh-hhhccCCC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-ISSGNVCWLFLRGTAIEELPS-SIDRLRRL  335 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~~~l~~L~l~~~~i~~lp~-~l~~l~~L  335 (466)
                      ..|.++++|++|++++|.+. .+|. ++.+++|++|++++|.+....+. .....+++|+++++.+..++. .+..+.++
T Consensus        49 ~~f~~l~~L~~L~L~~N~l~-~l~~-~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l  126 (266)
T d1p9ag_          49 ATLMPYTRLTQLNLDRAELT-KLQV-DGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGEL  126 (266)
T ss_dssp             GGGTTCTTCCEEECTTSCCC-EEEC-CSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTC
T ss_pred             HHhhcccccccccccccccc-cccc-ccccccccccccccccccccccccccccccccccccccccceeecccccccccc
Confidence            45789999999999999654 5654 57899999999999987654332 223578999999999987755 56789999


Q ss_pred             CeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCc
Q 012324          336 GYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       336 ~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~  415 (466)
                      ++|++.+|.+...-+..+..+++|+.+++++|.+.+..+..+..+++|+.|++++|+++.+|.++..+++|+.|++++|+
T Consensus       127 ~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         127 QELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             CEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             ccccccccccceeccccccccccchhcccccccccccCccccccccccceeecccCCCcccChhHCCCCCCCEEEecCCC
Confidence            99999998765555566778999999999999888877788999999999999999999999999999999999999998


Q ss_pred             CC
Q 012324          416 RF  417 (466)
Q Consensus       416 ~~  417 (466)
                      ..
T Consensus       207 ~~  208 (266)
T d1p9ag_         207 WL  208 (266)
T ss_dssp             BC
T ss_pred             CC
Confidence            64

>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=99.57  E-value=5e-15  Score=137.45  Aligned_cols=179  Identities=19%  Similarity=0.196  Sum_probs=115.6

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCc-ccChhhhccCC
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIE-ELPSSIDRLRR  334 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~-~lp~~l~~l~~  334 (466)
                      ..++++++|++|++++|.+.+..+..+..+.+|++++++.|.....+|..+.  ..++.+++++|.+. .+|..+..+..
T Consensus        95 ~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~  174 (313)
T d1ogqa_          95 PAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSK  174 (313)
T ss_dssp             GGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCT
T ss_pred             cccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCcccceeeccccccccccccccccccc
Confidence            3456666666666666655555554455555555555555554444443322  23445555554444 34444444433


Q ss_pred             C-C-----------------------eeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccC
Q 012324          335 L-G-----------------------YLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAK  390 (466)
Q Consensus       335 L-~-----------------------~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~  390 (466)
                      + +                       ++++..+...+..|..+..+++++.+++.+|.+.+.+| .++.+++|+.|++++
T Consensus       175 l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~-~~~~~~~L~~L~Ls~  253 (313)
T d1ogqa_         175 LFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDLRN  253 (313)
T ss_dssp             TCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG-GCCCCTTCCEEECCS
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccCcc
Confidence            3 3                       45555555555666667778888888888887776655 678889999999999


Q ss_pred             CCcc-ccchhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCcc
Q 012324          391 TNIE-RIPESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIE  441 (466)
Q Consensus       391 ~~l~-~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~  441 (466)
                      |+++ .+|..++++++|++|++++|.+.|.+|..    .++++|+.+....+
T Consensus       254 N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~----~~L~~L~~l~l~~N  301 (313)
T d1ogqa_         254 NRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG----GNLQRFDVSAYANN  301 (313)
T ss_dssp             SCCEECCCGGGGGCTTCCEEECCSSEEEEECCCS----TTGGGSCGGGTCSS
T ss_pred             CeecccCChHHhCCCCCCEEECcCCcccccCCCc----ccCCCCCHHHhCCC
Confidence            9998 88999999999999999999988888842    45556665544444

>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=99.57  E-value=4.9e-14  Score=130.06  Aligned_cols=161  Identities=22%  Similarity=0.192  Sum_probs=95.9

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCccc------------------------
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVC------------------------  313 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~------------------------  313 (466)
                      ..|.++++|++|++++|.+....|..+.++++|++|++++|.+. .+|......+.                        
T Consensus        49 ~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~-~l~~~~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~  127 (305)
T d1xkua_          49 GDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK-ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMI  127 (305)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCS-BCCSSCCTTCCEEECCSSCCCBBCHHHHTTCTTCC
T ss_pred             hHhhccccccccccccccccccchhhhhCCCccCEecccCCccC-cCccchhhhhhhhhccccchhhhhhhhhhcccccc
Confidence            45788899999999988777766777888999999999888643 33333333333                        


Q ss_pred             --------------------------EEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCC
Q 012324          314 --------------------------WLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGC  367 (466)
Q Consensus       314 --------------------------~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~  367 (466)
                                                .+++++|.+..+|..+  +++|++|++.+|......+..+.+++.++.|++++|
T Consensus       128 ~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~~--~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n  205 (305)
T d1xkua_         128 VVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN  205 (305)
T ss_dssp             EEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSC--CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSS
T ss_pred             ccccccccccccCCCccccccccccCccccccCCccccCccc--CCccCEEECCCCcCCCCChhHhhccccccccccccc
Confidence                                      3334444333333221  344455555544444444445555555666666655


Q ss_pred             CCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCC
Q 012324          368 SNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       368 ~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                      .+.+..+..+.++++|+.|++++|+++.+|..+.++++|++|++++|+ ++.++.
T Consensus       206 ~l~~~~~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~N~-i~~i~~  259 (305)
T d1xkua_         206 SISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNN-ISAIGS  259 (305)
T ss_dssp             CCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECCSSC-CCCCCT
T ss_pred             cccccccccccccccceeeecccccccccccccccccCCCEEECCCCc-cCccCh
Confidence            555544555556666666666666666666666666666666666654 334444

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.57  E-value=2.8e-14  Score=122.91  Aligned_cols=162  Identities=19%  Similarity=0.220  Sum_probs=128.6

Q ss_pred             CCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeec
Q 012324          261 PRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNL  340 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l  340 (466)
                      ..+++++.|++++|.+. .++ .+..+++|++|++++|.+.+..|-....++++|++++|.+..++. +.++++|++|++
T Consensus        37 ~~l~~l~~L~l~~~~i~-~l~-~l~~l~nL~~L~Ls~N~l~~~~~l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l  113 (199)
T d2omxa2          37 TDLDQVTTLQADRLGIK-SID-GVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP-LANLTNLTGLTL  113 (199)
T ss_dssp             HHHTTCCEEECTTSCCC-CCT-TGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEC
T ss_pred             HHhcCCCEEECCCCCCC-Ccc-ccccCCCcCcCccccccccCcccccCCcccccccccccccccccc-cccccccccccc
Confidence            45789999999998654 343 478899999999999987765554455688999999999988774 889999999999


Q ss_pred             cccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcC
Q 012324          341 SDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSL  420 (466)
Q Consensus       341 ~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~  420 (466)
                      ++|.... . ..+..+++|+.|++++|.+. .++ .+..+++|+.|++.+|+++.++ .++++++|++|++++|++ .++
T Consensus       114 ~~~~~~~-~-~~~~~l~~L~~L~l~~n~l~-~~~-~l~~~~~L~~L~l~~n~l~~l~-~l~~l~~L~~L~ls~N~i-~~i  187 (199)
T d2omxa2         114 FNNQITD-I-DPLKNLTNLNRLELSSNTIS-DIS-ALSGLTSLQQLNFSSNQVTDLK-PLANLTTLERLDISSNKV-SDI  187 (199)
T ss_dssp             CSSCCCC-C-GGGTTCTTCSEEECCSSCCC-CCG-GGTTCTTCSEEECCSSCCCCCG-GGTTCTTCCEEECCSSCC-CCC
T ss_pred             ccccccc-c-cccchhhhhHHhhhhhhhhc-ccc-cccccccccccccccccccCCc-cccCCCCCCEEECCCCCC-CCC
Confidence            9876543 3 34788999999999998754 333 6888999999999999999886 489999999999999974 445


Q ss_pred             CCCeEeccCCCCccc
Q 012324          421 PKPLFLARGCLALEP  435 (466)
Q Consensus       421 p~~~~~l~~~~~L~~  435 (466)
                      |.    +.++++|+.
T Consensus       188 ~~----l~~L~~L~~  198 (199)
T d2omxa2         188 SV----LAKLTNLES  198 (199)
T ss_dssp             GG----GGGCTTCSE
T ss_pred             cc----ccCCCCCCc
Confidence            42    445555553

>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=99.55  E-value=2.5e-14  Score=124.33  Aligned_cols=164  Identities=25%  Similarity=0.278  Sum_probs=117.8

Q ss_pred             CCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecc
Q 012324          262 RLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLS  341 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~  341 (466)
                      .+..|+.|++.+|.+.. ++ .+..+++|++|++++|.+.+..+.....++++|++++|+++.+| .+..+++|+.|++.
T Consensus        44 ~L~~L~~L~l~~~~i~~-l~-~l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~  120 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIKS-VQ-GIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             HHHTCCEEECTTSCCCC-CT-TGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECT
T ss_pred             HhcCccEEECcCCCCCC-ch-hHhhCCCCCEEeCCCccccCccccccCccccccccccccccccc-cccccccccccccc
Confidence            45678888888875443 33 37778888888888887666444444567888888888888776 47788888888888


Q ss_pred             ccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCC
Q 012324          342 DCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLP  421 (466)
Q Consensus       342 ~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p  421 (466)
                      +|.. ..++ .+..+++++.+++++|.+..  +..+..+++|+.+++++|.++.++. +.++++|+.|++++|.+ .++|
T Consensus       121 ~~~~-~~~~-~l~~l~~l~~l~~~~n~l~~--~~~~~~l~~L~~l~l~~n~l~~i~~-l~~l~~L~~L~Ls~N~i-~~l~  194 (210)
T d1h6ta2         121 HNGI-SDIN-GLVHLPQLESLYLGNNKITD--ITVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNHI-SDLR  194 (210)
T ss_dssp             TSCC-CCCG-GGGGCTTCCEEECCSSCCCC--CGGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCSSCC-CBCG
T ss_pred             cccc-cccc-cccccccccccccccccccc--ccccccccccccccccccccccccc-ccCCCCCCEEECCCCCC-CCCh
Confidence            8763 3333 47778888888888866543  3356778888888888888887754 77888888888888864 4454


Q ss_pred             CCeEeccCCCCcccccc
Q 012324          422 KPLFLARGCLALEPFLG  438 (466)
Q Consensus       422 ~~~~~l~~~~~L~~l~~  438 (466)
                          .+.++++|+.+..
T Consensus       195 ----~l~~l~~L~~L~L  207 (210)
T d1h6ta2         195 ----ALAGLKNLDVLEL  207 (210)
T ss_dssp             ----GGTTCTTCSEEEE
T ss_pred             ----hhcCCCCCCEEEc
Confidence                2456666665543

>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=99.53  E-value=1.2e-13  Score=126.06  Aligned_cols=184  Identities=22%  Similarity=0.144  Sum_probs=114.4

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCC-CCC--CcccEEeecCccCcccCh-hhhccCC
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPE-ISS--GNVCWLFLRGTAIEELPS-SIDRLRR  334 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~-~~~--~~l~~L~l~~~~i~~lp~-~l~~l~~  334 (466)
                      .|.++++|++|++++|.+....+..+..+..++.+.+..+.....++. .+.  .++++|++++|.+..++. .+...++
T Consensus        51 ~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~  130 (284)
T d1ozna_          51 SFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAA  130 (284)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTT
T ss_pred             HhhccccccccccccccccccccccccccccccccccccccccccccchhhcccccCCEEecCCcccccccccccchhcc
Confidence            344555555555555544443344444445555554443333333332 222  356778888777775544 4566777


Q ss_pred             CCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeeccc
Q 012324          335 LGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSY  413 (466)
Q Consensus       335 L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~  413 (466)
                      |+.+++.+|.+.+..+..+..+++|+.|++++|.+....+..+..+++|+.+++++|+++.+ |..|.++++|++|++++
T Consensus       131 L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~  210 (284)
T d1ozna_         131 LQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFA  210 (284)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             cchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhccccccChhHhhhhhhcccccccc
Confidence            88888887765444445566777888888888777666667777788888888888888744 56778888888888888


Q ss_pred             CcCCCcCCCCeEeccCCCCccccccCccccCC
Q 012324          414 SERFQSLPKPLFLARGCLALEPFLGIIEDTQR  445 (466)
Q Consensus       414 ~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~  445 (466)
                      |.+.+..|..+   .++++|+.+....+.+..
T Consensus       211 N~i~~~~~~~~---~~~~~L~~L~l~~N~l~C  239 (284)
T d1ozna_         211 NNLSALPTEAL---APLRALQYLRLNDNPWVC  239 (284)
T ss_dssp             SCCSCCCHHHH---TTCTTCCEEECCSSCEEC
T ss_pred             ccccccccccc---ccccccCEEEecCCCCCC
Confidence            77654333332   456677776666665543

>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=99.52  E-value=1e-13  Score=120.43  Aligned_cols=147  Identities=22%  Similarity=0.161  Sum_probs=121.1

Q ss_pred             CCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCee
Q 012324          259 LMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYL  338 (466)
Q Consensus       259 ~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L  338 (466)
                      .+..+++|++|++++|.+.+ ++. ++.+++|++|++++|.+....+......++.|+++++.+..++ .+..+++++.+
T Consensus        63 ~l~~l~~L~~L~L~~n~i~~-l~~-~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~~~~~~~~-~l~~l~~l~~l  139 (210)
T d1h6ta2          63 GIQYLPNVTKLFLNGNKLTD-IKP-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESL  139 (210)
T ss_dssp             TGGGCTTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEE
T ss_pred             hHhhCCCCCEEeCCCccccC-ccc-cccCccccccccccccccccccccccccccccccccccccccc-ccccccccccc
Confidence            47789999999999996655 443 6889999999999998665333344568899999999988765 57889999999


Q ss_pred             eccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeeccc
Q 012324          339 NLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSY  413 (466)
Q Consensus       339 ~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~  413 (466)
                      ++++|.+. .. ..+..+++|+.+++++|.+.+ ++ .+.++++|+.|++++|.++.+| .+.++++|++|++++
T Consensus       140 ~~~~n~l~-~~-~~~~~l~~L~~l~l~~n~l~~-i~-~l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         140 YLGNNKIT-DI-TVLSRLTKLDTLSLEDNQISD-IV-PLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             ECCSSCCC-CC-GGGGGCTTCSEEECCSSCCCC-CG-GGTTCTTCCEEECCSSCCCBCG-GGTTCTTCSEEEEEE
T ss_pred             cccccccc-cc-ccccccccccccccccccccc-cc-cccCCCCCCEEECCCCCCCCCh-hhcCCCCCCEEEccC
Confidence            99998754 33 347789999999999987764 44 4889999999999999999987 589999999999974

>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=99.51  E-value=1.6e-13  Score=125.23  Aligned_cols=162  Identities=23%  Similarity=0.304  Sum_probs=105.1

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCccc-CcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecCccCcccCh-hhhcc
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSL-PSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRGTAIEELPS-SIDRL  332 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~-~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~~~i~~lp~-~l~~l  332 (466)
                      +..+..+..++.+....+.....+ +..+.++++|++|++++|......+...  ...++.+++++|.++.+|. .+..+
T Consensus        73 ~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~  152 (284)
T d1ozna_          73 AAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDL  152 (284)
T ss_dssp             TTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTC
T ss_pred             cccccccccccccccccccccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccc
Confidence            334556667777666544333333 5556677777777777776544333322  2456777777777776654 45667


Q ss_pred             CCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeec
Q 012324          333 RRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLL  411 (466)
Q Consensus       333 ~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l  411 (466)
                      ++|+.|++++|.+....+..+..+++|+.+++++|.+.+..|..|..+++|+.|+++.|.+..++. .++.+++|++|++
T Consensus       153 ~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l  232 (284)
T d1ozna_         153 GNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL  232 (284)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC
T ss_pred             cchhhcccccCcccccchhhhccccccchhhhhhccccccChhHhhhhhhcccccccccccccccccccccccccCEEEe
Confidence            777777777776544445556677777777777777776667777777777777777777775543 5667777777777


Q ss_pred             ccCcCCC
Q 012324          412 SYSERFQ  418 (466)
Q Consensus       412 ~~~~~~~  418 (466)
                      ++|++..
T Consensus       233 ~~N~l~C  239 (284)
T d1ozna_         233 NDNPWVC  239 (284)
T ss_dssp             CSSCEEC
T ss_pred             cCCCCCC
Confidence            7776554

>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=3.9e-13  Score=115.60  Aligned_cols=144  Identities=22%  Similarity=0.257  Sum_probs=118.5

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCe
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGY  337 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~  337 (466)
                      ..+..+++|++|++++|.+.+ ++. ++++++|++|++++|......+-.....++.|+++++.+..++ .+..+++|+.
T Consensus        56 ~~l~~l~nL~~L~Ls~N~l~~-~~~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~l~~L~~  132 (199)
T d2omxa2          56 DGVEYLNNLTQINFSNNQLTD-ITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNR  132 (199)
T ss_dssp             TTGGGCTTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSE
T ss_pred             cccccCCCcCcCccccccccC-ccc-ccCCccccccccccccccccccccccccccccccccccccccc-ccchhhhhHH
Confidence            347789999999999997655 343 8899999999999998665444445578899999998887654 4788999999


Q ss_pred             eeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEe
Q 012324          338 LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYL  409 (466)
Q Consensus       338 L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L  409 (466)
                      |++++|.+ ..++ .+..+++|+.|++.+|.+.+ ++ .++++++|+.|++++|+++.++ .++++++|+.|
T Consensus       133 L~l~~n~l-~~~~-~l~~~~~L~~L~l~~n~l~~-l~-~l~~l~~L~~L~ls~N~i~~i~-~l~~L~~L~~L  199 (199)
T d2omxa2         133 LELSSNTI-SDIS-ALSGLTSLQQLNFSSNQVTD-LK-PLANLTTLERLDISSNKVSDIS-VLAKLTNLESL  199 (199)
T ss_dssp             EECCSSCC-CCCG-GGTTCTTCSEEECCSSCCCC-CG-GGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEE
T ss_pred             hhhhhhhh-cccc-cccccccccccccccccccC-Cc-cccCCCCCCEEECCCCCCCCCc-cccCCCCCCcC
Confidence            99999874 4444 58899999999999987654 33 5899999999999999999886 58899999876

>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=1.1e-12  Score=115.38  Aligned_cols=164  Identities=23%  Similarity=0.194  Sum_probs=76.2

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      +..+++|++|++++|.+.+..|  +..+++|+++++++|.......-.....++.++++++....++ .+...+.+..+.
T Consensus        59 l~~l~~L~~L~ls~n~i~~~~~--l~~l~~l~~l~~~~n~~~~i~~l~~l~~L~~l~l~~~~~~~~~-~~~~~~~~~~l~  135 (227)
T d1h6ua2          59 VQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVT-PLAGLSNLQVLY  135 (227)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEECTTSCCCCCG-GGTTCTTCCEEE
T ss_pred             HhcCCCCcEeecCCceeecccc--ccccccccccccccccccccccccccccccccccccccccccc-hhccccchhhhh
Confidence            3444444444444443332221  3444444444444443322111122234444444444333221 123334444444


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +..+.....  ..+..+++|++|++++|.....  ..++++++|+.|++++|+++.++. ++++++|++|++++|++ ..
T Consensus       136 ~~~~~~~~~--~~~~~~~~L~~L~l~~n~~~~~--~~l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L~~L~Ls~N~l-t~  209 (227)
T d1h6ua2         136 LDLNQITNI--SPLAGLTNLQYLSIGNAQVSDL--TPLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQI-SD  209 (227)
T ss_dssp             CCSSCCCCC--GGGGGCTTCCEEECCSSCCCCC--GGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECTTSCC-CB
T ss_pred             chhhhhchh--hhhccccccccccccccccccc--hhhcccccceecccCCCccCCChh-hcCCCCCCEEECcCCcC-CC
Confidence            444332221  1244556666666666544332  235666667777776666666543 56666677777766653 33


Q ss_pred             CCCCeEeccCCCCcccc
Q 012324          420 LPKPLFLARGCLALEPF  436 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l  436 (466)
                      +|.    +.++++|+.+
T Consensus       210 i~~----l~~l~~L~~L  222 (227)
T d1h6ua2         210 VSP----LANTSNLFIV  222 (227)
T ss_dssp             CGG----GTTCTTCCEE
T ss_pred             Ccc----cccCCCCCEE
Confidence            331    3445555443

>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=1.7e-13  Score=120.63  Aligned_cols=182  Identities=15%  Similarity=0.139  Sum_probs=143.4

Q ss_pred             CCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCe
Q 012324          258 MLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGY  337 (466)
Q Consensus       258 ~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~  337 (466)
                      ..+..+++|+.|++.+|.+. .++ .+..+++|++|++++|.+.+..|-.....++++++++|.++.++ .+.++++|++
T Consensus        35 ~~~~~l~~L~~L~l~~~~i~-~l~-~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~  111 (227)
T d1h6ua2          35 VTQADLDGITTLSAFGTGVT-TIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKT  111 (227)
T ss_dssp             ECHHHHHTCCEEECTTSCCC-CCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCG-GGTTCTTCCE
T ss_pred             CCHHHcCCcCEEECCCCCCC-cch-hHhcCCCCcEeecCCceeeccccccccccccccccccccccccc-cccccccccc
Confidence            34567889999999999654 454 48899999999999999877666666678899999999998775 5789999999


Q ss_pred             eeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCC
Q 012324          338 LNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       338 L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      +.+++|.....  ..+...+.+..+.++++......  .+..+++|+.|++++|.+...+. ++++++|+.|++++|.+ 
T Consensus       112 l~l~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~Ls~n~l-  185 (227)
T d1h6ua2         112 LDLTSTQITDV--TPLAGLSNLQVLYLDLNQITNIS--PLAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNKI-  185 (227)
T ss_dssp             EECTTSCCCCC--GGGTTCTTCCEEECCSSCCCCCG--GGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCC-
T ss_pred             ccccccccccc--chhccccchhhhhchhhhhchhh--hhccccccccccccccccccchh-hcccccceecccCCCcc-
Confidence            99998764433  33677889999999887665433  46788999999999999886654 88999999999999974 


Q ss_pred             CcCCCCeEeccCCCCccccccCccccCCCCCCCcc
Q 012324          418 QSLPKPLFLARGCLALEPFLGIIEDTQRIPHSDHM  452 (466)
Q Consensus       418 ~~~p~~~~~l~~~~~L~~l~~~~~~~~~~~~~~~~  452 (466)
                      .++|.    +.+|++|+.+....+.+..++...+.
T Consensus       186 ~~l~~----l~~l~~L~~L~Ls~N~lt~i~~l~~l  216 (227)
T d1h6ua2         186 SDISP----LASLPNLIEVHLKNNQISDVSPLANT  216 (227)
T ss_dssp             CCCGG----GGGCTTCCEEECTTSCCCBCGGGTTC
T ss_pred             CCChh----hcCCCCCCEEECcCCcCCCCcccccC
Confidence            45553    56788888888877776666544333

>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=99.43  E-value=1e-12  Score=125.01  Aligned_cols=167  Identities=19%  Similarity=0.168  Sum_probs=117.8

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeee
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLN  339 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~  339 (466)
                      +..+++|+.|++++|.+.. ++ .+..+++|+.|++++|.+.+..+.....++++|+++++.+..+++ +..++.++.+.
T Consensus       215 ~~~~~~L~~L~l~~n~l~~-~~-~l~~l~~L~~L~l~~n~l~~~~~~~~~~~L~~L~l~~~~l~~~~~-~~~~~~l~~l~  291 (384)
T d2omza2         215 LGILTNLDELSLNGNQLKD-IG-TLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLE  291 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCC-CG-GGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEE
T ss_pred             ccccCCCCEEECCCCCCCC-cc-hhhcccccchhccccCccCCCCcccccccCCEeeccCcccCCCCc-ccccccccccc
Confidence            3456778888888775443 33 467788888888888877665555555677888888887776653 66777788888


Q ss_pred             ccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCc
Q 012324          340 LSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQS  419 (466)
Q Consensus       340 l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~  419 (466)
                      +..|.+.+ + ..+..+++++.|++++|.+.+. + .+..+++|+.|++++|+++.++ .+.++++|++|++++|.+.+-
T Consensus       292 ~~~n~l~~-~-~~~~~~~~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         292 LNENQLED-I-SPISNLKNLTYLTLYFNNISDI-S-PVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHNQISDL  366 (384)
T ss_dssp             CCSSCCSC-C-GGGGGCTTCSEEECCSSCCSCC-G-GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSCCCBC
T ss_pred             cccccccc-c-cccchhcccCeEECCCCCCCCC-c-ccccCCCCCEEECCCCCCCCCh-hHcCCCCCCEEECCCCcCCCC
Confidence            87766433 3 2367778888888888766553 3 3777888888888888888776 578888888888888875543


Q ss_pred             CCCCeEeccCCCCccccccC
Q 012324          420 LPKPLFLARGCLALEPFLGI  439 (466)
Q Consensus       420 ~p~~~~~l~~~~~L~~l~~~  439 (466)
                      .|     +.+|++|+.+...
T Consensus       367 ~~-----l~~l~~L~~L~L~  381 (384)
T d2omza2         367 TP-----LANLTRITQLGLN  381 (384)
T ss_dssp             GG-----GTTCTTCSEEECC
T ss_pred             hh-----hccCCCCCEeeCC
Confidence            22     4566777766543

>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=99.42  E-value=3e-13  Score=106.42  Aligned_cols=102  Identities=21%  Similarity=0.221  Sum_probs=80.3

Q ss_pred             cEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCC
Q 012324          313 CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN  392 (466)
Q Consensus       313 ~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~  392 (466)
                      ++|++++|+++.++. ++.+++|++|++++|.+ ..+|+.++.+++|+.|++++|.+. .+| .++++++|+.|++++|.
T Consensus         1 R~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N~l-~~lp~~~~~l~~L~~L~l~~N~i~-~l~-~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRL-RALPPALAALRCLEVLQASDNALE-NVD-GVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSSCC-CCCCGGGGGCTTCCEEECCSSCCC-CCG-GGTTCSSCCEEECCSSC
T ss_pred             CEEEcCCCCCCCCcc-cccCCCCCEEECCCCcc-Ccchhhhhhhhccccccccccccc-ccC-ccccccccCeEECCCCc
Confidence            456777788887764 78888899999988774 567777888889999999887655 444 58888899999999998


Q ss_pred             ccccch--hhhccCCCcEeecccCcCCC
Q 012324          393 IERIPE--SIIQLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       393 l~~lp~--~l~~l~~L~~L~l~~~~~~~  418 (466)
                      ++.+|.  .+..+++|+.|++++|++..
T Consensus        77 i~~~~~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          77 LQQSAAIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             CCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             cCCCCCchhhcCCCCCCEEECCCCcCCc
Confidence            886653  57888899999998888643

>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=99.41  E-value=1e-12  Score=112.27  Aligned_cols=114  Identities=18%  Similarity=0.087  Sum_probs=61.7

Q ss_pred             cCCCCCCcccEEeecCccCcc-c-ChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCC
Q 012324          304 LPEISSGNVCWLFLRGTAIEE-L-PSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLS  381 (466)
Q Consensus       304 ~~~~~~~~l~~L~l~~~~i~~-l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~  381 (466)
                      +|..+...+++|++++|.|+. + +..+.++++|++|++++|.+....+..+..+++|++|++++|.+....|..|.+++
T Consensus        23 iP~~lp~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~  102 (192)
T d1w8aa_          23 IPRDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLH  102 (192)
T ss_dssp             CCSCCCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCT
T ss_pred             cCCCCCCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCC
Confidence            333333344444444455542 2 22345566666666666555555555555566666666666555544445556666


Q ss_pred             CCcEEEccCCCccccch-hhhccCCCcEeecccCcCC
Q 012324          382 SPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       382 ~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~  417 (466)
                      +|+.|+|++|.++.+|. .|..+++|++|++++|++.
T Consensus       103 ~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_         103 QLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             TCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             cccccccCCccccccCHHHhcCCcccccccccccccc
Confidence            66666666666665543 3455666666666665543

>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=99.37  E-value=1.3e-11  Score=113.53  Aligned_cols=176  Identities=21%  Similarity=0.238  Sum_probs=125.4

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC--CcccEEeecCccCcccChhhh-----------
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS--GNVCWLFLRGTAIEELPSSID-----------  330 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~--~~l~~L~l~~~~i~~lp~~l~-----------  330 (466)
                      +++++|++++|.+...-+.++.++++|++|++++|.+....|..+.  ..+++|++++|+++.+|..+.           
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~~~~~l~~L~~~~n  110 (305)
T d1xkua_          31 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHEN  110 (305)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCCTTCCEEECCSS
T ss_pred             CCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCccCcCccchhhhhhhhhcccc
Confidence            6899999999965444445789999999999999998876676544  577999999998876654321           


Q ss_pred             -------------------------------------ccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCC
Q 012324          331 -------------------------------------RLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRL  373 (466)
Q Consensus       331 -------------------------------------~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~  373 (466)
                                                           .+++|+++++..|. ...+|..  .+++|+.|++++|......
T Consensus       111 ~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~-l~~l~~~--~~~~L~~L~l~~n~~~~~~  187 (305)
T d1xkua_         111 EITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQG--LPPSLTELHLDGNKITKVD  187 (305)
T ss_dssp             CCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCSS--CCTTCSEEECTTSCCCEEC
T ss_pred             chhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCC-ccccCcc--cCCccCEEECCCCcCCCCC
Confidence                                                 12344444444433 2223322  2466777777777777777


Q ss_pred             CcccCCCCCCcEEEccCCCcccc-chhhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCccccCCC
Q 012324          374 PECLGQLSSPIILNLAKTNIERI-PESIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDTQRI  446 (466)
Q Consensus       374 p~~l~~l~~L~~L~l~~~~l~~l-p~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~~~~  446 (466)
                      +..+..++.++.|++++|.+..+ +..+.++++|++|++++|.+ ..+|..+   .++++|+.+....+.+..+
T Consensus       188 ~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L-~~lp~~l---~~l~~L~~L~Ls~N~i~~i  257 (305)
T d1xkua_         188 AASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKL-VKVPGGL---ADHKYIQVVYLHNNNISAI  257 (305)
T ss_dssp             TGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCC-SSCCTTT---TTCSSCCEEECCSSCCCCC
T ss_pred             hhHhhccccccccccccccccccccccccccccceeeecccccc-ccccccc---ccccCCCEEECCCCccCcc
Confidence            77888999999999999999976 45788899999999999974 5677664   3556666665554444443

>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=99.37  E-value=2.6e-12  Score=122.12  Aligned_cols=150  Identities=21%  Similarity=0.215  Sum_probs=125.8

Q ss_pred             CCCCCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCC
Q 012324          257 PMLMPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLG  336 (466)
Q Consensus       257 ~~~~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~  336 (466)
                      .+.+..+++|+.+++.+|.+.+..+  +..+++|++|++++|.+.+..+......++.+.++.+.+..++ .+..+++++
T Consensus       234 ~~~l~~l~~L~~L~l~~n~l~~~~~--~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~~-~~~~~~~l~  310 (384)
T d2omza2         234 IGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDIS-PISNLKNLT  310 (384)
T ss_dssp             CGGGGGCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCG-GGGGCTTCS
T ss_pred             cchhhcccccchhccccCccCCCCc--ccccccCCEeeccCcccCCCCcccccccccccccccccccccc-ccchhcccC
Confidence            3457788999999999997665433  7889999999999998876656555667899999999988764 578999999


Q ss_pred             eeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccC
Q 012324          337 YLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       337 ~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~  414 (466)
                      +|++++|.+.+ +++ +..+++|++|++++|.+. .++ .+.++++|+.|++++|+++.+++ +.++++|+.|++++|
T Consensus       311 ~L~ls~n~l~~-l~~-l~~l~~L~~L~L~~n~l~-~l~-~l~~l~~L~~L~l~~N~l~~l~~-l~~l~~L~~L~L~~N  383 (384)
T d2omza2         311 YLTLYFNNISD-ISP-VSSLTKLQRLFFANNKVS-DVS-SLANLTNINWLSAGHNQISDLTP-LANLTRITQLGLNDQ  383 (384)
T ss_dssp             EEECCSSCCSC-CGG-GGGCTTCCEEECCSSCCC-CCG-GGGGCTTCCEEECCSSCCCBCGG-GTTCTTCSEEECCCE
T ss_pred             eEECCCCCCCC-Ccc-cccCCCCCEEECCCCCCC-CCh-hHcCCCCCCEEECCCCcCCCChh-hccCCCCCEeeCCCC
Confidence            99999987544 443 789999999999998765 444 68999999999999999998875 899999999999986

>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=99.35  E-value=8e-13  Score=109.24  Aligned_cols=81  Identities=22%  Similarity=0.155  Sum_probs=35.8

Q ss_pred             hhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCC--cccCCCCCCcEEEccCCCccccch----hhhc
Q 012324          329 IDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLP--ECLGQLSSPIILNLAKTNIERIPE----SIIQ  402 (466)
Q Consensus       329 l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p--~~l~~l~~L~~L~l~~~~l~~lp~----~l~~  402 (466)
                      +..+++|++|++++|.+....+..+..+++|++|++++|.+.. ++  ..+..+++|+.|++++|.++..|.    .+..
T Consensus        59 ~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~i~~-~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~  137 (162)
T d1a9na_          59 FPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVE-LGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYK  137 (162)
T ss_dssp             CCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCCC-GGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHH
T ss_pred             cccCcchhhhhcccccccCCCccccccccccccceeccccccc-cccccccccccccchhhcCCCccccccchHHHHHHH
Confidence            3444455555555544222211212344555555555543322 11  234445555555555555544432    2444


Q ss_pred             cCCCcEee
Q 012324          403 LFVLRYLL  410 (466)
Q Consensus       403 l~~L~~L~  410 (466)
                      +|+|++|+
T Consensus       138 lp~L~~LD  145 (162)
T d1a9na_         138 VPQVRVLD  145 (162)
T ss_dssp             CTTCSEET
T ss_pred             CCCcCeeC
Confidence            55555554

>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=99.35  E-value=3.9e-12  Score=99.90  Aligned_cols=117  Identities=25%  Similarity=0.264  Sum_probs=89.1

Q ss_pred             cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeeccccccc
Q 012324          267 VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRL  346 (466)
Q Consensus       267 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~  346 (466)
                      |+|++++|.+. .++. +..+++|++|++++                      |.++.+|+.++.+++|++|++++|.+ 
T Consensus         1 R~L~Ls~n~l~-~l~~-l~~l~~L~~L~ls~----------------------N~l~~lp~~~~~l~~L~~L~l~~N~i-   55 (124)
T d1dcea3           1 RVLHLAHKDLT-VLCH-LEQLLLVTHLDLSH----------------------NRLRALPPALAALRCLEVLQASDNAL-   55 (124)
T ss_dssp             SEEECTTSCCS-SCCC-GGGGTTCCEEECCS----------------------SCCCCCCGGGGGCTTCCEEECCSSCC-
T ss_pred             CEEEcCCCCCC-CCcc-cccCCCCCEEECCC----------------------CccCcchhhhhhhhcccccccccccc-
Confidence            46777777544 3443 66777777777776                      67888888899999999999999874 


Q ss_pred             cccccccCCCCCCCEEEecCCCCCCCC-CcccCCCCCCcEEEccCCCccccc---h-hhhccCCCcEe
Q 012324          347 KSLPSSLCKLKSLKVLNLCGCSNLQRL-PECLGQLSSPIILNLAKTNIERIP---E-SIIQLFVLRYL  409 (466)
Q Consensus       347 ~~~p~~~~~l~~L~~L~l~~~~~~~~~-p~~l~~l~~L~~L~l~~~~l~~lp---~-~l~~l~~L~~L  409 (466)
                      ..+| +++.+++|++|++++|.+...- +..+..+++|+.|++++|.++..+   . ....+|+|+.+
T Consensus        56 ~~l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          56 ENVD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             CCCG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEE
T ss_pred             cccC-ccccccccCeEECCCCccCCCCCchhhcCCCCCCEEECCCCcCCcCccHHHHHHHHCcCcceE
Confidence            4555 4899999999999998765432 356889999999999999998543   3 23457888876

>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=99.34  E-value=2.4e-12  Score=109.84  Aligned_cols=153  Identities=18%  Similarity=0.087  Sum_probs=104.0

Q ss_pred             cEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCC---CcccEEeecCccCcccC-hhhhccCCCCeeeccc
Q 012324          267 VILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISS---GNVCWLFLRGTAIEELP-SSIDRLRRLGYLNLSD  342 (466)
Q Consensus       267 ~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~~l~~L~l~~~~i~~lp-~~l~~l~~L~~L~l~~  342 (466)
                      ++++.+++.+ ..+|..+.  +++++|+|++|.+...++...+   .+|+.|++++|.+..++ ..+..+++|++|++++
T Consensus        11 ~~v~Cs~~~L-~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          11 TTVDCTGRGL-KEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCC-SSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEEeCCCc-CccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecc
Confidence            4566666533 35665442  5677777777776655544332   46677777778887654 4577888999999999


Q ss_pred             cccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhhhccCCCcEeecccCcCCCcCCC
Q 012324          343 CKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESIIQLFVLRYLLLSYSERFQSLPK  422 (466)
Q Consensus       343 ~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l~~l~~L~~L~l~~~~~~~~~p~  422 (466)
                      |.+...-|..+.++++|++|++++|.+....|..|..+++|++|++++|.+...+....-...++.+.+..+.+....|.
T Consensus        88 N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~~~~~~~~~~l~~~~l~~~~~~c~~p~  167 (192)
T d1w8aa_          88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFAEWLRKKSLNGGAARCGAPS  167 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGGGHHHHHHHHHHCCSGGGCBBCSST
T ss_pred             ccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccccccccchHHHhhhhhhhcccCCCeEeCCCh
Confidence            87665556668889999999999988877777788899999999999998874433222122345555655555544554

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=6.5e-13  Score=109.81  Aligned_cols=123  Identities=17%  Similarity=0.106  Sum_probs=92.9

Q ss_pred             cEEeecCccCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCC
Q 012324          313 CWLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN  392 (466)
Q Consensus       313 ~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~  392 (466)
                      ++|++++|+|+.++..+..+++|++|++++|.+ ..++ ++..+++|++|++++|.+....+..+..+++|+.|++++|.
T Consensus        21 r~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i-~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~   98 (162)
T d1a9na_          21 RELDLRGYKIPVIENLGATLDQFDAIDFSDNEI-RKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNS   98 (162)
T ss_dssp             EEEECTTSCCCSCCCGGGGTTCCSEEECCSSCC-CEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCC
T ss_pred             cEEECCCCCCCccCccccccccCCEEECCCCCC-CccC-CcccCcchhhhhcccccccCCCccccccccccccceecccc
Confidence            334444477888877678899999999999874 4554 58899999999999988765444456779999999999999


Q ss_pred             ccccch--hhhccCCCcEeecccCcCCCcCCCC-eEeccCCCCcccccc
Q 012324          393 IERIPE--SIIQLFVLRYLLLSYSERFQSLPKP-LFLARGCLALEPFLG  438 (466)
Q Consensus       393 l~~lp~--~l~~l~~L~~L~l~~~~~~~~~p~~-~~~l~~~~~L~~l~~  438 (466)
                      ++.++.  .+..+++|++|++++|++ ...|.. ...+..|++|+.+.+
T Consensus        99 i~~~~~l~~l~~l~~L~~L~l~~N~i-~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          99 LVELGDLDPLASLKSLTYLCILRNPV-TNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             CCCGGGGGGGGGCTTCCEEECCSSGG-GGSTTHHHHHHHHCTTCSEETT
T ss_pred             ccccccccccccccccchhhcCCCcc-ccccchHHHHHHHCCCcCeeCC
Confidence            997764  678999999999999985 444541 122445666665543

>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=99.15  E-value=2e-10  Score=101.52  Aligned_cols=166  Identities=17%  Similarity=0.119  Sum_probs=90.1

Q ss_pred             CCCcEEEcCCCCCCcccC-cccccCcccCEEecCCCCCCCccCCCCC---CcccEEeecC-ccCcccC-hhhhccCCCCe
Q 012324          264 NNLVILNLRSGKSLKSLP-SGIFNLEFLTKLDLSGCSKLKRLPEISS---GNVCWLFLRG-TAIEELP-SSIDRLRRLGY  337 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~l~~~~~~~~~~~~~~---~~l~~L~l~~-~~i~~lp-~~l~~l~~L~~  337 (466)
                      +++++|++++|.+. .+| ..|.++++|++|++++|.....++...+   ..++++.+.. +.+...+ ..+.++++|++
T Consensus        29 ~~l~~L~Ls~n~i~-~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~  107 (242)
T d1xwdc1          29 RNAIELRFVLTKLR-VIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQY  107 (242)
T ss_dssp             SCCSEEEEESCCCC-EECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCE
T ss_pred             CCCCEEECcCCcCC-ccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccc
Confidence            46778888777544 444 3567788888888888776665554322   3446666543 4555443 34667777777


Q ss_pred             eecccccccccccc--ccCCCC-------------------------CCCEEEecCCCCCCCCCcccCCCCCCcEE-Ecc
Q 012324          338 LNLSDCKRLKSLPS--SLCKLK-------------------------SLKVLNLCGCSNLQRLPECLGQLSSPIIL-NLA  389 (466)
Q Consensus       338 L~l~~~~~~~~~p~--~~~~l~-------------------------~L~~L~l~~~~~~~~~p~~l~~l~~L~~L-~l~  389 (466)
                      +++.+|.+.. .+.  .+..+.                         .++.|++++|.+. .++....+.+++..+ .+.
T Consensus       108 l~l~~~~l~~-~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~-~i~~~~~~~~~l~~~~~l~  185 (242)
T d1xwdc1         108 LLISNTGIKH-LPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQ-EIHNCAFNGTQLDELNLSD  185 (242)
T ss_dssp             EEEESCCCCS-CCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCC-EECTTTTTTCCEEEEECTT
T ss_pred             cccchhhhcc-cccccccccccccccccccccccccccccccccccccceeeeccccccc-ccccccccchhhhcccccc
Confidence            7777765322 221  111222                         3444444443333 233333333444433 345


Q ss_pred             CCCccccch-hhhccCCCcEeecccCcCCCcCCCCeEeccCCCCccc
Q 012324          390 KTNIERIPE-SIIQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEP  435 (466)
Q Consensus       390 ~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~  435 (466)
                      +|+++.+|. .+.++++|+.|++++|++ ..+|...  +.+++.|+.
T Consensus       186 ~n~l~~l~~~~f~~l~~L~~L~Ls~N~l-~~l~~~~--~~~l~~L~~  229 (242)
T d1xwdc1         186 NNNLEELPNDVFHGASGPVILDISRTRI-HSLPSYG--LENLKKLRA  229 (242)
T ss_dssp             CTTCCCCCTTTTTTSCCCSEEECTTSCC-CCCCSSS--CTTCCEEES
T ss_pred             ccccccccHHHhcCCCCCCEEECCCCcC-CccCHHH--HcCCccccc
Confidence            666666655 356677777777777663 3555432  234444444

>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=99.10  E-value=2.9e-10  Score=100.46  Aligned_cols=79  Identities=25%  Similarity=0.335  Sum_probs=57.6

Q ss_pred             CCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCc-ccCCCCCCcEEEccCCCccccch-hhhccCCCcEeec
Q 012324          334 RLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPE-CLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLL  411 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~-~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l  411 (466)
                      .++.|++.+|. +..++....+..+++.+....++....+|. .|.++++|+.|++++|+++.+|. .+.++++|+.+++
T Consensus       154 ~l~~L~l~~n~-l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~  232 (242)
T d1xwdc1         154 ESVILWLNKNG-IQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARST  232 (242)
T ss_dssp             SCEEEECCSSC-CCEECTTTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSE
T ss_pred             cceeeeccccc-ccccccccccchhhhccccccccccccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcC
Confidence            56667777665 345565566677777776555555566665 57899999999999999998876 4677777777766


Q ss_pred             cc
Q 012324          412 SY  413 (466)
Q Consensus       412 ~~  413 (466)
                      .+
T Consensus       233 ~~  234 (242)
T d1xwdc1         233 YN  234 (242)
T ss_dssp             ES
T ss_pred             CC
Confidence            53

>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=99.10  E-value=3.2e-11  Score=109.42  Aligned_cols=155  Identities=19%  Similarity=0.179  Sum_probs=87.2

Q ss_pred             CCCCCCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCcc--CC--CCCCcccEEeecCc-cCc--ccChhhhc-
Q 012324          260 MPRLNNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRL--PE--ISSGNVCWLFLRGT-AIE--ELPSSIDR-  331 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~~--~~~~~l~~L~l~~~-~i~--~lp~~l~~-  331 (466)
                      +..+++|++|++++|.+.+..+..++.+++|++|++++|......  ..  ...++|++|+++++ .++  .++..+.. 
T Consensus        67 ~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~  146 (284)
T d2astb2          67 LSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHV  146 (284)
T ss_dssp             HTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHS
T ss_pred             HHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccccccccccccccccchhhhccc
Confidence            345666777777666555555555666667777777766544321  11  12345677777663 333  22223333 


Q ss_pred             cCCCCeeecccccc-cc--ccccccCCCCCCCEEEecCCC-CCCCCCcccCCCCCCcEEEccCC-Ccc-ccchhhhccCC
Q 012324          332 LRRLGYLNLSDCKR-LK--SLPSSLCKLKSLKVLNLCGCS-NLQRLPECLGQLSSPIILNLAKT-NIE-RIPESIIQLFV  405 (466)
Q Consensus       332 l~~L~~L~l~~~~~-~~--~~p~~~~~l~~L~~L~l~~~~-~~~~~p~~l~~l~~L~~L~l~~~-~l~-~lp~~l~~l~~  405 (466)
                      .++|+.|++++|.. ..  .+..-..++++|++|++++|. +....+..+.++++|++|++++| .++ .....++++++
T Consensus       147 ~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~  226 (284)
T d2astb2         147 SETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPT  226 (284)
T ss_dssp             CTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTT
T ss_pred             ccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHHHHHhcCCC
Confidence            35677777665421 11  122223456677777777765 34455566677777777777763 454 33345667777


Q ss_pred             CcEeecccC
Q 012324          406 LRYLLLSYS  414 (466)
Q Consensus       406 L~~L~l~~~  414 (466)
                      |++|++++|
T Consensus       227 L~~L~l~~~  235 (284)
T d2astb2         227 LKTLQVFGI  235 (284)
T ss_dssp             CCEEECTTS
T ss_pred             CCEEeeeCC
Confidence            777777765

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.08  E-value=1.3e-12  Score=111.76  Aligned_cols=126  Identities=19%  Similarity=0.192  Sum_probs=63.7

Q ss_pred             CCcEEEcCCCC-CCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          265 NLVILNLRSGK-SLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       265 ~L~~L~l~~~~-~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      .++.+++++.. ....+|.++..+++|++|++++|.                      |+.++ .+..+++|++|++++|
T Consensus        24 ~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~Ls~n~----------------------I~~i~-~l~~l~~L~~L~Ls~N   80 (198)
T d1m9la_          24 EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNN----------------------IEKIS-SLSGMENLRILSLGRN   80 (198)
T ss_dssp             TCSCEECCBCCTTCCCCHHHHHHTTTCCEEECSEEE----------------------ESCCC-CHHHHTTCCEEECCEE
T ss_pred             ccceeeeecccCchhhhhhHHhcccccceeECcccC----------------------CCCcc-cccCCccccChhhccc
Confidence            45556665542 234556677788888888888754                      33332 2444555555555544


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccch--hhhccCCCcEeecccCcC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPE--SIIQLFVLRYLLLSYSER  416 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~--~l~~l~~L~~L~l~~~~~  416 (466)
                      . +..+|.....+++|+.|++++|.+.. + +.+..+++|+.|++++|.++.++.  .+..+++|++|++++|++
T Consensus        81 ~-i~~i~~~~~~~~~L~~L~l~~N~i~~-l-~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_          81 L-IKKIENLDAVADTLEELWISYNQIAS-L-SGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             E-ECSCSSHHHHHHHCCEEECSEEECCC-H-HHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHH
T ss_pred             c-cccccccccccccccccccccccccc-c-ccccccccccccccccchhccccccccccCCCccceeecCCCcc
Confidence            3 22333322233345555555443332 2 234444555555555555554432  344555555555555543

>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=99.07  E-value=1.5e-11  Score=111.64  Aligned_cols=177  Identities=19%  Similarity=0.188  Sum_probs=123.3

Q ss_pred             CCCCCCCcEEEcCCCCCCcc-cCcccccCcccCEEecCCCCCCCccCCCC--CCcccEEeecC-ccCc--ccChhhhccC
Q 012324          260 MPRLNNLVILNLRSGKSLKS-LPSGIFNLEFLTKLDLSGCSKLKRLPEIS--SGNVCWLFLRG-TAIE--ELPSSIDRLR  333 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~-~~~~l~~l~~L~~L~l~~~~~~~~~~~~~--~~~l~~L~l~~-~~i~--~lp~~l~~l~  333 (466)
                      ......|++|++++|.+... ++..+..+++|++|++++|.+.+..+..+  ..+|++|++++ +.++  .+..-...++
T Consensus        42 ~~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~  121 (284)
T d2astb2          42 HFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCS  121 (284)
T ss_dssp             CCCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCT
T ss_pred             hccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHH
Confidence            34556899999999866543 45557889999999999998765544332  35789999998 4665  2334456789


Q ss_pred             CCCeeeccccccccc--cccccC-CCCCCCEEEecCCCC--CC-CCCcccCCCCCCcEEEccCC-Ccc-ccchhhhccCC
Q 012324          334 RLGYLNLSDCKRLKS--LPSSLC-KLKSLKVLNLCGCSN--LQ-RLPECLGQLSSPIILNLAKT-NIE-RIPESIIQLFV  405 (466)
Q Consensus       334 ~L~~L~l~~~~~~~~--~p~~~~-~l~~L~~L~l~~~~~--~~-~~p~~l~~l~~L~~L~l~~~-~l~-~lp~~l~~l~~  405 (466)
                      +|++|++++|.....  +...+. ..++|+.|++++|..  .. .+...+.++++|++|++++| .++ ..+..+.++++
T Consensus       122 ~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~  201 (284)
T d2astb2         122 RLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNY  201 (284)
T ss_dssp             TCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTT
T ss_pred             hccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCc
Confidence            999999999864432  222233 347899999998632  21 23334467899999999875 466 56677889999


Q ss_pred             CcEeecccCcCCCcCCCCeEeccCCCCcccccc
Q 012324          406 LRYLLLSYSERFQSLPKPLFLARGCLALEPFLG  438 (466)
Q Consensus       406 L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~  438 (466)
                      |++|++++|..+.+  ..+..+..|++|+.+..
T Consensus       202 L~~L~L~~C~~i~~--~~l~~L~~~~~L~~L~l  232 (284)
T d2astb2         202 LQHLSLSRCYDIIP--ETLLELGEIPTLKTLQV  232 (284)
T ss_dssp             CCEEECTTCTTCCG--GGGGGGGGCTTCCEEEC
T ss_pred             CCEEECCCCCCCCh--HHHHHHhcCCCCCEEee
Confidence            99999999864431  22333455666666544

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=2.6e-10  Score=93.13  Aligned_cols=104  Identities=18%  Similarity=0.121  Sum_probs=82.5

Q ss_pred             EEeecCccCcccChhhhccCCCCeeeccccccccccc-cccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCC
Q 012324          314 WLFLRGTAIEELPSSIDRLRRLGYLNLSDCKRLKSLP-SSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTN  392 (466)
Q Consensus       314 ~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p-~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~  392 (466)
                      .++.+++.+...|..+..+++|++|++.+++.+..++ ..+..+++|+.|++++|.+...-|..|..+++|+.|+|++|+
T Consensus        12 ~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             eEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCC
Confidence            4555556777778888888889999987766555555 557888999999999888776667788889999999999999


Q ss_pred             ccccchhhhccCCCcEeecccCcCC
Q 012324          393 IERIPESIIQLFVLRYLLLSYSERF  417 (466)
Q Consensus       393 l~~lp~~l~~l~~L~~L~l~~~~~~  417 (466)
                      ++.+|.......+|++|++++|++.
T Consensus        92 l~~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          92 LESLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             CcccChhhhccccccccccCCCccc
Confidence            9988886666667999999988763

>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=98.92  E-value=2.3e-08  Score=92.76  Aligned_cols=73  Identities=16%  Similarity=0.167  Sum_probs=40.6

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      ++|++|++++|.+. .+|..   +.+|+.|++++|.+. .++. ....+++|++++|.+..+|. ++.+++|++|++++|
T Consensus        58 ~~L~~L~Ls~N~l~-~lp~~---~~~L~~L~l~~n~l~-~l~~-lp~~L~~L~L~~n~l~~lp~-~~~l~~L~~L~l~~~  130 (353)
T d1jl5a_          58 PHLESLVASCNSLT-ELPEL---PQSLKSLLVDNNNLK-ALSD-LPPLLEYLGVSNNQLEKLPE-LQNSSFLKIIDVDNN  130 (353)
T ss_dssp             TTCSEEECCSSCCS-SCCCC---CTTCCEEECCSSCCS-CCCS-CCTTCCEEECCSSCCSSCCC-CTTCTTCCEEECCSS
T ss_pred             CCCCEEECCCCCCc-ccccc---hhhhhhhhhhhcccc-hhhh-hccccccccccccccccccc-hhhhccceeeccccc
Confidence            56777777776433 55653   345566666665433 2221 22345666666666666653 355566666665544

>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=98.87  E-value=1.8e-11  Score=104.61  Aligned_cols=117  Identities=19%  Similarity=0.166  Sum_probs=89.2

Q ss_pred             cCcccChhhhccCCCCeeeccccccccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccchhh
Q 012324          321 AIEELPSSIDRLRRLGYLNLSDCKRLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIPESI  400 (466)
Q Consensus       321 ~i~~lp~~l~~l~~L~~L~l~~~~~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp~~l  400 (466)
                      .+..+|.++..+++|++|++++|.+ ..++ .+..+++|++|++++|.+. .+|.....+++|+.|++++|.++.++ .+
T Consensus        36 ~i~~l~~sl~~L~~L~~L~Ls~n~I-~~i~-~l~~l~~L~~L~Ls~N~i~-~i~~~~~~~~~L~~L~l~~N~i~~l~-~~  111 (198)
T d1m9la_          36 PIEKMDATLSTLKACKHLALSTNNI-EKIS-SLSGMENLRILSLGRNLIK-KIENLDAVADTLEELWISYNQIASLS-GI  111 (198)
T ss_dssp             TCCCCHHHHHHTTTCCEEECSEEEE-SCCC-CHHHHTTCCEEECCEEEEC-SCSSHHHHHHHCCEEECSEEECCCHH-HH
T ss_pred             chhhhhhHHhcccccceeECcccCC-CCcc-cccCCccccChhhcccccc-cccccccccccccccccccccccccc-cc
Confidence            4667788899999999999999874 4565 4888999999999997654 56655555678999999999999874 58


Q ss_pred             hccCCCcEeecccCcCCCcCCCCeEeccCCCCccccccCcccc
Q 012324          401 IQLFVLRYLLLSYSERFQSLPKPLFLARGCLALEPFLGIIEDT  443 (466)
Q Consensus       401 ~~l~~L~~L~l~~~~~~~~~p~~~~~l~~~~~L~~l~~~~~~~  443 (466)
                      .++++|+.|++++|.+.. ++. +..+.++++|+.+....+.+
T Consensus       112 ~~l~~L~~L~L~~N~i~~-~~~-~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         112 EKLVNLRVLYMSNNKITN-WGE-IDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             HHHHHSSEEEESEEECCC-HHH-HHHHTTTTTCSEEEECSSHH
T ss_pred             cccccccccccccchhcc-ccc-cccccCCCccceeecCCCcc
Confidence            889999999999987532 321 23456777888777655543

>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=98.76  E-value=3.8e-08  Score=79.95  Aligned_cols=106  Identities=18%  Similarity=0.014  Sum_probs=69.9

Q ss_pred             CcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccCh-hhhccCCCCeeeccccc
Q 012324          266 LVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPS-SIDRLRRLGYLNLSDCK  344 (466)
Q Consensus       266 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~-~l~~l~~L~~L~l~~~~  344 (466)
                      ...++..++.. ...|..+..+++|++|+++++                     +.++.++. .|.++++|+.|++++|.
T Consensus        10 ~~~l~c~~~~~-~~~p~~l~~l~~l~~L~l~~n---------------------~~l~~i~~~~f~~l~~L~~L~Ls~N~   67 (156)
T d2ifga3          10 SSGLRCTRDGA-LDSLHHLPGAENLTELYIENQ---------------------QHLQHLELRDLRGLGELRNLTIVKSG   67 (156)
T ss_dssp             SSCEECCSSCC-CTTTTTSCSCSCCSEEECCSC---------------------SSCCEECGGGSCSCCCCSEEECCSSC
T ss_pred             CCeEEecCCCC-ccCcccccCccccCeeecCCC---------------------ccccccCchhhccccccCcceeeccc
Confidence            34456655533 234555556666666666553                     34666654 46778888888888877


Q ss_pred             cccccccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCcc
Q 012324          345 RLKSLPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       345 ~~~~~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      +...-|..+..+++|++|++++|.+. .+|...-....|+.|++++|.+.
T Consensus        68 l~~i~~~~f~~l~~L~~L~Ls~N~l~-~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          68 LRFVAPDAFHFTPRLSRLNLSFNALE-SLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             CCEECTTGGGSCSCCCEEECCSSCCS-CCCSTTTCSCCCCEEECCSSCCC
T ss_pred             cCCcccccccccccccceeccCCCCc-ccChhhhccccccccccCCCccc
Confidence            55555666788888888888886655 45554444456888888888875

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.71  E-value=6.3e-10  Score=103.77  Aligned_cols=184  Identities=15%  Similarity=0.032  Sum_probs=117.9

Q ss_pred             CCCCCCCcEEEcCCCCCCcc----cCcccccCcccCEEecCCCCCCCccCC---------------CCCCcccEEeecCc
Q 012324          260 MPRLNNLVILNLRSGKSLKS----LPSGIFNLEFLTKLDLSGCSKLKRLPE---------------ISSGNVCWLFLRGT  320 (466)
Q Consensus       260 ~~~l~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~---------------~~~~~l~~L~l~~~  320 (466)
                      +..+++|+.|++++|.+...    +...+..+++|++|++++|.+......               .....++.+.+++|
T Consensus        89 l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n  168 (344)
T d2ca6a1          89 LLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRN  168 (344)
T ss_dssp             HTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSS
T ss_pred             HhhCCCcccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccc
Confidence            45567899999998866543    444456778899999998875321110               12235678888887


Q ss_pred             cCc-----ccChhhhccCCCCeeeccccccccc-----cccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEE
Q 012324          321 AIE-----ELPSSIDRLRRLGYLNLSDCKRLKS-----LPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIIL  386 (466)
Q Consensus       321 ~i~-----~lp~~l~~l~~L~~L~l~~~~~~~~-----~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L  386 (466)
                      .++     .+...+...+.|++|++++|.+...     +...+..+++|+.|++++|.+...    +...+..+++|+.|
T Consensus       169 ~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L  248 (344)
T d2ca6a1         169 RLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLREL  248 (344)
T ss_dssp             CCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEE
T ss_pred             cccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccccccccccccccccccccchhh
Confidence            775     3445566778899999888875432     334567788899999988765432    34566778889999


Q ss_pred             EccCCCccc-----cchhhhc--cCCCcEeecccCcCCCcCCCCeEe-c-cCCCCccccccCcccc
Q 012324          387 NLAKTNIER-----IPESIIQ--LFVLRYLLLSYSERFQSLPKPLFL-A-RGCLALEPFLGIIEDT  443 (466)
Q Consensus       387 ~l~~~~l~~-----lp~~l~~--l~~L~~L~l~~~~~~~~~p~~~~~-l-~~~~~L~~l~~~~~~~  443 (466)
                      ++++|.++.     +-..+..  .+.|++|++++|.+...-...+.. + .+++.|+.+...++.+
T Consensus       249 ~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~  314 (344)
T d2ca6a1         249 GLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRF  314 (344)
T ss_dssp             ECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             hhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcC
Confidence            999888872     2223333  356889999888743321111111 1 1455666665555554

>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=98.62  E-value=7e-07  Score=82.39  Aligned_cols=96  Identities=26%  Similarity=0.262  Sum_probs=76.3

Q ss_pred             CCCcEEEcCCCCCCcccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCCeeecccc
Q 012324          264 NNLVILNLRSGKSLKSLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLGYLNLSDC  343 (466)
Q Consensus       264 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~~L~l~~~  343 (466)
                      .++++|+++++.+ ..+|+.   .++|++|++++|.+. .+|.. .++|+.|++++|+++.++..   .+.|++|++++|
T Consensus        38 ~~l~~LdLs~~~L-~~lp~~---~~~L~~L~Ls~N~l~-~lp~~-~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~~n  108 (353)
T d1jl5a_          38 RQAHELELNNLGL-SSLPEL---PPHLESLVASCNSLT-ELPEL-PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSNN  108 (353)
T ss_dssp             HTCSEEECTTSCC-SCCCSC---CTTCSEEECCSSCCS-SCCCC-CTTCCEEECCSSCCSCCCSC---CTTCCEEECCSS
T ss_pred             cCCCEEEeCCCCC-CCCCCC---CCCCCEEECCCCCCc-ccccc-hhhhhhhhhhhcccchhhhh---cccccccccccc
Confidence            3788999999865 468863   578999999998755 66754 46899999999999877642   246999999998


Q ss_pred             ccccccccccCCCCCCCEEEecCCCCC
Q 012324          344 KRLKSLPSSLCKLKSLKVLNLCGCSNL  370 (466)
Q Consensus       344 ~~~~~~p~~~~~l~~L~~L~l~~~~~~  370 (466)
                      . ...+|. ++.+++|++|++++|...
T Consensus       109 ~-l~~lp~-~~~l~~L~~L~l~~~~~~  133 (353)
T d1jl5a_         109 Q-LEKLPE-LQNSSFLKIIDVDNNSLK  133 (353)
T ss_dssp             C-CSSCCC-CTTCTTCCEEECCSSCCS
T ss_pred             c-cccccc-hhhhccceeecccccccc
Confidence            7 556775 688999999999887654

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.44  E-value=4.6e-08  Score=90.80  Aligned_cols=157  Identities=17%  Similarity=0.061  Sum_probs=110.7

Q ss_pred             CCCCCcEEEcCCCCCCcccC----cc---------cccCcccCEEecCCCCCCCccCC------CCCCcccEEeecCccC
Q 012324          262 RLNNLVILNLRSGKSLKSLP----SG---------IFNLEFLTKLDLSGCSKLKRLPE------ISSGNVCWLFLRGTAI  322 (466)
Q Consensus       262 ~l~~L~~L~l~~~~~~~~~~----~~---------l~~l~~L~~L~l~~~~~~~~~~~------~~~~~l~~L~l~~~~i  322 (466)
                      .+++|+.|++++|.+...-.    ..         ....+.|+.+.+++|.+......      .....++.|++++|.+
T Consensus       119 ~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i  198 (344)
T d2ca6a1         119 KHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGI  198 (344)
T ss_dssp             HCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCC
T ss_pred             ccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhcccccccccc
Confidence            45789999999886542211    11         12467889999998876543221      1234679999999988


Q ss_pred             cc------cChhhhccCCCCeeeccccccccc----cccccCCCCCCCEEEecCCCCCCCCCc----ccC--CCCCCcEE
Q 012324          323 EE------LPSSIDRLRRLGYLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNLQRLPE----CLG--QLSSPIIL  386 (466)
Q Consensus       323 ~~------lp~~l~~l~~L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~~~~p~----~l~--~l~~L~~L  386 (466)
                      ..      +...+..+++|+.|++++|.+...    +...+..+++|++|++++|.+......    .+.  ..+.|++|
T Consensus       199 ~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L  278 (344)
T d2ca6a1         199 RPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTL  278 (344)
T ss_dssp             CHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEE
T ss_pred             cccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEE
Confidence            73      334567889999999999875432    445677899999999999987654322    233  24679999


Q ss_pred             EccCCCcc-----ccchhhh-ccCCCcEeecccCcCCC
Q 012324          387 NLAKTNIE-----RIPESII-QLFVLRYLLLSYSERFQ  418 (466)
Q Consensus       387 ~l~~~~l~-----~lp~~l~-~l~~L~~L~l~~~~~~~  418 (466)
                      ++++|.++     .+...+. ++++|++|++++|.+..
T Consensus       279 ~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~  316 (344)
T d2ca6a1         279 RLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE  316 (344)
T ss_dssp             ECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBSCT
T ss_pred             ECCCCcCChHHHHHHHHHHHccCCCCCEEECCCCcCCC
Confidence            99999987     2444553 68899999999988643

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=1.1e-06  Score=84.23  Aligned_cols=157  Identities=20%  Similarity=0.098  Sum_probs=95.4

Q ss_pred             CCCCCCcEEEcCCCCCCcc----cCcccccCcccCEEecCCCCCCCccC-------CCCCCcccEEeecCccCcc-----
Q 012324          261 PRLNNLVILNLRSGKSLKS----LPSGIFNLEFLTKLDLSGCSKLKRLP-------EISSGNVCWLFLRGTAIEE-----  324 (466)
Q Consensus       261 ~~l~~L~~L~l~~~~~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~-------~~~~~~l~~L~l~~~~i~~-----  324 (466)
                      .....++.+++++|.+...    ....+...+.++.+++++|.+.....       ......++.++++++.++.     
T Consensus       252 ~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l~l~~~~l~~~~~~~  331 (460)
T d1z7xw1         252 HPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSH  331 (460)
T ss_dssp             STTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccchhhccccccccccccccccccchhhhhhhh
Confidence            3456788888888755432    22334567778888888876543211       1222456788888777663     


Q ss_pred             cChhhhccCCCCeeecccccccc----ccccccC-CCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCcc-
Q 012324          325 LPSSIDRLRRLGYLNLSDCKRLK----SLPSSLC-KLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNIE-  394 (466)
Q Consensus       325 lp~~l~~l~~L~~L~l~~~~~~~----~~p~~~~-~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~-  394 (466)
                      +...+...++|++|++++|.+..    .++..+. ..+.|++|++++|.+...    +++.+..+++|++|++++|+++ 
T Consensus       332 l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~N~i~~  411 (460)
T d1z7xw1         332 FSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGD  411 (460)
T ss_dssp             HHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCH
T ss_pred             cccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCChHHHHHHHHHHhcCCCCCEEECCCCcCCH
Confidence            22334456678888888776533    2333343 356688888888776532    3445566778888888888876 


Q ss_pred             c----cchhhh-ccCCCcEeecccCcCC
Q 012324          395 R----IPESII-QLFVLRYLLLSYSERF  417 (466)
Q Consensus       395 ~----lp~~l~-~l~~L~~L~l~~~~~~  417 (466)
                      .    +...+. +.+.|+.|++.+|.+.
T Consensus       412 ~g~~~l~~~l~~~~~~L~~l~l~~~~~~  439 (460)
T d1z7xw1         412 AGILQLVESVRQPGCLLEQLVLYDIYWS  439 (460)
T ss_dssp             HHHHHHHHHHTSTTCCCCEEECTTCCCC
T ss_pred             HHHHHHHHHHHhCCCccCEEECCCCCCC
Confidence            1    222232 2346888888776644

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.89  E-value=2.1e-06  Score=82.09  Aligned_cols=106  Identities=17%  Similarity=0.116  Sum_probs=55.3

Q ss_pred             ccCEEecCCCCCCCcc-CC--CCCCcccEEeecCccCc-----ccChhhhccCCCCeeecccccccc----ccccccC-C
Q 012324          289 FLTKLDLSGCSKLKRL-PE--ISSGNVCWLFLRGTAIE-----ELPSSIDRLRRLGYLNLSDCKRLK----SLPSSLC-K  355 (466)
Q Consensus       289 ~L~~L~l~~~~~~~~~-~~--~~~~~l~~L~l~~~~i~-----~lp~~l~~l~~L~~L~l~~~~~~~----~~p~~~~-~  355 (466)
                      +|+.||++++++.+.. ..  ...+++++|++++|+++     .++..+..+++|++|++++|.+..    .+...+. .
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~   82 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   82 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcC
Confidence            4667777776654421 11  11245566666666655     234445566666666666655321    1122222 2


Q ss_pred             CCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCcc
Q 012324          356 LKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       356 l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      ..+|++|++++|.+...    +++.+..+++|+.|++++|.++
T Consensus        83 ~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          83 SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             CCCCCEEECCCCCccccccccccchhhccccccccccccccch
Confidence            23566666666654332    3344556666666666666655

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=1.9e-06  Score=70.11  Aligned_cols=81  Identities=21%  Similarity=0.053  Sum_probs=39.2

Q ss_pred             hccCCCCeeeccccccccc--cccccCCCCCCCEEEecCCCCCCCCCcccCCCCCCcEEEccCCCccccc--------hh
Q 012324          330 DRLRRLGYLNLSDCKRLKS--LPSSLCKLKSLKVLNLCGCSNLQRLPECLGQLSSPIILNLAKTNIERIP--------ES  399 (466)
Q Consensus       330 ~~l~~L~~L~l~~~~~~~~--~p~~~~~l~~L~~L~l~~~~~~~~~p~~l~~l~~L~~L~l~~~~l~~lp--------~~  399 (466)
                      ..+++|++|++++|.+...  ++..+..+++|+.|++++|.+...-+-......+|+.|++++|.+....        ..
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i  141 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAI  141 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHHH
Confidence            4455666666666553321  1222345566666666664443221111122335666666666655221        12


Q ss_pred             hhccCCCcEee
Q 012324          400 IIQLFVLRYLL  410 (466)
Q Consensus       400 l~~l~~L~~L~  410 (466)
                      +..+|+|+.||
T Consensus       142 ~~~~P~L~~LD  152 (162)
T d1koha1         142 RERFPKLLRLD  152 (162)
T ss_dssp             HTTSTTCCEET
T ss_pred             HHHCCCCCEEC
Confidence            44567777665

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=2.2e-06  Score=69.67  Aligned_cols=86  Identities=17%  Similarity=0.118  Sum_probs=61.5

Q ss_pred             cCCCCCCCEEEecCCCCCCC--CCcccCCCCCCcEEEccCCCccccch-hhhccCCCcEeecccCcCCCcCCCC----eE
Q 012324          353 LCKLKSLKVLNLCGCSNLQR--LPECLGQLSSPIILNLAKTNIERIPE-SIIQLFVLRYLLLSYSERFQSLPKP----LF  425 (466)
Q Consensus       353 ~~~l~~L~~L~l~~~~~~~~--~p~~l~~l~~L~~L~l~~~~l~~lp~-~l~~l~~L~~L~l~~~~~~~~~p~~----~~  425 (466)
                      ...+++|++|++++|.+...  ++..+..+++|+.|++++|.++.+++ ......+|+.|++++|++.......    ..
T Consensus        61 ~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~  140 (162)
T d1koha1          61 EENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISA  140 (162)
T ss_dssp             HHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHH
T ss_pred             HHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcCcCcccchhHHHH
Confidence            34688899999999877542  34556778999999999999998765 3334567899999999876654432    12


Q ss_pred             eccCCCCcccccc
Q 012324          426 LARGCLALEPFLG  438 (466)
Q Consensus       426 ~l~~~~~L~~l~~  438 (466)
                      -+..+++|+.+.+
T Consensus       141 i~~~~P~L~~LDg  153 (162)
T d1koha1         141 IRERFPKLLRLDG  153 (162)
T ss_dssp             HHTTSTTCCEETT
T ss_pred             HHHHCCCCCEECc
Confidence            2456777776655

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.25  E-value=6.5e-05  Score=60.91  Aligned_cols=87  Identities=15%  Similarity=0.036  Sum_probs=42.1

Q ss_pred             hhhccCCCCeeeccccccccc----cccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEccCCCccc----
Q 012324          328 SIDRLRRLGYLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLAKTNIER----  395 (466)
Q Consensus       328 ~l~~l~~L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~~~~l~~----  395 (466)
                      .+...++|++|++++|.+...    +...+...++|++|++++|.+...    +-+.+...+.|++|++++|.+..    
T Consensus        39 ~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~n~~~~~g~~  118 (167)
T d1pgva_          39 AACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQ  118 (167)
T ss_dssp             HHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHH
T ss_pred             HHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcCCCccHH
Confidence            344445555555555543221    112233445566666666544332    12234455556666665554331    


Q ss_pred             ----cchhhhccCCCcEeecccC
Q 012324          396 ----IPESIIQLFVLRYLLLSYS  414 (466)
Q Consensus       396 ----lp~~l~~l~~L~~L~l~~~  414 (466)
                          +...+..-+.|+.|+++++
T Consensus       119 ~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_         119 VEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHHHHHhCCCccEeeCcCC
Confidence                3334445566666666543

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.11  E-value=0.00013  Score=59.15  Aligned_cols=115  Identities=15%  Similarity=0.081  Sum_probs=71.2

Q ss_pred             CCCCCcEEEcCCCC-CCcc----cCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCC
Q 012324          262 RLNNLVILNLRSGK-SLKS----LPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLG  336 (466)
Q Consensus       262 ~l~~L~~L~l~~~~-~~~~----~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~  336 (466)
                      +.++|+.|+|+++. +...    +...+...++|+.|++++|.+...                 ....+...+...+.|+
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~-----------------~~~~la~~L~~n~~L~   75 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDS-----------------EARGLIELIETSPSLR   75 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHH-----------------HHTTHHHHHHHCSSCC
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchh-----------------HHHHHhhhhhhccccc
Confidence            44788888887643 3221    333455667788888877643211                 1123444566677888


Q ss_pred             eeeccccccccc----cccccCCCCCCCEEEecCCCCCC-------CCCcccCCCCCCcEEEccCCCc
Q 012324          337 YLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNLQ-------RLPECLGQLSSPIILNLAKTNI  393 (466)
Q Consensus       337 ~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~~-------~~p~~l~~l~~L~~L~l~~~~l  393 (466)
                      +|++++|.+...    +...+...++|++|++++|....       .+.+.+...+.|+.|+++.+..
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 VLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFASM  143 (167)
T ss_dssp             EEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             ceeeehhhcchHHHHHHHHHHHhCCcCCEEECCCCcCCCccHHHHHHHHHHHHhCCCccEeeCcCCCc
Confidence            888888865433    23456777889999998764332       1334455567888888876543

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.58  E-value=0.00046  Score=55.55  Aligned_cols=91  Identities=15%  Similarity=0.109  Sum_probs=55.5

Q ss_pred             cChhhhccCCCCeeeccccccccc----cccccCCCCCCCEEEecCCCCCCC----CCcccCCCCCCcEEEcc--CCCcc
Q 012324          325 LPSSIDRLRRLGYLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGCSNLQR----LPECLGQLSSPIILNLA--KTNIE  394 (466)
Q Consensus       325 lp~~l~~l~~L~~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~~~~~~----~p~~l~~l~~L~~L~l~--~~~l~  394 (466)
                      +-..+...++|++|++++|.+...    +...+...++++.+++++|.....    +.+.+...+.|+.+++.  +|.+.
T Consensus        38 l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~  117 (166)
T d1io0a_          38 CAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLG  117 (166)
T ss_dssp             HHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCC
T ss_pred             HHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCc
Confidence            444555667777777777754332    223345567788888777665432    23455666777765553  45554


Q ss_pred             -----ccchhhhccCCCcEeecccCc
Q 012324          395 -----RIPESIIQLFVLRYLLLSYSE  415 (466)
Q Consensus       395 -----~lp~~l~~l~~L~~L~l~~~~  415 (466)
                           .+...+...++|++|+++++.
T Consensus       118 ~~~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_         118 NNVEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHHHHHHHHhCCCcCEEeCcCCC
Confidence                 244456677788888876653

>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=95.93  E-value=0.0015  Score=52.31  Aligned_cols=116  Identities=15%  Similarity=0.048  Sum_probs=71.7

Q ss_pred             CCCCCcEEEcCCCC-CCc----ccCcccccCcccCEEecCCCCCCCccCCCCCCcccEEeecCccCcccChhhhccCCCC
Q 012324          262 RLNNLVILNLRSGK-SLK----SLPSGIFNLEFLTKLDLSGCSKLKRLPEISSGNVCWLFLRGTAIEELPSSIDRLRRLG  336 (466)
Q Consensus       262 ~l~~L~~L~l~~~~-~~~----~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~l~~L~l~~~~i~~lp~~l~~l~~L~  336 (466)
                      +.+.|+.|+++++. +..    .+...+...++|+.|++++|.+...                 ....+...+...++++
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~-----------------~~~~L~~~l~~~~~l~   77 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDP-----------------VAFALAEMLKVNNTLK   77 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHH-----------------HHHHHHHHHHHCSSCC
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHH-----------------HHHHHHHHHhhcccch
Confidence            45788888887643 322    1334455677888888888643221                 1123445566678888


Q ss_pred             eeeccccccccc----cccccCCCCCCCEEEecCC--CCCC----CCCcccCCCCCCcEEEccCCCcc
Q 012324          337 YLNLSDCKRLKS----LPSSLCKLKSLKVLNLCGC--SNLQ----RLPECLGQLSSPIILNLAKTNIE  394 (466)
Q Consensus       337 ~L~l~~~~~~~~----~p~~~~~l~~L~~L~l~~~--~~~~----~~p~~l~~l~~L~~L~l~~~~l~  394 (466)
                      .+++.+|.....    +...+...++|+.+++..+  .+..    .+.+.+...+.|+.|++..+...
T Consensus        78 ~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~~~~  145 (166)
T d1io0a_          78 SLNVESNFISGSGILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQG  145 (166)
T ss_dssp             EEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             hhhhccccccchhHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCCCCc
Confidence            888888765433    3345677788888777543  3322    23445667788999998766543

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=93.15  E-value=0.065  Score=45.93  Aligned_cols=100  Identities=17%  Similarity=0.232  Sum_probs=58.7

Q ss_pred             CeEEEEEeCCCChH-----h-HHHHHhcCCCCCCCcEEEEEeCChhhHhhc-C-----------cceEEEccCCChhhHH
Q 012324            1 MKVLIVFDDVTCFS-----Q-LESIIRSLDWLTPVSRIIITTRNKQVLRNW-G-----------VRKIYEIEALENHHAL   62 (466)
Q Consensus         1 kr~LlvlDd~~~~~-----~-~~~l~~~~~~~~~gs~IlvTTR~~~v~~~~-~-----------~~~~~~l~~L~~~~~~   62 (466)
                      +++++|+|++....     + +..+..... .......+++++........ .           ....+.+++++.+|+.
T Consensus       136 ~~~~i~id~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~  214 (283)
T d2fnaa2         136 DNVIIVLDEAQELVKLRGVNLLPALAYAYD-NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAI  214 (283)
T ss_dssp             SCEEEEEETGGGGGGCTTCCCHHHHHHHHH-HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHH
T ss_pred             cccccccchhhhhcccchHHHHHHHHHHHH-hhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHH
Confidence            46789999874211     1 222222111 12334455555554332221 1           1257899999999999


Q ss_pred             HHHHHhhcCCCCCCchHHHHHHHHHHHhCCCceeehhhhhhcc
Q 012324           63 ELFSRHAFKRNHPDVGYEKLSSKVMKYAQGVPLALKVLGCFLY  105 (466)
Q Consensus        63 ~Lf~~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~  105 (466)
                      +++.+.+-...-....    +++|.+.++|.|..+..++..+.
T Consensus       215 ~~l~~~~~~~~~~~~~----~~~i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         215 EFLRRGFQEADIDFKD----YEVVYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHHHHHHHHHTCCCCC----HHHHHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcCCCHHH----HHHHHHHhCCCHHHHHHHHHHHH
Confidence            9998765321111111    46889999999998888876554

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=86.50  E-value=1.2  Score=35.91  Aligned_cols=88  Identities=13%  Similarity=0.216  Sum_probs=62.1

Q ss_pred             eEEEEEeCCCCh--HhHHHHHhcCCCCCCCcEEEEEeCChh-hHhh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCc
Q 012324            2 KVLIVFDDVTCF--SQLESIIRSLDWLTPVSRIIITTRNKQ-VLRN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDV   77 (466)
Q Consensus         2 r~LlvlDd~~~~--~~~~~l~~~~~~~~~gs~IlvTTR~~~-v~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~   77 (466)
                      +-++|+||+...  +....++..+.+-....++|.||++.+ +... ..-...+.++++++++..+.+....    ..+ 
T Consensus       109 ~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~~----~~~-  183 (207)
T d1a5ta2         109 AKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV----TMS-  183 (207)
T ss_dssp             CEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC----CCC-
T ss_pred             cceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCCCHHHHHHHHHHcC----CCC-
Confidence            347899998754  347777777776677888888888764 3222 2223689999999999999887653    112 


Q ss_pred             hHHHHHHHHHHHhCCCcee
Q 012324           78 GYEKLSSKVMKYAQGVPLA   96 (466)
Q Consensus        78 ~~~~~~~~i~~~c~glPla   96 (466)
                        .+.+..|++..+|.|-.
T Consensus       184 --~~~~~~i~~~s~Gs~r~  200 (207)
T d1a5ta2         184 --QDALLAALRLSAGSPGA  200 (207)
T ss_dssp             --HHHHHHHHHHTTTCHHH
T ss_pred             --HHHHHHHHHHcCCCHHH
Confidence              45677788888888754

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=83.62  E-value=1.5  Score=36.27  Aligned_cols=91  Identities=12%  Similarity=0.171  Sum_probs=58.9

Q ss_pred             EEEEEeCCCChH--hHHHHHhcCCCCCCCcEEEEEeCChhhH-hh-cCcceEEEccCCChhhHHHHHHHhhcCCCCCCch
Q 012324            3 VLIVFDDVTCFS--QLESIIRSLDWLTPVSRIIITTRNKQVL-RN-WGVRKIYEIEALENHHALELFSRHAFKRNHPDVG   78 (466)
Q Consensus         3 ~LlvlDd~~~~~--~~~~l~~~~~~~~~gs~IlvTTR~~~v~-~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~   78 (466)
                      -++|||++....  .-+.|+..+.+....+++|.+|.+.+-. .. -.-...+.+++++.++-.+.+.+.+-.....  -
T Consensus       117 kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~--~  194 (239)
T d1njfa_         117 KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--H  194 (239)
T ss_dssp             EEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--B
T ss_pred             EEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhccC--C
Confidence            478999997643  3455655554445677788887765321 11 1233689999999999998888776332221  1


Q ss_pred             HHHHHHHHHHHhCCCce
Q 012324           79 YEKLSSKVMKYAQGVPL   95 (466)
Q Consensus        79 ~~~~~~~i~~~c~glPl   95 (466)
                      ..+....|++.++|-+-
T Consensus       195 ~~~~l~~i~~~s~Gd~R  211 (239)
T d1njfa_         195 EPRALQLLARAAEGSLR  211 (239)
T ss_dssp             CHHHHHHHHHHTTTCHH
T ss_pred             CHHHHHHHHHHcCCCHH
Confidence            24556778888888764