Citrus Sinensis ID: 042164

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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-----
Protein Sequence
MEETIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE
Secondary Structure (PSIPRED)
cccHHHcccEEEEcccccccccccccccccccEEEccccccccccccHHHHcccccccEEEccccccccccccccccccccEEccccccccccccccccccccEEEccccccccccHHHHccccccEEEcccccccccccHHHHHccccccEEEccccccccccccccccccHHHHcccccccEEEEEcccccccccHHHHccccEEEEEEcccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccEEEcccccHHHcccccccccHHHHHHHccccccccccHHHHHHcHccEEEEccccccccccccHHHHHHHcEEEcccccccccHHHHHHcccEEEEcccccHHHccHHHHHHHcccEEEcccccccccccccHHHHHHHcEEEEEcccccccccccccccccHHHHHHHHccccccEEccccHHcccccHHHHccEEEEEEccccccccccccccHHHHHHcccc
Coil and Loop (DISEMBL)
meetirkgpiaislpqrdiqelperlqcpnlqLFLLfregngpmqisdhffegteelkvldftgihfsslpssLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFrgsnikqlpleigqLTRLqlldlsncwslevippnvisKLSRLEELYMDisfsqwdkveggsnaslaelkglsklttlniqvpdaqilpqEWVFVELQSYRICignkwwsswsVKSGLSRLMKLQGLE
Flexible Loop (DISEMBL)
meetirkgpiaislpqrdIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIgnkwwsswsvksglsrlmklqgle
Low Complexity Region (SEG)
MEETIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE
Disordered region (IsUnstruct)
*********************LPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGL**********
Disordered Region (DISOPRED)
*EETIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE
Disordered Region (DISEMBL)
MEETIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE
Disordered Region (DISPRO)
MEE*IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEETIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE
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	235	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.897	0.214	0.290	2e-14
Q42484	909	Disease resistance protei	no	no	0.757	0.195	0.297	7e-13
O81825	919	Probable disease resistan	no	no	0.787	0.201	0.288	6e-12
Q7KRY7	1851	Protein lap4 OS=Drosophil	no	no	0.565	0.071	0.344	2e-08
Q7XA39	988	Putative disease resistan	N/A	no	0.408	0.097	0.357	1e-07
Q96RT1	1412	Protein LAP2 OS=Homo sapi	no	no	0.595	0.099	0.331	4e-07
Q80TH2	1402	Protein LAP2 OS=Mus muscu	yes	no	0.587	0.098	0.335	6e-07
Q6UWE0	723	E3 ubiquitin-protein liga	no	no	0.587	0.190	0.297	1e-06
Q6DHL5	238	Leucine-rich repeat-conta	yes	no	0.8	0.789	0.285	1e-06
Q9LRR4	1054	Putative disease resistan	no	no	0.574	0.128	0.271	6e-06

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

 Score = 79.3 bits (194), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 66/227 (29%), Positives = 123/227 (54%), Gaps = 16/227 (7%)

Query: 3   ETIRKGPIA-----ISLPQRDIQELPERLQCPNLQLFLLFREGNGPM-QISDHFFEGTEE 56
           + IR+  +A     +SL    ++ LP+ ++   ++  +L  +GN  + ++   F +    
Sbjct: 492 QDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQGNFLLKEVPIGFLQAFPT 551

Query: 57  LKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWC-QLEDVAAIGQLKKLEILSFRGSNIKQ 114
           L++L+ +G    S PS SL RL +L +L L  C +L  + ++  L KLE+L   G++I +
Sbjct: 552 LRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTHILE 611

Query: 115 LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGS---NA 171
            P  + +L R + LDLS    LE IP  V+S+LS LE L M  S  +W  V+G +    A
Sbjct: 612 FPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETLDMTSSHYRWS-VQGETQKGQA 670

Query: 172 SLAELKGLSKLTTLNIQVPDAQILPQE---WVFVELQSYRICIGNKW 215
           ++ E+  L +L  L+I++  +  L  +   W+   L+ +++ +G+++
Sbjct: 671 TVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWI-KRLKKFQLVVGSRY 716

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

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

 Score = 74.3 bits (181), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 61/205 (29%), Positives = 93/205 (45%), Gaps = 27/205 (13%)

Query: 7   KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH 66
           +  + ISL    IQ LPE+L CP L   +L ++ +   +I   FF     L+VLD +   
Sbjct: 511 RQALVISLLDNRIQTLPEKLICPKLTTLML-QQNSSLKKIPTGFFMHMPVLRVLDLSFTS 569

Query: 67  FSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQ 126
            + +P S+  L+ L  L                      S  G+ I  LP E+G L +L+
Sbjct: 570 ITEIPLSIKYLVELYHL----------------------SMSGTKISVLPQELGNLRKLK 607

Query: 127 LLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNAS----LAELKGLSKL 182
            LDL     L+ IP + I  LS+LE L +  S++ W+    G + +     A+L+ L  L
Sbjct: 608 HLDLQRTQFLQTIPRDAICWLSKLEVLNLYYSYAGWELQSFGEDEAEELGFADLEYLENL 667

Query: 183 TTLNIQVPDAQILPQEWVFVELQSY 207
           TTL I V   + L   + F  L  +
Sbjct: 668 TTLGITVLSLETLKTLFEFGALHKH 692

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 71.2 bits (173), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 56/194 (28%), Positives = 100/194 (51%), Gaps = 9/194 (4%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPM-QISDHFFEGTEELKVLDFTGIHFSSL 70
           +SL    ++ LP  +    ++  +L  +GN  + ++ + F +    L++LD +G+   +L
Sbjct: 475 VSLMANKLERLPNNV-IEGVETLVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTL 533

Query: 71  PSSLGRLINLQTLCLDWCQ-LEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
           P S   L +L++L L  C+ L ++ ++  L KL+ L    S I++LP  +  L+ L+ + 
Sbjct: 534 PDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYIC 593

Query: 130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQW----DKVEGGSNASLAELKGLSKLTTL 185
           +SN + L+ IP   I +LS LE L M  S   W    ++ EG   A+L E+  L  L  L
Sbjct: 594 VSNTYQLQSIPAGTILQLSSLEVLDMAGSAYSWGIKGEEREG--QATLDEVTCLPHLQFL 651

Query: 186 NIQVPDAQILPQEW 199
            I++ D      E+
Sbjct: 652 AIKLLDVLSFSYEF 665

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7KRY7|LAP4_DROME Protein lap4 OS=Drosophila melanogaster GN=scrib PE=1 SV=1

 Score = 59.7 bits (143), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 50/145 (34%), Positives = 74/145 (51%), Gaps = 12/145 (8%)

Query: 55  EELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIK 113
           + L+V DF+      LPS   +L NL  L L+   L  + A  G L +LE L  R + +K
Sbjct: 106 QSLQVADFSSNPIPKLPSGFSQLKNLTVLGLNDMSLTTLPADFGSLTQLESLELRENLLK 165

Query: 114 QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASL 173
            LP  I QLT+L+ LDL +   +E +PP  +  L  L EL++D   +Q  ++        
Sbjct: 166 HLPETISQLTKLKRLDLGDN-EIEDLPP-YLGYLPGLHELWLD--HNQLQRLP------- 214

Query: 174 AELKGLSKLTTLNIQVPDAQILPQE 198
            EL  L+KLT L++     + LP E
Sbjct: 215 PELGLLTKLTYLDVSENRLEELPNE 239

Required for polarization of the embryonic, imaginal disk and follicular epithelia. Specifically restricts apical membrane determinants to the apical cell surface; acts to exclude crb from the basolateral domain and define adherens junction position. Regulates cellular growth and differentiation; acts as a tumor suppressor. Essential for odor guided behavior.

Drosophila melanogaster (taxid: 7227)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score = 57.0 bits (136), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/98 (35%), Positives = 54/98 (55%), Gaps = 2/98 (2%)

Query: 60  LDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLE 118
           + F  +  S  PS L + ++L+ L L + +LE + ++IG L  L  L    +N + LP  
Sbjct: 509 IGFAAVVSSYSPSLLKKFVSLRVLNLSYSKLEQLPSSIGDLLHLRYLDLSCNNFRSLPER 568

Query: 119 IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           + +L  LQ LD+ NC+SL  +P    SKLS L  L +D
Sbjct: 569 LCKLQNLQTLDVHNCYSLNCLPKQT-SKLSSLRHLVVD 605

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 which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q96RT1|LAP2_HUMAN Protein LAP2 OS=Homo sapiens GN=ERBB2IP PE=1 SV=2

 Score = 55.1 bits (131), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 74/151 (49%), Gaps = 11/151 (7%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH---FS 68
           +SLP  D+  LP  +        +  RE +        F E  +  KVL          S
Sbjct: 74  LSLPDNDLTTLPASIAN-----LINLRELDVSKNGIQEFPENIKNCKVLTIVEASVNPIS 128

Query: 69  SLPSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQL 127
            LP    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+L+ 
Sbjct: 129 KLPDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQLER 188

Query: 128 LDLSNCWSLEVIPPNVISKLSRLEELYMDIS 158
           LDL +    EV  P V+ +LS L+E +MD +
Sbjct: 189 LDLGSNEFTEV--PEVLEQLSGLKEFWMDAN 217

Acts as an adapter for the receptor ERBB2, in epithelia. By binding the unphosphorylated 'Tyr-1248' of receptor ERBB2, it may contribute to stabilize this unphosphorylated state.

Homo sapiens (taxid: 9606)

>sp|Q80TH2|LAP2_MOUSE Protein LAP2 OS=Mus musculus GN=Erbb2ip PE=1 SV=3

 Score = 54.7 bits (130), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 50/149 (33%), Positives = 72/149 (48%), Gaps = 11/149 (7%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH---FS 68
           +SLP  D+  LP  +        +  RE +        F E  +  KVL          S
Sbjct: 74  LSLPDNDLTTLPASIAN-----LINLRELDVSKNGIQEFPENIKNCKVLTIVEASVNPIS 128

Query: 69  SLPSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQL 127
            LP    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+L+ 
Sbjct: 129 KLPDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQLER 188

Query: 128 LDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           LDL +    EV  P V+ +LS L E +MD
Sbjct: 189 LDLGSNEFTEV--PEVLEQLSGLREFWMD 215

Acts as an adapter for the receptor ERBB2, in epithelia. By binding the unphosphorylated ERBB2 'Tyr-1248' receptor, it may contribute to stabilize this unphosphorylated state.

Mus musculus (taxid: 10090)

>sp|Q6UWE0|LRSM1_HUMAN E3 ubiquitin-protein ligase LRSAM1 OS=Homo sapiens GN=LRSAM1 PE=1 SV=1

 Score = 53.9 bits (128), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 42/141 (29%), Positives = 73/141 (51%), Gaps = 3/141 (2%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQL 115
           +KVLD      ++LP  LG+L  LQ L ++  QL  +  +IG L +L+ L+ + + +K+L
Sbjct: 83  IKVLDLHDNQLTALPDDLGQLTALQVLNVERNQLMQLPRSIGNLTQLQTLNVKDNKLKEL 142

Query: 116 PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAE 175
           P  +G+L  L+ L++S      +  P +++ +  LE L +D S   +   E     + A 
Sbjct: 143 PDTVGELRSLRTLNISGNEIQRL--PQMLAHVRTLEMLSLDASAMVYPPREVCGAGTAAI 200

Query: 176 LKGLSKLTTLNIQVPDAQILP 196
           L+ L K + L    P   +LP
Sbjct: 201 LQFLCKESGLEYYPPSQYLLP 221

E3 ubiquitin-protein ligase that mediates monoubiquitination of TSG101 at multiple sites, leading to inactivate the ability of TSG101 to sort endocytic (EGF receptors) and exocytic (HIV-1 viral proteins) cargos.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6DHL5|LRC57_DANRE Leucine-rich repeat-containing protein 57 OS=Danio rerio GN=lrrc57 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 59/207 (28%), Positives = 98/207 (47%), Gaps = 19/207 (9%)

Query: 40  GNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAA-IGQ 98
           G G  +  +   + T  L+ +D +      LP+ +G   +L++  +   +L  +   IG+
Sbjct: 23  GKGLTEFPEDLQKLTANLRTVDLSNNKIEELPAFIGSFQHLKSFTISCNKLTSLPNDIGK 82

Query: 99  LKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS 158
           LKKLE L   G+ +KQLP  IGQL  L+ L LS     E   P+ +  L +L+   +D+S
Sbjct: 83  LKKLETLILNGNQLKQLPSSIGQLKSLRTLSLSGNQFKEF--PSGLGTLRQLD--VLDLS 138

Query: 159 FSQWDKVEGGSNASLAELKG---------LSKLTTLNIQVPDAQILPQEWVFVELQSYRI 209
            +Q   V     A +AEL+          +S +T    + P  ++L  E   +EL S  +
Sbjct: 139 KNQIRVVP----AEVAELQAIEINLNQNQISSVTQEVSRTPRLKVLRLEENCLELSSIPL 194

Query: 210 CI-GNKWWSSWSVKSGLSRLMKLQGLE 235
            I  +   S  SV+  L  + K++ LE
Sbjct: 195 SILTDSQVSLLSVEGNLFEVKKMRDLE 221

Danio rerio (taxid: 7955)

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score = 51.2 bits (121), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 38/140 (27%), Positives = 65/140 (46%), Gaps = 5/140 (3%)

Query: 50  FFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWC-QLEDVAA-IGQLKKLEILSF 107
           FF+     + LD +      LP SL  + NLQTL L +C  L+++   I  L  L  L  
Sbjct: 597 FFKNISHARFLDLSRTELEKLPKSLCYMYNLQTLLLSYCSSLKELPTDISNLINLRYLDL 656

Query: 108 RGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEG 167
            G+ ++Q+P   G+L  LQ L     + +     + IS+L  L +L+  +   +  +V  
Sbjct: 657 IGTKLRQMPRRFGRLKSLQTL---TTFFVSASDGSRISELGGLHDLHGKLKIVELQRVVD 713

Query: 168 GSNASLAELKGLSKLTTLNI 187
            ++A+ A L     L  ++ 
Sbjct: 714 VADAAEANLNSKKHLREIDF 733

Potential 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	235
255563252	1603	Disease resistance protein RPS5, putativ	0.948	0.139	0.543	2e-55
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.927	0.165	0.539	2e-54
359488103	1530	PREDICTED: disease resistance protein At	0.940	0.144	0.517	2e-53
296087872	1152	unnamed protein product [Vitis vinifera]	0.940	0.191	0.517	2e-53
359488027	1520	PREDICTED: disease resistance protein At	0.940	0.145	0.517	3e-53
147777048	1460	hypothetical protein VITISV_009359 [Viti	0.872	0.140	0.548	1e-52
255542484	2460	phosphoprotein phosphatase, putative [Ri	0.970	0.092	0.504	5e-52
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.914	0.126	0.532	5e-52
302143583	806	unnamed protein product [Vitis vinifera]	0.919	0.267	0.513	7e-52
147844589	1849	hypothetical protein VITISV_039838 [Viti	0.859	0.109	0.544	9e-52

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

 Score =  221 bits (563), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 124/228 (54%), Positives = 160/228 (70%), Gaps = 5/228 (2%)

Query: 7   KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH 66
           K    ISLP  DI  LPE L+CP L+LFLLF + +  +++ D  FE T+ L+VL+FTG+H
Sbjct: 503 KSCTRISLPYNDIHGLPEVLECPELELFLLFTQ-DISLKVPDLCFELTKNLRVLNFTGMH 561

Query: 67  FSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQ 126
           FSSLP SLG L NL TLCLDWC L DVA IG+L  L ILSF+ S+I +LP EI QLT+L+
Sbjct: 562 FSSLPPSLGFLKNLFTLCLDWCALRDVAIIGELTGLTILSFKHSDIVELPREIRQLTKLK 621

Query: 127 LLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD--KVEGGSNASLAELKGLSKLTT 184
            LDLS+C  L+VIP  +IS+L++LEELYM+ SF  WD   +    NASLAEL+ L  LTT
Sbjct: 622 FLDLSHCLKLKVIPAKIISELTQLEELYMNNSFDLWDVQGINNQRNASLAELECLPYLTT 681

Query: 185 LNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQ 232
           L I V DA+ILP++  F +L+ +RI IG+ W  S +   G SR +KL+
Sbjct: 682 LEICVLDAKILPKDLFFRKLERFRIFIGDVW--SGTGDYGTSRTLKLK 727

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  218 bits (555), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 123/228 (53%), Positives = 158/228 (69%), Gaps = 10/228 (4%)

Query: 11  AISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL 70
           AISLP R I +LP  L+CPNL  FLL  + +  +QI D FF   +ELK+LD T ++ S L
Sbjct: 499 AISLPFRKIPDLPAILECPNLNSFLLLNK-DPSLQIPDSFFREMKELKILDLTEVNLSPL 557

Query: 71  PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL 130
           PSSL  L NLQTLCLD C LED++ IG+L KL++LS   SNI +LP EIG++TRLQLLDL
Sbjct: 558 PSSLQFLENLQTLCLDHCVLEDISIIGELNKLKVLSLMSSNIVRLPREIGKVTRLQLLDL 617

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGS----NASLAELKGLSKLTTLN 186
           SNC  LEVI PN +S L+RLE+LYM  SF +W+  EG S    NA L+ELK LS L+TL+
Sbjct: 618 SNCERLEVISPNALSSLTRLEDLYMGNSFVKWE-TEGSSSQRNNACLSELKHLSNLSTLH 676

Query: 187 IQVPDAQILPQEWV--FVELQSYRICIGNKWWSSWSVKSGLSRLMKLQ 232
           +Q+ DA  +P++    F  L+ +RI IG+ W   WSVK   SR +KL+
Sbjct: 677 MQITDADNMPKDLFSSFQNLERFRIFIGDGW--DWSVKDATSRTLKLK 722

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  215 bits (547), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 116/224 (51%), Positives = 152/224 (67%), Gaps = 3/224 (1%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           + L   DI ELPE L CP L+ F  F + N  ++I + FFEG ++LKVLD TG+   SLP
Sbjct: 506 VKLHHCDIHELPEGLVCPKLEFFECFLKTNLAVKIPNTFFEGMKQLKVLDLTGMQLPSLP 565

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
            SL  L NL+TLCLD C+L D+  I +LKKLEILS   S+I+QLP EI QLT L+L DL 
Sbjct: 566 LSLQSLANLRTLCLDGCKLGDIVIIAELKKLEILSLMDSDIEQLPREIAQLTHLRLFDLK 625

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPD 191
           + + L+VIP +VIS L RLE+L M+ SF+QW+  EG SNA LAELK LS LT L+IQ+PD
Sbjct: 626 SSFKLKVIPSDVISSLFRLEDLCMENSFTQWEG-EGKSNACLAELKHLSHLTALDIQIPD 684

Query: 192 AQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE 235
           A++LP++ VF  L  YRI +G+ W   W      +R++KL   +
Sbjct: 685 AKLLPKDMVFDNLMRYRIFVGDIWI--WEKNYKTNRILKLNKFD 726

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  214 bits (546), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 116/224 (51%), Positives = 155/224 (69%), Gaps = 3/224 (1%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           +SL   DI ELP  L CP L+LFL +   +  ++I + FFE  ++LKVLD + +HF+SLP
Sbjct: 328 MSLAYNDICELPIELVCPELELFLFYHTIDYHLKIPETFFEEMKKLKVLDLSNMHFTSLP 387

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
           SSL  L NL+TL L+WC+L D++ I +LKKLE  SF GSNI++LP EI QLT L+L DL 
Sbjct: 388 SSLRCLTNLRTLSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLPREIAQLTHLRLFDLR 447

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPD 191
           +C  L  IPPNVIS LS+LE L M+ SF+ W+ VEG SNAS+AE K L  LTTL+IQ+PD
Sbjct: 448 DCSKLREIPPNVISSLSKLENLCMENSFTLWE-VEGKSNASIAEFKYLPYLTTLDIQIPD 506

Query: 192 AQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE 235
           A++L  + +F +L  YRI IG+ W  SW      ++ +KL  L+
Sbjct: 507 AELLLTDVLFEKLIRYRIFIGDVW--SWDKNCPTTKTLKLNKLD 548

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  214 bits (545), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 116/224 (51%), Positives = 155/224 (69%), Gaps = 3/224 (1%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           +SL   DI ELP  L CP L+LFL +   +  ++I + FFE  ++LKVLD + +HF+SLP
Sbjct: 508 MSLAYNDICELPIELVCPELELFLFYHTIDYHLKIPETFFEEMKKLKVLDLSNMHFTSLP 567

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
           SSL  L NL+TL L+WC+L D++ I +LKKLE  SF GSNI++LP EI QLT L+L DL 
Sbjct: 568 SSLRCLTNLRTLSLNWCKLGDISIIVELKKLEFFSFMGSNIEKLPREIAQLTHLRLFDLR 627

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPD 191
           +C  L  IPPNVIS LS+LE L M+ SF+ W+ VEG SNAS+AE K L  LTTL+IQ+PD
Sbjct: 628 DCSKLREIPPNVISSLSKLENLCMENSFTLWE-VEGKSNASIAEFKYLPYLTTLDIQIPD 686

Query: 192 AQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE 235
           A++L  + +F +L  YRI IG+ W  SW      ++ +KL  L+
Sbjct: 687 AELLLTDVLFEKLIRYRIFIGDVW--SWDKNCPTTKTLKLNKLD 728

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  212 bits (539), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 114/208 (54%), Positives = 149/208 (71%), Gaps = 3/208 (1%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           +SL   DI ELPE L CP L+LF  +++ +  ++I   FFEG ++L+VLDF+ +   SLP
Sbjct: 507 VSLGDCDIHELPEGLLCPELELFQCYQKTSSAVKIPHTFFEGMKQLEVLDFSNMQLPSLP 566

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
            SL  L NL+TLCLD C+L D+  I +LKKLEILS   S+I+QLP EI QLT L+L DL 
Sbjct: 567 LSLQCLANLRTLCLDGCKLGDIVIIAKLKKLEILSLIDSDIEQLPREIAQLTHLRLFDLK 626

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPD 191
           +   L+VIPP+VIS L RLE+L M+ SF+QW+  EG SNA LAELK LS LT+L+IQ+PD
Sbjct: 627 DSSKLKVIPPDVISSLFRLEDLCMENSFTQWEG-EGKSNACLAELKHLSHLTSLDIQIPD 685

Query: 192 AQILPQEWVFVELQSYRICIGNKWWSSW 219
           A++LP++ VF  L  YRI +GN W  SW
Sbjct: 686 AKLLPKDIVFENLVRYRIFVGNVW--SW 711

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  209 bits (533), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 118/234 (50%), Positives = 160/234 (68%), Gaps = 6/234 (2%)

Query: 2   EETIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLD 61
           E+ I +   AISLP   I +LPE  +CP+LQ FLL+ + +  ++I D+FF   ++LK++D
Sbjct: 447 EKDILEQFTAISLPDCKIPKLPEVFECPDLQSFLLYNK-DSSLKIPDNFFSRMKKLKLMD 505

Query: 62  FTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQ 121
            + +H S +P SL  L NLQTLCLD C LED+AAIG+LKKL++LSF GS + QLP E+G+
Sbjct: 506 LSNVHLSPMPLSLQCLENLQTLCLDRCTLEDIAAIGELKKLQVLSFIGSTMVQLPREVGK 565

Query: 122 LTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGG---SNASLAELKG 178
           LTRLQLLDLS C  LEVIP  V+S L++LEELYM  SF QW+  E     +NASL ELK 
Sbjct: 566 LTRLQLLDLSRCQKLEVIPKGVLSCLTKLEELYMGNSFVQWESEEHDGDRNNASLDELKL 625

Query: 179 LSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQ 232
           L  L TL + + +A+ILP++    +L  Y++ IG +W  SW  K   SR +KL+
Sbjct: 626 LPNLVTLELHIINAEILPRDVFSEKLDLYKVFIGEEW--SWFGKYEASRTLKLK 677

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  209 bits (533), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 116/218 (53%), Positives = 154/218 (70%), Gaps = 3/218 (1%)

Query: 18  DIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           DI ELPE L CP L+LF+   + N  ++I + FFEG ++L+VLDFT +H  SLPSSL  L
Sbjct: 513 DIHELPEGLVCPKLKLFICCLKTNSAVKIPNTFFEGMKQLQVLDFTQMHLPSLPSSLQCL 572

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLE 137
            NLQTL L  C+L D+  I +LKKLEILS   S+I+QLP EI QLT L+LLDLS+  +++
Sbjct: 573 ANLQTLLLYGCKLGDIGIITELKKLEILSLIDSDIEQLPREIAQLTHLRLLDLSDSSTIK 632

Query: 138 VIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQ 197
           VIP  VIS LS+LE+L M+ SF+QW+  EG SNA LAELK LS LT+L+IQ+PDA++LP+
Sbjct: 633 VIPSGVISSLSQLEDLCMENSFTQWEG-EGKSNACLAELKHLSHLTSLDIQIPDAKLLPK 691

Query: 198 EWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE 235
           + VF  L  YRI +G+ W   W      +R +KL+  +
Sbjct: 692 DVVFENLVRYRIFVGDVWI--WEENYKTNRTLKLKKFD 727

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143583|emb|CBI22336.3| unnamed protein product [Vitis vinifera]

 Score =  209 bits (532), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 113/220 (51%), Positives = 153/220 (69%), Gaps = 4/220 (1%)

Query: 13  SLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS 72
           SL  + + ELP+ L CP LQ FLL  + N  + I + FFEG ++LKVLD + +HF++LPS
Sbjct: 485 SLNCKAVLELPQGLVCPELQFFLLHND-NPSLNIPNTFFEGMKKLKVLDLSYMHFTTLPS 543

Query: 73  SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSN 132
           SL  L +L+TL LDWC+L D++ IG+L KLE+LS  GS I+QLP E+ QLT L+LLDL++
Sbjct: 544 SLDSLASLRTLRLDWCKLVDISLIGKLVKLEVLSLVGSTIQQLPNEMVQLTNLRLLDLND 603

Query: 133 CWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDA 192
           C  L+VIP N++S+L RLE LYM  SF+QW  VEG SNA L+EL  LS LTTLN+ +PD 
Sbjct: 604 CKELKVIPQNILSRLPRLECLYMKCSFTQW-AVEGASNACLSELNYLSHLTTLNMNIPDE 662

Query: 193 QILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQ 232
            +LP++ +F  L  Y I IGN +W     ++   R +K Q
Sbjct: 663 NLLPKDMLFQNLTRYAIFIGNFYWFQLDCRT--KRALKFQ 700

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147844589|emb|CAN80585.1| hypothetical protein VITISV_039838 [Vitis vinifera]

 Score =  209 bits (531), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 111/204 (54%), Positives = 144/204 (70%), Gaps = 2/204 (0%)

Query: 12   ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
            ISL  + + ELP+ L CP+LQ F L    N  + I + FF+G ++LKVLD    HF++LP
Sbjct: 1336 ISLHCKAVHELPQGLVCPDLQFFQL-HNNNPSLNIPNTFFKGMKKLKVLDLPKTHFTTLP 1394

Query: 72   SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
            SSL  L NLQTL LD C+LED+A IG+L KLE+LS  GS I+QLP E+ +LT L+LLDL+
Sbjct: 1395 SSLDSLTNLQTLRLDGCKLEDIALIGKLTKLEVLSLMGSTIQQLPNEMSRLTNLRLLDLN 1454

Query: 132  NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPD 191
            +C  LEVIP N++S LS+LE LYM  SF+QW   EG SNA L+EL  LS LTTL I +PD
Sbjct: 1455 DCEKLEVIPRNILSSLSQLECLYMKSSFTQW-ATEGESNACLSELNHLSHLTTLEIYIPD 1513

Query: 192  AQILPQEWVFVELQSYRICIGNKW 215
            A++LP++ +F  L  Y I IG +W
Sbjct: 1514 AKLLPKDILFENLTRYAISIGTRW 1537

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	235
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.851	0.203	0.302	1.2e-16
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.757	0.193	0.291	1.4e-13
UNIPROTKB|E1BKT3	1460	Bt.110205 "Uncharacterized pro	0.595	0.095	0.346	2e-09
UNIPROTKB|E7EQW9	1367	ERBB2IP "Protein LAP2" [Homo s	0.595	0.102	0.340	2.6e-09
UNIPROTKB|Q96RT1	1412	ERBB2IP "Protein LAP2" [Homo s	0.595	0.099	0.340	2.7e-09
TAIR|locus:2205824	1384	AT1G27170 [Arabidopsis thalian	0.612	0.104	0.344	3.6e-09
MGI|MGI:1890169	1402	Erbb2ip "Erbb2 interacting pro	0.595	0.099	0.340	3.6e-09
UNIPROTKB|E1BRU5	1403	E1BRU5 "Uncharacterized protei	0.595	0.099	0.346	5.2e-09
TAIR|locus:2205804	1556	AT1G27180 [Arabidopsis thalian	0.506	0.076	0.377	2.7e-08
ZFIN|ZDB-GENE-040718-372	238	lrrc57 "leucine rich repeat co	0.8	0.789	0.285	2.8e-08

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

 Score = 218 (81.8 bits), Expect = 1.2e-16, P = 1.2e-16
 Identities = 65/215 (30%), Positives = 117/215 (54%)

Query:    12 ISLPQRDIQELPERLQ--CPNLQLFLLFREGNGPM-QISDHFFEGTEELKVLDFTGIHFS 68
             +SL    ++ LP+ ++  C    + LL  +GN  + ++   F +    L++L+ +G    
Sbjct:   506 VSLMNNKLESLPDLVEEFCVKTSVLLL--QGNFLLKEVPIGFLQAFPTLRILNLSGTRIK 563

Query:    69 SLPS-SLGRLINLQTLCLDWC-QLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQ 126
             S PS SL RL +L +L L  C +L  + ++  L KLE+L   G++I + P  + +L R +
Sbjct:   564 SFPSCSLLRLFSLHSLFLRDCFKLVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFR 623

Query:   127 LLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN---ASLAELKGLSKLT 183
              LDLS    LE IP  V+S+LS LE L M  S  +W  V+G +    A++ E+  L +L 
Sbjct:   624 HLDLSRTLHLESIPARVVSRLSSLETLDMTSSHYRWS-VQGETQKGQATVEEIGCLQRLQ 682

Query:   184 TLNIQVPDAQILPQE---WVFVELQSYRICIGNKW 215
              L+I++  +  L  +   W+   L+ +++ +G+++
Sbjct:   683 VLSIRLHSSPFLLNKRNTWI-KRLKKFQLVVGSRY 716

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 189 (71.6 bits), Expect = 1.4e-13, P = 1.4e-13
 Identities = 54/185 (29%), Positives = 97/185 (52%)

Query:    12 ISLPQRDIQELPERLQCPNLQLFLLFREGNGPM-QISDHFFEGTEELKVLDFTGIHFSSL 70
             +SL    ++ LP  +    ++  +L  +GN  + ++ + F +    L++LD +G+   +L
Sbjct:   475 VSLMANKLERLPNNV-IEGVETLVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTL 533

Query:    71 PSSLGRLINLQTLCLDWCQ-LEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
             P S   L +L++L L  C+ L ++ ++  L KL+ L    S I++LP  +  L+ L+ + 
Sbjct:   534 PDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYIC 593

Query:   130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN---ASLAELKGLSKLTTLN 186
             +SN + L+ IP   I +LS LE L M  S   W  ++G      A+L E+  L  L  L 
Sbjct:   594 VSNTYQLQSIPAGTILQLSSLEVLDMAGSAYSWG-IKGEEREGQATLDEVTCLPHLQFLA 652

Query:   187 IQVPD 191
             I++ D
Sbjct:   653 IKLLD 657

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|E1BKT3 Bt.110205 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 163 (62.4 bits), Expect = 2.0e-09, P = 2.0e-09
 Identities = 51/147 (34%), Positives = 79/147 (53%)

Query:    12 ISLPQRDIQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL 70
             +SLP  D+  LP  +   NL  L  L    NG  +  ++  +  + L V++ +    S L
Sbjct:    74 LSLPDNDLTALPASIA--NLINLRELDVSKNGIQEFPENI-KNCKVLTVVEASVNPISKL 130

Query:    71 PSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
             P    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+L+ LD
Sbjct:   131 PDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQLERLD 190

Query:   130 LSNCWSLEVIPPNVISKLSRLEELYMD 156
             L +    EV  P V+ +LS L+E +MD
Sbjct:   191 LGSNEFTEV--PEVLEQLSGLKEFWMD 215

GO:0030056 "hemidesmosome" evidence=IEA

GO:0016323 "basolateral plasma membrane" evidence=IEA

GO:0006605 "protein targeting" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005178 "integrin binding" evidence=IEA

UNIPROTKB|E7EQW9 ERBB2IP "Protein LAP2" [Homo sapiens (taxid:9606)]

 Score = 162 (62.1 bits), Expect = 2.6e-09, P = 2.6e-09
 Identities = 50/147 (34%), Positives = 79/147 (53%)

Query:    12 ISLPQRDIQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL 70
             +SLP  D+  LP  +   NL  L  L    NG  +  ++  +  + L +++ +    S L
Sbjct:    74 LSLPDNDLTTLPASIA--NLINLRELDVSKNGIQEFPENI-KNCKVLTIVEASVNPISKL 130

Query:    71 PSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
             P    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+L+ LD
Sbjct:   131 PDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQLERLD 190

Query:   130 LSNCWSLEVIPPNVISKLSRLEELYMD 156
             L +    EV  P V+ +LS L+E +MD
Sbjct:   191 LGSNEFTEV--PEVLEQLSGLKEFWMD 215

GO:0005886 "plasma membrane" evidence=IDA

UNIPROTKB|Q96RT1 ERBB2IP "Protein LAP2" [Homo sapiens (taxid:9606)]

 Score = 162 (62.1 bits), Expect = 2.7e-09, P = 2.7e-09
 Identities = 50/147 (34%), Positives = 79/147 (53%)

Query:    12 ISLPQRDIQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL 70
             +SLP  D+  LP  +   NL  L  L    NG  +  ++  +  + L +++ +    S L
Sbjct:    74 LSLPDNDLTTLPASIA--NLINLRELDVSKNGIQEFPENI-KNCKVLTIVEASVNPISKL 130

Query:    71 PSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
             P    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+L+ LD
Sbjct:   131 PDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQLERLD 190

Query:   130 LSNCWSLEVIPPNVISKLSRLEELYMD 156
             L +    EV  P V+ +LS L+E +MD
Sbjct:   191 LGSNEFTEV--PEVLEQLSGLKEFWMD 215

GO:0006605 "protein targeting" evidence=IEA

GO:0031965 "nuclear membrane" evidence=IEA

GO:0005200 "structural constituent of cytoskeleton" evidence=NAS

GO:0007155 "cell adhesion" evidence=NAS

GO:0030056 "hemidesmosome" evidence=IDA

GO:0005178 "integrin binding" evidence=IPI

GO:0016049 "cell growth" evidence=NAS

GO:0007049 "cell cycle" evidence=NAS

GO:0007173 "epidermal growth factor receptor signaling pathway" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0045175 "basal protein localization" evidence=NAS

GO:0045197 "establishment or maintenance of epithelial cell apical/basal polarity" evidence=NAS

GO:0009925 "basal plasma membrane" evidence=NAS

GO:0005634 "nucleus" evidence=IDA

GO:0045104 "intermediate filament cytoskeleton organization" evidence=NAS

GO:0007229 "integrin-mediated signaling pathway" evidence=NAS

GO:0005176 "ErbB-2 class receptor binding" evidence=TAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0005604 "basement membrane" evidence=TAS

GO:0007165 "signal transduction" evidence=TAS

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

TAIR|locus:2205824 AT1G27170 [Arabidopsis thaliana (taxid:3702)]

 Score = 161 (61.7 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 51/148 (34%), Positives = 73/148 (49%)

Query:    12 ISLPQRDIQELPERL-QCPNLQLF-LLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS 69
             I L  R   +L E L     L+L   LF  G   + +          LK L   G    +
Sbjct:   720 IHLDFRRCSKLSEFLVDVSGLKLLEKLFLSGCSDLSVLPENIGAMTSLKELLLDGTAIKN 779

Query:    70 LPSSLGRLINLQTLCLDWCQLEDVA-AIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLL 128
             LP S+ RL NL+ L L  C+++++   IG LK LE L    + +K LP  IG L  LQ L
Sbjct:   780 LPESINRLQNLEILSLRGCKIQELPLCIGTLKSLEKLYLDDTALKNLPSSIGDLKNLQDL 839

Query:   129 DLSNCWSLEVIPPNVISKLSRLEELYMD 156
              L  C SL  IP + I++L  L++L+++
Sbjct:   840 HLVRCTSLSKIPDS-INELKSLKKLFIN 866

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

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

MGI|MGI:1890169 Erbb2ip "Erbb2 interacting protein" [Mus musculus (taxid:10090)]

 Score = 161 (61.7 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 50/147 (34%), Positives = 78/147 (53%)

Query:    12 ISLPQRDIQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL 70
             +SLP  D+  LP  +   NL  L  L    NG  +  ++  +  + L +++ +    S L
Sbjct:    74 LSLPDNDLTTLPASIA--NLINLRELDVSKNGIQEFPENI-KNCKVLTIVEASVNPISKL 130

Query:    71 PSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
             P    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+L+ LD
Sbjct:   131 PDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKMLPKTMNRLTQLERLD 190

Query:   130 LSNCWSLEVIPPNVISKLSRLEELYMD 156
             L +    EV  P V+ +LS L E +MD
Sbjct:   191 LGSNEFTEV--PEVLEQLSGLREFWMD 215

GO:0005178 "integrin binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0006605 "protein targeting" evidence=IDA

GO:0016020 "membrane" evidence=IEA

GO:0016323 "basolateral plasma membrane" evidence=IDA

GO:0030054 "cell junction" evidence=IEA

GO:0030056 "hemidesmosome" evidence=ISO

UNIPROTKB|E1BRU5 E1BRU5 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 160 (61.4 bits), Expect = 5.2e-09, P = 5.2e-09
 Identities = 51/147 (34%), Positives = 79/147 (53%)

Query:    12 ISLPQRDIQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL 70
             +SLP  D+  LP  +   NL  L  L    NG  +  ++  +  + L V++ +    S L
Sbjct:    74 LSLPDNDLTTLPASIA--NLINLRELDVSKNGIQEFPENI-KNCKVLTVVEASVNPISKL 130

Query:    71 PSSLGRLINLQTLCLDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
             P    +L+NL  L L+   LE + A  G+L KL+IL  R + +K LP  + +LT+L+ LD
Sbjct:   131 PDGFSQLLNLTQLYLNDAFLEFLPANFGRLTKLQILELRENQLKILPKTMSRLTQLERLD 190

Query:   130 LSNCWSLEVIPPNVISKLSRLEELYMD 156
             L +    EV  P V+ +LS L+E +MD
Sbjct:   191 LGSNEFTEV--PEVLEQLSGLKEFWMD 215

GO:0005178 "integrin binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006605 "protein targeting" evidence=IEA

GO:0016323 "basolateral plasma membrane" evidence=IEA

GO:0030056 "hemidesmosome" evidence=IEA

TAIR|locus:2205804 AT1G27180 [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 2.7e-08, P = 2.7e-08
 Identities = 46/122 (37%), Positives = 66/122 (54%)

Query:    57 LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQ-LEDV-AAIGQLKKLEILSFRGSNIKQ 114
             LK L   G   S+LP S+ RL  L+ L L  C+ +E++ + +G L  LE L    + ++ 
Sbjct:   940 LKELLLDGTAISNLPYSIFRLQKLEKLSLMGCRSIEELPSCVGYLTSLEDLYLDDTALRN 999

Query:   115 LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLA 174
             LP  IG L  LQ L L  C SL  IP   I+KL  L+EL+++ S  +   +E GS   L 
Sbjct:  1000 LPSSIGDLKNLQKLHLMRCTSLSTIP-ETINKLMSLKELFINGSAVEELPIETGSLLCLT 1058

Query:   175 EL 176
             +L
Sbjct:  1059 DL 1060

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

ZFIN|ZDB-GENE-040718-372 lrrc57 "leucine rich repeat containing 57" [Danio rerio (taxid:7955)]

 Score = 143 (55.4 bits), Expect = 2.8e-08, P = 2.8e-08
 Identities = 59/207 (28%), Positives = 102/207 (49%)

Query:    40 GNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAA-IGQ 98
             G G  +  +   + T  L+ +D +      LP+ +G   +L++  +   +L  +   IG+
Sbjct:    23 GKGLTEFPEDLQKLTANLRTVDLSNNKIEELPAFIGSFQHLKSFTISCNKLTSLPNDIGK 82

Query:    99 LKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS 158
             LKKLE L   G+ +KQLP  IGQL  L+ L LS     E   P+ +  L +L+ L  D+S
Sbjct:    83 LKKLETLILNGNQLKQLPSSIGQLKSLRTLSLSGNQFKEF--PSGLGTLRQLDVL--DLS 138

Query:   159 FSQWDKVEGGSNASLAELKGL------SKLTTLNIQV---PDAQILPQEWVFVELQSYRI 209
              +Q   V     A +AEL+ +      ++++++  +V   P  ++L  E   +EL S  +
Sbjct:   139 KNQIRVVP----AEVAELQAIEINLNQNQISSVTQEVSRTPRLKVLRLEENCLELSSIPL 194

Query:   210 CI-GNKWWSSWSVKSGLSRLMKLQGLE 235
              I  +   S  SV+  L  + K++ LE
Sbjct:   195 SILTDSQVSLLSVEGNLFEVKKMRDLE 221

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.03110007 cc-nbs-lrr resistance protein (1315 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	235
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	6e-05
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	5e-04
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	9e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.001

>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat

 Score = 39.4 bits (93), Expect = 6e-05
 Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 2/57 (3%)

Query: 101 KLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
            L+ L    + +  +P      L  L++LDLS   +L  I P   S L  L  L + 
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGN-NLTSISPEAFSGLPSLRSLDLS 56

Length = 60

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

 Score = 36.3 bits (85), Expect = 5e-04
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 79  NLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           NL+TL L   Q+ D+  +  L  LE L   G+ I  L 
Sbjct: 2   NLETLDLSNNQITDLPPLSNLPNLETLDLSGNKITDLS 39

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

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

 Score = 39.6 bits (92), Expect = 9e-04
 Identities = 31/101 (30%), Positives = 45/101 (44%), Gaps = 4/101 (3%)

Query: 60  LDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQL--KKLEILSFRGSNIKQLPL 117
           LD       S  S L  L NL +L LD   + D+  +  L    L+ L    + I+ LP 
Sbjct: 98  LDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPS 157

Query: 118 EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS 158
            +  L  L+ LDLS    L  +P  ++S LS L  L +  +
Sbjct: 158 PLRNLPNLKNLDLSFN-DLSDLPK-LLSNLSNLNNLDLSGN 196

Length = 394

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

 Score = 39.1 bits (91), Expect = 0.001
 Identities = 35/103 (33%), Positives = 54/103 (52%), Gaps = 5/103 (4%)

Query: 57  LKVLDFTG-IHFSSLPSSLGRLINLQTLCLDWCQL--EDVAAIGQLKKLEILSFRGSNIK 113
           LKVLD  G +    +P+SL  L +L+ L L   QL  +    +GQ+K L+ +    +N+ 
Sbjct: 166 LKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLS 225

Query: 114 -QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYM 155
            ++P EIG LT L  LDL        IP + +  L  L+ L++
Sbjct: 226 GEIPYEIGGLTSLNHLDLVYNNLTGPIPSS-LGNLKNLQYLFL 267

Length = 968

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.88
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.87
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.87
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.84
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.82
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.78
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.76
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.76
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.75
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.72
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.68
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.64
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.64
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.62
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.61
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.61
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.61
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.58
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.56
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.56
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.55
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.53
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.51
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.5
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.47
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.46
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.45
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.39
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.32
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.29
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	99.27
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.15
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.13
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	99.13
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.03
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.96
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.94
PLN03150	623	hypothetical protein; Provisional	98.9
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.87
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.85
PLN03150	623	hypothetical protein; Provisional	98.85
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.83
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.77
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.75
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.74
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.71
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.66
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.55
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.53
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.48
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.48
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.48
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.41
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.39
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.34
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	98.26
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.17
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	98.14
KOG2123	388	consensus Uncharacterized conserved protein [Funct	98.07
PRK15386	426	type III secretion protein GogB; Provisional	97.98
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	97.85
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.75
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	97.71
PRK15386	426	type III secretion protein GogB; Provisional	97.65
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.55
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.53
KOG4341	483	consensus F-box protein containing LRR [General fu	96.97
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.52
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	96.39
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.7
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.95
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.91
KOG4341	483	consensus F-box protein containing LRR [General fu	94.5
KOG1947	482	consensus Leucine rich repeat proteins, some prote	94.42
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	94.2
smart00370	26	LRR Leucine-rich repeats, outliers.	94.2
KOG4308	478	consensus LRR-containing protein [Function unknown	94.09
KOG0473	326	consensus Leucine-rich repeat protein [Function un	92.99
KOG3864	221	consensus Uncharacterized conserved protein [Funct	91.61
KOG4308	478	consensus LRR-containing protein [Function unknown	90.52
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	88.51
KOG0473	326	consensus Leucine-rich repeat protein [Function un	86.99
smart00365	26	LRR_SD22 Leucine-rich repeat, SDS22-like subfamily	82.98

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

Probab=99.88  E-value=3.6e-22  Score=182.36  Aligned_cols=193  Identities=25%  Similarity=0.331  Sum_probs=89.1

Q ss_pred             cCCCcEEecCCCCCC-CCCCcC--CCCCccEEEeccCCCCCccc----------------------chhhhhCCCCCcEE
Q 042164            6 RKGPIAISLPQRDIQ-ELPERL--QCPNLQLFLLFREGNGPMQI----------------------SDHFFEGTEELKVL   60 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-~i~~~~--~l~~L~~L~l~~~~~~~~~~----------------------~~~~~~~~~~L~~L   60 (235)
                      +++|+.|++++|.+. .+|...  .+++|+.|++ +.+...+.+                      |.. ++.+++|++|
T Consensus        92 l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~L-s~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~-~~~l~~L~~L  169 (968)
T PLN00113         92 LPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNL-SNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPND-IGSFSSLKVL  169 (968)
T ss_pred             CCCCCEEECCCCccCCcCChHHhccCCCCCEEEC-cCCccccccCccccCCCCEEECcCCcccccCChH-HhcCCCCCEE
Confidence            456666666666654 455443  4555555555 333333323                      322 2444444555


Q ss_pred             eecCccCC-CCChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCC
Q 042164           61 DFTGIHFS-SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSL  136 (235)
Q Consensus        61 ~l~~~~~~-~~~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~  136 (235)
                      ++++|.+. .+|..+..+++|++|++++|.+.+.  ..++.+++|++|++++|.+. .+|..++.+++|++|++++|.+.
T Consensus       170 ~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~l~  249 (968)
T PLN00113        170 DLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLT  249 (968)
T ss_pred             ECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceec
Confidence            55444443 2444444444555555544444322  34444445555555555444 34444445555555555555433


Q ss_pred             CCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccc-cccccceeEE
Q 042164          137 EVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW-VFVELQSYRI  209 (235)
Q Consensus       137 ~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~-~~~~L~~l~l  209 (235)
                      +.+|.. ++.+++|++|++++|.+.+.        .+..+..+++|+.|++++|.+. .+|..+ .+++|+.|++
T Consensus       250 ~~~p~~-l~~l~~L~~L~L~~n~l~~~--------~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l  315 (968)
T PLN00113        250 GPIPSS-LGNLKNLQYLFLYQNKLSGP--------IPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHL  315 (968)
T ss_pred             cccChh-HhCCCCCCEEECcCCeeecc--------CchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEEC
Confidence            344433 44455555555555544322        2333344444444444444443 333333 3444444444

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

Probab=99.87  E-value=8.3e-22  Score=180.00  Aligned_cols=193  Identities=21%  Similarity=0.289  Sum_probs=133.1

Q ss_pred             cCCCcEEecCCCCCC-CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccCcE
Q 042164            6 RKGPIAISLPQRDIQ-ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINLQT   82 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L~~   82 (235)
                      +++|++|++++|.+. .+|..+ .+++|+.|++ +.+.....+|.. +..+++|++|++++|.+.. +|..+..+++|++
T Consensus       139 l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L-~~n~l~~~~p~~-~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~  216 (968)
T PLN00113        139 IPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDL-GGNVLVGKIPNS-LTNLTSLEFLTLASNQLVGQIPRELGQMKSLKW  216 (968)
T ss_pred             cCCCCEEECcCCcccccCChHHhcCCCCCEEEC-ccCcccccCChh-hhhCcCCCeeeccCCCCcCcCChHHcCcCCccE
Confidence            456777777777765 456555 7888888888 555555566665 4788888888888888774 6777888888888


Q ss_pred             EeccCcCCCC-c-cccCCCCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccc
Q 042164           83 LCLDWCQLED-V-AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF  159 (235)
Q Consensus        83 L~l~~~~l~~-~-~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~  159 (235)
                      |++++|.+.+ + ..++.+++|++|++++|.++ .+|..++++++|++|++++|.+.+.+|.. +..+++|++|++++|.
T Consensus       217 L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~  295 (968)
T PLN00113        217 IYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPS-IFSLQKLISLDLSDNS  295 (968)
T ss_pred             EECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchh-HhhccCcCEEECcCCe
Confidence            8888888764 3 66778888888888888776 56777788888888888888755666665 6777778888887777


Q ss_pred             ccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccc-cccccceeEE
Q 042164          160 SQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW-VFVELQSYRI  209 (235)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~-~~~~L~~l~l  209 (235)
                      +.+.        .+..+..+++|+.|++++|.+. .+|..+ .+++|+.|++
T Consensus       296 l~~~--------~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L  339 (968)
T PLN00113        296 LSGE--------IPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQL  339 (968)
T ss_pred             eccC--------CChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEEC
Confidence            6633        2333444455555555555543 333333 4444555544

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

Probab=99.87  E-value=8.8e-24  Score=173.35  Aligned_cols=201  Identities=20%  Similarity=0.300  Sum_probs=153.3

Q ss_pred             cCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCC------------------------CcccchhhhhCCCCCcE
Q 042164            6 RKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNG------------------------PMQISDHFFEGTEELKV   59 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~------------------------~~~~~~~~~~~~~~L~~   59 (235)
                      +.+|..|.|+.|+++.+|...  .+++|+.|++  ..+.                        +.++-++.|-.+.++++
T Consensus       196 lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdL--nrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~  273 (873)
T KOG4194|consen  196 LNSLLTLKLSRNRITTLPQRSFKRLPKLESLDL--NRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEH  273 (873)
T ss_pred             cchheeeecccCcccccCHHHhhhcchhhhhhc--cccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccce
Confidence            446667777777777776654  4677777666  3332                        23334445556677777


Q ss_pred             EeecCccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcC
Q 042164           60 LDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWS  135 (235)
Q Consensus        60 L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~  135 (235)
                      |+|..|+++.+. ..+..+++|++|++++|.++.+  ..|...++|++|+++.|+++.+++. +..+..|+.|++++|. 
T Consensus       274 l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Ns-  352 (873)
T KOG4194|consen  274 LNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNS-  352 (873)
T ss_pred             eecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccc-
Confidence            777777777654 3456788888888888888866  8888889999999999999988654 7888889999999998 


Q ss_pred             CCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEecc
Q 042164          136 LEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGN  213 (235)
Q Consensus       136 ~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~  213 (235)
                      +..+.+.++..+.+|++|+++.|.+.+.     .++....+.++++|++|++.||+++.+|..-  .+++|++|++ .+|
T Consensus       353 i~~l~e~af~~lssL~~LdLr~N~ls~~-----IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~LE~LdL-~~N  426 (873)
T KOG4194|consen  353 IDHLAEGAFVGLSSLHKLDLRSNELSWC-----IEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEALEHLDL-GDN  426 (873)
T ss_pred             hHHHHhhHHHHhhhhhhhcCcCCeEEEE-----EecchhhhccchhhhheeecCceeeecchhhhccCcccceecC-CCC
Confidence            7777777788999999999999988744     3345667888999999999999999999876  8888999998 455


Q ss_pred             cc
Q 042164          214 KW  215 (235)
Q Consensus       214 ~~  215 (235)
                      ..
T Consensus       427 ai  428 (873)
T KOG4194|consen  427 AI  428 (873)
T ss_pred             cc
Confidence            44

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

Probab=99.84  E-value=1.9e-22  Score=167.16  Aligned_cols=192  Identities=23%  Similarity=0.295  Sum_probs=155.4

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            5 IRKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      .+..|+.|+|++|.+.++|... ..+++-.|++  +++.+.++|..+|..+.-|-.||+++|.+..+|+.+..+.+|+.|
T Consensus       101 ~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNL--S~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL  178 (1255)
T KOG0444|consen  101 RLKDLTILDLSHNQLREVPTNLEYAKNSIVLNL--SYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTL  178 (1255)
T ss_pred             ccccceeeecchhhhhhcchhhhhhcCcEEEEc--ccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhh
Confidence            3568999999999999999998 8999999999  888889999999999999999999999999999999999999999


Q ss_pred             eccCcCCCCc--cccCCCCCCcEEEecCCCCC--CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccc
Q 042164           84 CLDWCQLEDV--AAIGQLKKLEILSFRGSNIK--QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF  159 (235)
Q Consensus        84 ~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~  159 (235)
                      .+++|.+..+  ..+..+.+|.+|.+++++-+  .+|..+..+.+|+.+|++.|. ...+|.- +..+++|+.|++++|.
T Consensus       179 ~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~-Lp~vPec-ly~l~~LrrLNLS~N~  256 (1255)
T KOG0444|consen  179 KLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENN-LPIVPEC-LYKLRNLRRLNLSGNK  256 (1255)
T ss_pred             hcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccC-CCcchHH-HhhhhhhheeccCcCc
Confidence            9999998755  67777888888888888665  778888888888888888886 6666665 7788888888888888


Q ss_pred             ccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEE
Q 042164          160 SQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRI  209 (235)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l  209 (235)
                      ++..         -...+...+|+.|++|.|++..+|..+ .+++|+.|.+
T Consensus       257 iteL---------~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~  298 (1255)
T KOG0444|consen  257 ITEL---------NMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYA  298 (1255)
T ss_pred             eeee---------eccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHh
Confidence            8743         333344555666666666666666655 5555555554

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

Probab=99.82  E-value=6.3e-21  Score=156.77  Aligned_cols=217  Identities=18%  Similarity=0.236  Sum_probs=148.0

Q ss_pred             cccCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCc
Q 042164            4 TIRKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQ   81 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~   81 (235)
                      ..+++|+++++.+|.++.||... ...+++.|.+  .++.+..+..+.++.++.|+.|||+.|.++.++ +.|..-.+++
T Consensus        99 ~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L--~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~  176 (873)
T KOG4194|consen   99 YNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDL--RHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIK  176 (873)
T ss_pred             hcCCcceeeeeccchhhhcccccccccceeEEee--eccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCce
Confidence            34677778888888887787777 5667888888  666666666665677888888888888888776 3455556788


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCc------------------
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIP------------------  140 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~------------------  140 (235)
                      +|+++.|.++.+  ..|..+.+|.+|.++.|+++.+|.. |.++++|+.|++..|. +..+.                  
T Consensus       177 ~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~-irive~ltFqgL~Sl~nlklqrN  255 (873)
T KOG4194|consen  177 KLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNR-IRIVEGLTFQGLPSLQNLKLQRN  255 (873)
T ss_pred             EEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccc-eeeehhhhhcCchhhhhhhhhhc
Confidence            888888888866  7788888888888999888888765 7778888888888886 33221                  


Q ss_pred             ------hhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCc--cccccccceeEEEec
Q 042164          141 ------PNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQ--EWVFVELQSYRICIG  212 (235)
Q Consensus       141 ------~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~--~~~~~~L~~l~l~~~  212 (235)
                            ..+|..|.++++|++..|++...        .-..+-+++.|+.|++|.|.+..+..  |.++++|+.|+++. 
T Consensus       256 ~I~kL~DG~Fy~l~kme~l~L~~N~l~~v--------n~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~-  326 (873)
T KOG4194|consen  256 DISKLDDGAFYGLEKMEHLNLETNRLQAV--------NEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSS-  326 (873)
T ss_pred             CcccccCcceeeecccceeecccchhhhh--------hcccccccchhhhhccchhhhheeecchhhhcccceeEeccc-
Confidence                  12233444444444444444422        22344457788888888888874433  33888888888864 


Q ss_pred             ccccccchhhhhhhhhccccCC
Q 042164          213 NKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       213 ~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      |..  ...++..+.-+..|+.|
T Consensus       327 N~i--~~l~~~sf~~L~~Le~L  346 (873)
T KOG4194|consen  327 NRI--TRLDEGSFRVLSQLEEL  346 (873)
T ss_pred             ccc--ccCChhHHHHHHHhhhh
Confidence            443  22344555555555544

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

Probab=99.78  E-value=4.7e-21  Score=135.28  Aligned_cols=165  Identities=26%  Similarity=0.391  Sum_probs=116.5

Q ss_pred             CCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cccCCC
Q 042164           21 ELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQL   99 (235)
Q Consensus        21 ~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l   99 (235)
                      ++|..+.+.+++.|.+  +.+.+..+|+.+ +.+.+|++|++.+|+++.+|.+++.+++|+.|+++.|++.-+ ..||.+
T Consensus        25 ~~~gLf~~s~ITrLtL--SHNKl~~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~  101 (264)
T KOG0617|consen   25 ELPGLFNMSNITRLTL--SHNKLTVVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSF  101 (264)
T ss_pred             hcccccchhhhhhhhc--ccCceeecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCC
Confidence            4555556677777777  555555566653 677777777777777777777777777777777777776655 667777


Q ss_pred             CCCcEEEecCCCCC--CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcc
Q 042164          100 KKLEILSFRGSNIK--QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELK  177 (235)
Q Consensus       100 ~~L~~L~l~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~  177 (235)
                      +.|+.||+++|++.  .+|..|..+..|+.|.+++|. ...+|++ ++++++|+.|.+..|.+-         ..+..++
T Consensus       102 p~levldltynnl~e~~lpgnff~m~tlralyl~dnd-fe~lp~d-vg~lt~lqil~lrdndll---------~lpkeig  170 (264)
T KOG0617|consen  102 PALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDND-FEILPPD-VGKLTNLQILSLRDNDLL---------SLPKEIG  170 (264)
T ss_pred             chhhhhhccccccccccCCcchhHHHHHHHHHhcCCC-cccCChh-hhhhcceeEEeeccCchh---------hCcHHHH
Confidence            77777777777766  567766667777777777776 6667776 677777777777776654         3466777


Q ss_pred             cCCCccceeeecCCCCCCCccc
Q 042164          178 GLSKLTTLNIQVPDAQILPQEW  199 (235)
Q Consensus       178 ~~~~L~~L~l~~n~~~~~p~~~  199 (235)
                      .+..|++|++.+|.+..+|+.+
T Consensus       171 ~lt~lrelhiqgnrl~vlppel  192 (264)
T KOG0617|consen  171 DLTRLRELHIQGNRLTVLPPEL  192 (264)
T ss_pred             HHHHHHHHhcccceeeecChhh
Confidence            7777777777777777777655

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

Probab=99.76  E-value=6.3e-21  Score=134.64  Aligned_cols=153  Identities=22%  Similarity=0.349  Sum_probs=141.5

Q ss_pred             cCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            6 RKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      +.++++|.+++|.++.+|+.+ .+.+|+.|++  +++.+.++|..+ +.++.|+.|+++.|.+..+|..|+.+|-|+.|+
T Consensus        32 ~s~ITrLtLSHNKl~~vppnia~l~nlevln~--~nnqie~lp~~i-ssl~klr~lnvgmnrl~~lprgfgs~p~levld  108 (264)
T KOG0617|consen   32 MSNITRLTLSHNKLTVVPPNIAELKNLEVLNL--SNNQIEELPTSI-SSLPKLRILNVGMNRLNILPRGFGSFPALEVLD  108 (264)
T ss_pred             hhhhhhhhcccCceeecCCcHHHhhhhhhhhc--ccchhhhcChhh-hhchhhhheecchhhhhcCccccCCCchhhhhh
Confidence            567889999999999998887 9999999999  999999999885 899999999999999999999999999999999


Q ss_pred             ccCcCCCCc---cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           85 LDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        85 l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      +.+|.+.+-   ..|..+..|+.|.++.|.+..+|+.++++++|+.|.+++|. .-.+|.+ ++.++.|++|++++|+++
T Consensus       109 ltynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdnd-ll~lpke-ig~lt~lrelhiqgnrl~  186 (264)
T KOG0617|consen  109 LTYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDND-LLSLPKE-IGDLTRLRELHIQGNRLT  186 (264)
T ss_pred             ccccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCc-hhhCcHH-HHHHHHHHHHhcccceee
Confidence            999998843   77888899999999999999999999999999999999998 6778988 899999999999999998


Q ss_pred             cc
Q 042164          162 WD  163 (235)
Q Consensus       162 ~~  163 (235)
                      ..
T Consensus       187 vl  188 (264)
T KOG0617|consen  187 VL  188 (264)
T ss_pred             ec
Confidence            33

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

Probab=99.76  E-value=5e-20  Score=145.46  Aligned_cols=205  Identities=26%  Similarity=0.357  Sum_probs=156.5

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .+..+..|++..|++..+|+.-+|..|.++++  ..+++..+|++....+.++.+||+++|++..+|+++..+.+|++|+
T Consensus       204 ~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~--g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLD  281 (565)
T KOG0472|consen  204 GLESLELLYLRRNKIRFLPEFPGCSLLKELHV--GENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLD  281 (565)
T ss_pred             chhhhHHHHhhhcccccCCCCCccHHHHHHHh--cccHHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhc
Confidence            34566677888888888886668888888888  7788888888877788888999999999988998888888899999


Q ss_pred             ccCcCCCCc-cccCCCCCCcEEEecCCC----------------------------------------------------
Q 042164           85 LDWCQLEDV-AAIGQLKKLEILSFRGSN----------------------------------------------------  111 (235)
Q Consensus        85 l~~~~l~~~-~~~~~l~~L~~L~l~~~~----------------------------------------------------  111 (235)
                      +++|.++++ ..++++ +|+.|.+.+|.                                                    
T Consensus       282 lSNN~is~Lp~sLgnl-hL~~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~  360 (565)
T KOG0472|consen  282 LSNNDISSLPYSLGNL-HLKFLALEGNPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYA  360 (565)
T ss_pred             ccCCccccCCcccccc-eeeehhhcCCchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhh
Confidence            999988877 777777 66666666554                                                    


Q ss_pred             ---------------------------------------------------------------CCCcchhhccCCCCcEE
Q 042164          112 ---------------------------------------------------------------IKQLPLEIGQLTRLQLL  128 (235)
Q Consensus       112 ---------------------------------------------------------------~~~~~~~~~~l~~L~~L  128 (235)
                                                                                     +.-.|..+..+++|..|
T Consensus       361 ~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L  440 (565)
T KOG0472|consen  361 IITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFL  440 (565)
T ss_pred             hhhhhhhcccccccccCCHHHHHHhhhcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceee
Confidence                                                                           11233456777888888


Q ss_pred             cccCCcCCCCCchhhhcCCCCCcEEEeccccccccccC--------------CCCCccch-hcccCCCccceeeecCCCC
Q 042164          129 DLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVE--------------GGSNASLA-ELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       129 ~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~--------------~~~~~~~~-~~~~~~~L~~L~l~~n~~~  193 (235)
                      ++++|. ...+|.+ ++.+..|++++++.|+|...+.-              .....+.+ .+.++.+|..||+.+|.+.
T Consensus       441 ~L~NN~-Ln~LP~e-~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~nNdlq  518 (565)
T KOG0472|consen  441 DLSNNL-LNDLPEE-MGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQNNDLQ  518 (565)
T ss_pred             ecccch-hhhcchh-hhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCCCchh
Confidence            888886 7778888 67788899999999988755211              01222233 3777888999999999999


Q ss_pred             CCCccc-cccccceeEEEecccc
Q 042164          194 ILPQEW-VFVELQSYRICIGNKW  215 (235)
Q Consensus       194 ~~p~~~-~~~~L~~l~l~~~~~~  215 (235)
                      .+|+.+ .|.+|++|++ .+|++
T Consensus       519 ~IPp~LgnmtnL~hLeL-~gNpf  540 (565)
T KOG0472|consen  519 QIPPILGNMTNLRHLEL-DGNPF  540 (565)
T ss_pred             hCChhhccccceeEEEe-cCCcc
Confidence            999888 8999999998 56665

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

Probab=99.75  E-value=4.8e-20  Score=153.15  Aligned_cols=195  Identities=21%  Similarity=0.313  Sum_probs=136.6

Q ss_pred             cCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCC-CcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            6 RKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNG-PMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~-~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      +.+|.+|++.+|++..+-... .++.|+.+.+ ..++. ..-+|..+| .+..|++||+++|++..+|..+..-+++-+|
T Consensus        54 lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~-R~N~LKnsGiP~diF-~l~dLt~lDLShNqL~EvP~~LE~AKn~iVL  131 (1255)
T KOG0444|consen   54 LQKLEHLSMAHNQLISVHGELSDLPRLRSVIV-RDNNLKNSGIPTDIF-RLKDLTILDLSHNQLREVPTNLEYAKNSIVL  131 (1255)
T ss_pred             HhhhhhhhhhhhhhHhhhhhhccchhhHHHhh-hccccccCCCCchhc-ccccceeeecchhhhhhcchhhhhhcCcEEE
Confidence            446666777777666554433 6777777776 33332 123566654 6777778888888777777777777777888


Q ss_pred             eccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           84 CLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        84 ~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      ++++|.+..+  +.+.++..|-.||++.|++..+|+.+.++..|+.|.+++|+ ...+.-..+..+++|+.|++++..-+
T Consensus       132 NLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NP-L~hfQLrQLPsmtsL~vLhms~TqRT  210 (1255)
T KOG0444|consen  132 NLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNP-LNHFQLRQLPSMTSLSVLHMSNTQRT  210 (1255)
T ss_pred             EcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCCh-hhHHHHhcCccchhhhhhhcccccch
Confidence            8888887777  55667777778888888888887777777888888888776 33333222445556667777665443


Q ss_pred             ccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEE
Q 042164          162 WDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRIC  210 (235)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~  210 (235)
                             ...++.++..+.+|+.+|+|.|.+..+|..+ ..++|++|+++
T Consensus       211 -------l~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS  253 (1255)
T KOG0444|consen  211 -------LDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLS  253 (1255)
T ss_pred             -------hhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccC
Confidence                   2256667777888899999999998888888 88888888885

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

Probab=99.72  E-value=1.2e-20  Score=148.99  Aligned_cols=188  Identities=24%  Similarity=0.315  Sum_probs=125.5

Q ss_pred             CcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccC
Q 042164            9 PIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW   87 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~   87 (235)
                      ++.++.++|.+..+|+.. .+..++.++.  ..+....+++++ +.+..++.++..+|+++.+|+.+..+.++..+++.+
T Consensus        93 l~~l~vs~n~ls~lp~~i~s~~~l~~l~~--s~n~~~el~~~i-~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~  169 (565)
T KOG0472|consen   93 LKSLNVSHNKLSELPEQIGSLISLVKLDC--SSNELKELPDSI-GRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEG  169 (565)
T ss_pred             HHHhhcccchHhhccHHHhhhhhhhhhhc--cccceeecCchH-HHHhhhhhhhccccccccCchHHHHHHHHHHhhccc
Confidence            445555666666666655 5666666665  444444555553 566667777777777777777777777777777777


Q ss_pred             cCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccC
Q 042164           88 CQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVE  166 (235)
Q Consensus        88 ~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~  166 (235)
                      |.+.+. +..-.+++|+++|...|.++.+|+.++.+.+|..|++..|+ +..+|+  |.+|..|.++++..|.+...   
T Consensus       170 n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nk-i~~lPe--f~gcs~L~Elh~g~N~i~~l---  243 (565)
T KOG0472|consen  170 NKLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNK-IRFLPE--FPGCSLLKELHVGENQIEML---  243 (565)
T ss_pred             cchhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcc-cccCCC--CCccHHHHHHHhcccHHHhh---
Confidence            776665 33334777777777777777777777777777777777777 666663  67777777777777776622   


Q ss_pred             CCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEE
Q 042164          167 GGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRIC  210 (235)
Q Consensus       167 ~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~  210 (235)
                           ..+..++++++..||+..|+++++|..+ -..+|.+|+++
T Consensus       244 -----pae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlS  283 (565)
T KOG0472|consen  244 -----PAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLS  283 (565)
T ss_pred             -----HHHHhcccccceeeeccccccccCchHHHHhhhhhhhccc
Confidence                 2234447777777777777777777777 66667777775

>PLN03210 Resistant to P

Probab=99.68  E-value=9.2e-16  Score=141.85  Aligned_cols=206  Identities=21%  Similarity=0.256  Sum_probs=117.5

Q ss_pred             CCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCcc-CCCCChhhcCCccCcEEe
Q 042164            7 KGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH-FSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~l~~L~~L~   84 (235)
                      .+|+.|++.++.+..++... .+++|+.+++ +.+..+..+|.  ++.+++|+.|++++|. +..+|..+..+++|+.|+
T Consensus       611 ~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~L-s~~~~l~~ip~--ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~  687 (1153)
T PLN03210        611 ENLVKLQMQGSKLEKLWDGVHSLTGLRNIDL-RGSKNLKEIPD--LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLD  687 (1153)
T ss_pred             cCCcEEECcCccccccccccccCCCCCEEEC-CCCCCcCcCCc--cccCCcccEEEecCCCCccccchhhhccCCCCEEe
Confidence            45666666666666665555 6677777777 44444555554  4566777777776653 445666666677777777


Q ss_pred             ccCcC-CCCccccCCCC---------------------CCcEEEecCCCCCCcchhh-----------------------
Q 042164           85 LDWCQ-LEDVAAIGQLK---------------------KLEILSFRGSNIKQLPLEI-----------------------  119 (235)
Q Consensus        85 l~~~~-l~~~~~~~~l~---------------------~L~~L~l~~~~~~~~~~~~-----------------------  119 (235)
                      +++|. +..++....++                     +|++|++++|.+..+|..+                       
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~~~~~  767 (1153)
T PLN03210        688 MSRCENLEILPTGINLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQ  767 (1153)
T ss_pred             CCCCCCcCccCCcCCCCCCCEEeCCCCCCccccccccCCcCeeecCCCccccccccccccccccccccccchhhcccccc
Confidence            76653 33331111223                     3444444444444443221                       


Q ss_pred             -------ccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCC-----------ccchhc-ccCC
Q 042164          120 -------GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN-----------ASLAEL-KGLS  180 (235)
Q Consensus       120 -------~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~-----------~~~~~~-~~~~  180 (235)
                             ..+++|+.|++++|...+.+|.. ++++++|+.|++++|......+.+...           .....+ ...+
T Consensus       768 ~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~s-i~~L~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~~~~  846 (1153)
T PLN03210        768 PLTPLMTMLSPSLTRLFLSDIPSLVELPSS-IQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPDIST  846 (1153)
T ss_pred             ccchhhhhccccchheeCCCCCCccccChh-hhCCCCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCcccccccccc
Confidence                   01235666666666555666665 677777888887766321110110000           000000 1124


Q ss_pred             CccceeeecCCCCCCCccc-cccccceeEEEeccccc
Q 042164          181 KLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKWW  216 (235)
Q Consensus       181 ~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~~  216 (235)
                      +|+.|++++|.+..+|.++ .+++|+.|++..|+.+.
T Consensus       847 nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~  883 (1153)
T PLN03210        847 NISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQ  883 (1153)
T ss_pred             ccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcC
Confidence            6778888888888888877 78888888887777663

syringae 6; Provisional

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

Probab=99.64  E-value=8.2e-18  Score=144.71  Aligned_cols=210  Identities=23%  Similarity=0.330  Sum_probs=144.8

Q ss_pred             cCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCC-CcEEeecCccCCCCCh-hhcCCccCcE
Q 042164            6 RKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEE-LKVLDFTGIHFSSLPS-SLGRLINLQT   82 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~-L~~L~l~~~~~~~~~~-~l~~l~~L~~   82 (235)
                      ..+++.++...|.++.+|+.. .++.|++|++  ..+.+...|+.+|..... ++.|..+-|.+...|. +=..++.|+.
T Consensus       286 ~~~L~~l~~~~nel~yip~~le~~~sL~tLdL--~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~  363 (1081)
T KOG0618|consen  286 ITSLVSLSAAYNELEYIPPFLEGLKSLRTLDL--QSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQE  363 (1081)
T ss_pred             hhhHHHHHhhhhhhhhCCCcccccceeeeeee--hhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHH
Confidence            456677777777787787777 6888888888  666666677766555444 6666666666665552 1123567777


Q ss_pred             EeccCcCCCC-c-cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccc
Q 042164           83 LCLDWCQLED-V-AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF  159 (235)
Q Consensus        83 L~l~~~~l~~-~-~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~  159 (235)
                      |++.+|.+.+ + +.+.++++|+.|++++|.+.++|.. +.++..|++|++++|+ ...+|.. +..+..|++|...+|.
T Consensus       364 LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNk-L~~Lp~t-va~~~~L~tL~ahsN~  441 (1081)
T KOG0618|consen  364 LYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNK-LTTLPDT-VANLGRLHTLRAHSNQ  441 (1081)
T ss_pred             HHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccch-hhhhhHH-HHhhhhhHHHhhcCCc
Confidence            8888887773 3 7777888888888888888888776 6778888888888887 7777765 6777888888888887


Q ss_pred             ccccccCCCCCccchhcccCCCccceeeecCCCC--CCCccccccccceeEEEecccccccchhhhhhhhhcccc
Q 042164          160 SQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ--ILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQ  232 (235)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~--~~p~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~  232 (235)
                      +.          ..+.+..++.|+.+|+++|.++  .+|.....++|+.|+++ ||.+  ...+.+.+..+.++.
T Consensus       442 l~----------~fPe~~~l~qL~~lDlS~N~L~~~~l~~~~p~p~LkyLdlS-GN~~--l~~d~~~l~~l~~l~  503 (1081)
T KOG0618|consen  442 LL----------SFPELAQLPQLKVLDLSCNNLSEVTLPEALPSPNLKYLDLS-GNTR--LVFDHKTLKVLKSLS  503 (1081)
T ss_pred             ee----------echhhhhcCcceEEecccchhhhhhhhhhCCCcccceeecc-CCcc--cccchhhhHHhhhhh
Confidence            76          3347777888888888888876  34443344788888885 5544  233344444444443

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

Probab=99.64  E-value=2.4e-17  Score=130.09  Aligned_cols=144  Identities=22%  Similarity=0.313  Sum_probs=82.0

Q ss_pred             EecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEeccC-cC
Q 042164           12 ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDW-CQ   89 (235)
Q Consensus        12 L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~-~~   89 (235)
                      ++.++-.+++||... .+.-+++.|  ..+.+..+|+..|+.+++|+.|||++|.|+.+ |+.|..++++-.+-+.+ |+
T Consensus        51 VdCr~~GL~eVP~~L-P~~tveirL--dqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~Nk  127 (498)
T KOG4237|consen   51 VDCRGKGLTEVPANL-PPETVEIRL--DQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNK  127 (498)
T ss_pred             EEccCCCcccCcccC-CCcceEEEe--ccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCc
Confidence            444444455555554 444555666  55666666666666666666666666666653 45566666665555544 56


Q ss_pred             CCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccc
Q 042164           90 LEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF  159 (235)
Q Consensus        90 l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~  159 (235)
                      ++++  ..|+.+.+++.|.+..|.+..+++ .+..++++..|.+.+|. +..+++..+..+.+++.+++..|.
T Consensus       128 I~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~-~q~i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  128 ITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNK-IQSICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             hhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchh-hhhhccccccchhccchHhhhcCc
Confidence            6655  556666666666666666664433 35666666666666665 444444334444555555544444

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.62  E-value=1.2e-15  Score=133.91  Aligned_cols=103  Identities=21%  Similarity=0.341  Sum_probs=60.7

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      ..++++.|++++|.++.+|... .++|+.|++  .++.+..+|..+   ...|+.|++++|.+..+|..+.  .+|+.|+
T Consensus       197 Ip~~L~~L~Ls~N~LtsLP~~l-~~nL~~L~L--s~N~LtsLP~~l---~~~L~~L~Ls~N~L~~LP~~l~--s~L~~L~  268 (754)
T PRK15370        197 IPEQITTLILDNNELKSLPENL-QGNIKTLYA--NSNQLTSIPATL---PDTIQEMELSINRITELPERLP--SALQSLD  268 (754)
T ss_pred             cccCCcEEEecCCCCCcCChhh-ccCCCEEEC--CCCccccCChhh---hccccEEECcCCccCcCChhHh--CCCCEEE
Confidence            3456778888888887777655 357777777  344455566532   2356666666666666665442  3566666


Q ss_pred             ccCcCCCCc-cccCCCCCCcEEEecCCCCCCcch
Q 042164           85 LDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPL  117 (235)
Q Consensus        85 l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~  117 (235)
                      +++|.+..+ ..+.  .+|++|++++|.++.+|.
T Consensus       269 Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~  300 (754)
T PRK15370        269 LFHNKISCLPENLP--EELRYLSVYDNSIRTLPA  300 (754)
T ss_pred             CcCCccCccccccC--CCCcEEECCCCccccCcc
Confidence            666665544 2221  356666666665555443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.61  E-value=4.3e-15  Score=130.37  Aligned_cols=116  Identities=16%  Similarity=0.280  Sum_probs=69.6

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEecc
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLD   86 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~   86 (235)
                      .+...|+++++.++.+|..+ .++++.|++  .++.+..+|...+   .+|+.|++++|.++.+|..+.  .+|+.|+++
T Consensus       178 ~~~~~L~L~~~~LtsLP~~I-p~~L~~L~L--s~N~LtsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls  249 (754)
T PRK15370        178 NNKTELRLKILGLTTIPACI-PEQITTLIL--DNNELKSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELS  249 (754)
T ss_pred             cCceEEEeCCCCcCcCCccc-ccCCcEEEe--cCCCCCcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECc
Confidence            34566777776666666544 346667777  4445555665432   466777777777666665432  356777777


Q ss_pred             CcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCc
Q 042164           87 WCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCW  134 (235)
Q Consensus        87 ~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~  134 (235)
                      +|.+..+ ..+.  .+|+.|+++.|.++.+|..+.  ++|+.|++++|.
T Consensus       250 ~N~L~~LP~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~  294 (754)
T PRK15370        250 INRITELPERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDNS  294 (754)
T ss_pred             CCccCcCChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCCc
Confidence            7766655 2222  356777777776666665432  366666666665

>PLN03210 Resistant to P

Probab=99.61  E-value=1e-14  Score=135.03  Aligned_cols=145  Identities=26%  Similarity=0.367  Sum_probs=88.4

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCcc-CCCCChhhcCCccCcEEec
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH-FSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~l~~L~~L~l   85 (235)
                      .+++.|++.++.+..+|..+.+.+|+.|++  .++.+..++..+ ..+++|+.|+++++. +..+|. +..+++|+.|++
T Consensus       589 ~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L--~~s~l~~L~~~~-~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L  664 (1153)
T PLN03210        589 PKLRLLRWDKYPLRCMPSNFRPENLVKLQM--QGSKLEKLWDGV-HSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKL  664 (1153)
T ss_pred             cccEEEEecCCCCCCCCCcCCccCCcEEEC--cCcccccccccc-ccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEe
Confidence            456677777777777776666677777777  444455555543 567777777777654 444553 666777777777


Q ss_pred             cCcC-CCCc-cccCCCCCCcEEEecCC-CCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccc
Q 042164           86 DWCQ-LEDV-AAIGQLKKLEILSFRGS-NIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS  160 (235)
Q Consensus        86 ~~~~-l~~~-~~~~~l~~L~~L~l~~~-~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~  160 (235)
                      .+|. +..+ ..++.+++|+.|++++| .++.+|..+ ++++|+.|++++|.....+|..    ..+|++|++++|.+
T Consensus       665 ~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~~----~~nL~~L~L~~n~i  737 (1153)
T PLN03210        665 SDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPDI----STNISWLDLDETAI  737 (1153)
T ss_pred             cCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCccccccc----cCCcCeeecCCCcc
Confidence            7765 3444 56667777777777765 455666544 5666777777666534433321    23455555555544

syringae 6; Provisional

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

Probab=99.61  E-value=6.1e-17  Score=127.80  Aligned_cols=199  Identities=22%  Similarity=0.320  Sum_probs=116.9

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecC-ccCCCCCh-hhcC----
Q 042164            5 IRKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG-IHFSSLPS-SLGR----   76 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~-~~~~~~~~-~l~~----   76 (235)
                      .+...+.+.|..|.|++||+..  .+++|+.|+|  +.+.+..+.+..|.++.++..|-+++ |+|+.+|. .|..    
T Consensus        65 LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdL--S~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~sl  142 (498)
T KOG4237|consen   65 LPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDL--SKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSL  142 (498)
T ss_pred             CCCcceEEEeccCCcccCChhhccchhhhceecc--cccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHH
Confidence            3456677888888888887776  7788888888  55555556666677777776666655 67766653 3344    


Q ss_pred             --------------------CccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCC----------------------
Q 042164           77 --------------------LINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNI----------------------  112 (235)
Q Consensus        77 --------------------l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~----------------------  112 (235)
                                          ++++..|.+..|.++.+  ..+..+..++++.+..|.+                      
T Consensus       143 qrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsg  222 (498)
T KOG4237|consen  143 QRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSG  222 (498)
T ss_pred             HHHhcChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhccc
Confidence                                45555555555555544  3455555555554444430                      


Q ss_pred             ---------------------------------------C-Ccch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCc
Q 042164          113 ---------------------------------------K-QLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE  151 (235)
Q Consensus       113 ---------------------------------------~-~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~  151 (235)
                                                             . ..|. .|..+++|+.|++++|+ ++.+...+|.....++
T Consensus       223 arc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~-i~~i~~~aFe~~a~l~  301 (498)
T KOG4237|consen  223 ARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNK-ITRIEDGAFEGAAELQ  301 (498)
T ss_pred             ceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCc-cchhhhhhhcchhhhh
Confidence                                                   0 0111 25555666666666665 4444444455556666


Q ss_pred             EEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcc-c-cccccceeEEEecccc
Q 042164          152 ELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQE-W-VFVELQSYRICIGNKW  215 (235)
Q Consensus       152 ~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~-~-~~~~L~~l~l~~~~~~  215 (235)
                      +|.+..|.+...        .-..|.++..|+.|+|.+|+++.+.+. + ....|.+|.+ ..|.|
T Consensus       302 eL~L~~N~l~~v--------~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l-~~Np~  358 (498)
T KOG4237|consen  302 ELYLTRNKLEFV--------SSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNL-LSNPF  358 (498)
T ss_pred             hhhcCcchHHHH--------HHHhhhccccceeeeecCCeeEEEecccccccceeeeeeh-ccCcc
Confidence            666666655422        345667777788888888887744332 2 4556666666 34443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.58  E-value=1.3e-14  Score=127.08  Aligned_cols=80  Identities=23%  Similarity=0.226  Sum_probs=40.7

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhh----------------hhCCCCCcEEeecCccCCCC
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHF----------------FEGTEELKVLDFTGIHFSSL   70 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~----------------~~~~~~L~~L~l~~~~~~~~   70 (235)
                      ++++.|++.+|.++.+|..  +++|+.|++  .++.+..+|...                -..+..|+.|++++|.++.+
T Consensus       222 ~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdL--s~N~LtsLP~lp~sL~~L~Ls~N~L~~Lp~lp~~L~~L~Ls~N~Lt~L  297 (788)
T PRK15387        222 AHITTLVIPDNNLTSLPAL--PPELRTLEV--SGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSL  297 (788)
T ss_pred             cCCCEEEccCCcCCCCCCC--CCCCcEEEe--cCCccCcccCcccccceeeccCCchhhhhhchhhcCEEECcCCccccc
Confidence            4566677777777666643  466666666  333444444210                00112334444444444444


Q ss_pred             ChhhcCCccCcEEeccCcCCCCc
Q 042164           71 PSSLGRLINLQTLCLDWCQLEDV   93 (235)
Q Consensus        71 ~~~l~~l~~L~~L~l~~~~l~~~   93 (235)
                      |.   ..++|++|++++|.+..+
T Consensus       298 P~---~p~~L~~LdLS~N~L~~L  317 (788)
T PRK15387        298 PV---LPPGLQELSVSDNQLASL  317 (788)
T ss_pred             cc---cccccceeECCCCccccC
Confidence            43   125566666666665544

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

Probab=99.56  E-value=5.1e-16  Score=133.87  Aligned_cols=196  Identities=19%  Similarity=0.233  Sum_probs=127.1

Q ss_pred             cCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            6 RKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      ..+++.++++++.+..+|+-+ .|.+|+.+..  ..+.+..+|... ....+|+.|.+.+|.++.+|+....+++|++|+
T Consensus       240 p~nl~~~dis~n~l~~lp~wi~~~~nle~l~~--n~N~l~~lp~ri-~~~~~L~~l~~~~nel~yip~~le~~~sL~tLd  316 (1081)
T KOG0618|consen  240 PLNLQYLDISHNNLSNLPEWIGACANLEALNA--NHNRLVALPLRI-SRITSLVSLSAAYNELEYIPPFLEGLKSLRTLD  316 (1081)
T ss_pred             cccceeeecchhhhhcchHHHHhcccceEecc--cchhHHhhHHHH-hhhhhHHHHHhhhhhhhhCCCcccccceeeeee
Confidence            456777777777777777443 7777777777  555556666664 567777777777777777777777778888888


Q ss_pred             ccCcCCCCc--cccCC-------------------------CCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCC
Q 042164           85 LDWCQLEDV--AAIGQ-------------------------LKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSL  136 (235)
Q Consensus        85 l~~~~l~~~--~~~~~-------------------------l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~  136 (235)
                      +..|.+..+  ..+..                         ...|+.|.+.+|.++ ..-+.+.+.++|+.|++++|. +
T Consensus       317 L~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNr-L  395 (1081)
T KOG0618|consen  317 LQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNR-L  395 (1081)
T ss_pred             ehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccc-c
Confidence            877776644  11111                         122444555555555 222345566677777777776 6


Q ss_pred             CCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEecccc
Q 042164          137 EVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKW  215 (235)
Q Consensus       137 ~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~~  215 (235)
                      +.+|...+.+++.|++|++++|.++         ..+..+..++.|+.|..-+|.+..+|.....+.|+.+|++ +|.+
T Consensus       396 ~~fpas~~~kle~LeeL~LSGNkL~---------~Lp~tva~~~~L~tL~ahsN~l~~fPe~~~l~qL~~lDlS-~N~L  464 (1081)
T KOG0618|consen  396 NSFPASKLRKLEELEELNLSGNKLT---------TLPDTVANLGRLHTLRAHSNQLLSFPELAQLPQLKVLDLS-CNNL  464 (1081)
T ss_pred             ccCCHHHHhchHHhHHHhcccchhh---------hhhHHHHhhhhhHHHhhcCCceeechhhhhcCcceEEecc-cchh
Confidence            6666666666667777777777666         3456666677777777777777777744477777777775 4433

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

Probab=99.56  E-value=1.1e-16  Score=131.66  Aligned_cols=184  Identities=24%  Similarity=0.309  Sum_probs=153.9

Q ss_pred             cCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            6 RKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      +..-...+++.|++..+|..+ .+..|+.+.+  ..+.+..+|..+ ..+..|+++|++.|+++.+|..++.|+ |+.+-
T Consensus        74 ltdt~~aDlsrNR~~elp~~~~~f~~Le~liL--y~n~~r~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli  149 (722)
T KOG0532|consen   74 LTDTVFADLSRNRFSELPEEACAFVSLESLIL--YHNCIRTIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLI  149 (722)
T ss_pred             ccchhhhhccccccccCchHHHHHHHHHHHHH--Hhccceecchhh-hhhhHHHHhhhccchhhcCChhhhcCc-ceeEE
Confidence            344567888888888888887 7788888888  445555566553 788899999999999999998888887 89999


Q ss_pred             ccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccc
Q 042164           85 LDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD  163 (235)
Q Consensus        85 l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  163 (235)
                      +++|++..+ ..++...+|..++.+.|.+..+|..++.+.+|+.|.+..|. ...+|++ ++.++ |..|++++|++.  
T Consensus       150 ~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~-l~~lp~E-l~~Lp-Li~lDfScNkis--  224 (722)
T KOG0532|consen  150 VSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNH-LEDLPEE-LCSLP-LIRLDFSCNKIS--  224 (722)
T ss_pred             EecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhh-hhhCCHH-HhCCc-eeeeecccCcee--
Confidence            999999887 77888889999999999999999999999999999999997 7888888 66555 999999999998  


Q ss_pred             ccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccc
Q 042164          164 KVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQ  205 (235)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~  205 (235)
                             .++..|..++.||+|.|++|++++-|..+......
T Consensus       225 -------~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~kGkV  259 (722)
T KOG0532|consen  225 -------YLPVDFRKMRHLQVLQLENNPLQSPPAQICEKGKV  259 (722)
T ss_pred             -------ecchhhhhhhhheeeeeccCCCCCChHHHHhccce
Confidence                   56888999999999999999999999888444443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.55  E-value=3.2e-14  Score=124.62  Aligned_cols=182  Identities=20%  Similarity=0.148  Sum_probs=101.8

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEecc-------------------CCCCCcccchhhhhCCCCCcEEeecCc
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFR-------------------EGNGPMQISDHFFEGTEELKVLDFTGI   65 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~-------------------~~~~~~~~~~~~~~~~~~L~~L~l~~~   65 (235)
                      .+++|++|++++|.++.+|..  .++|+.|++ .                   ..+.+..+|.    .+++|+.|++++|
T Consensus       240 lp~~Lk~LdLs~N~LtsLP~l--p~sL~~L~L-s~N~L~~Lp~lp~~L~~L~Ls~N~Lt~LP~----~p~~L~~LdLS~N  312 (788)
T PRK15387        240 LPPELRTLEVSGNQLTSLPVL--PPGLLELSI-FSNPLTHLPALPSGLCKLWIFGNQLTSLPV----LPPGLQELSVSDN  312 (788)
T ss_pred             CCCCCcEEEecCCccCcccCc--ccccceeec-cCCchhhhhhchhhcCEEECcCCccccccc----cccccceeECCCC
Confidence            357788888888888777654  234444444 1                   2223333332    2367888889888


Q ss_pred             cCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhc-----------------cCCCCcEE
Q 042164           66 HFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIG-----------------QLTRLQLL  128 (235)
Q Consensus        66 ~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~-----------------~l~~L~~L  128 (235)
                      .++.+|...   .+|+.|++++|.+..++.+  ..+|+.|++++|+++.+|....                 ...+|+.|
T Consensus       313 ~L~~Lp~lp---~~L~~L~Ls~N~L~~LP~l--p~~Lq~LdLS~N~Ls~LP~lp~~L~~L~Ls~N~L~~LP~l~~~L~~L  387 (788)
T PRK15387        313 QLASLPALP---SELCKLWAYNNQLTSLPTL--PSGLQELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGLKEL  387 (788)
T ss_pred             ccccCCCCc---ccccccccccCcccccccc--ccccceEecCCCccCCCCCCCcccceehhhccccccCcccccccceE
Confidence            888766421   2344455555555444221  1245555555555554442110                 11345556


Q ss_pred             cccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-ccccccee
Q 042164          129 DLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSY  207 (235)
Q Consensus       129 ~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l  207 (235)
                      ++++|. +..+|..    .++|+.|++++|.++..         +..   ..+|+.|++++|.++.+|..+ .+++|+.+
T Consensus       388 dLs~N~-Lt~LP~l----~s~L~~LdLS~N~LssI---------P~l---~~~L~~L~Ls~NqLt~LP~sl~~L~~L~~L  450 (788)
T PRK15387        388 IVSGNR-LTSLPVL----PSELKELMVSGNRLTSL---------PML---PSGLLSLSVYRNQLTRLPESLIHLSSETTV  450 (788)
T ss_pred             EecCCc-ccCCCCc----ccCCCEEEccCCcCCCC---------Ccc---hhhhhhhhhccCcccccChHHhhccCCCeE
Confidence            666655 3344431    23566666666666522         111   235777888888888888776 77888888


Q ss_pred             EEEeccccc
Q 042164          208 RICIGNKWW  216 (235)
Q Consensus       208 ~l~~~~~~~  216 (235)
                      ++ .+|.+.
T Consensus       451 dL-s~N~Ls  458 (788)
T PRK15387        451 NL-EGNPLS  458 (788)
T ss_pred             EC-CCCCCC
Confidence            88 466553

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

Probab=99.53  E-value=2.2e-15  Score=121.38  Aligned_cols=181  Identities=20%  Similarity=0.173  Sum_probs=88.6

Q ss_pred             CCCcEEecCCCCCC-----CCCCcC-CCCCccEEEeccCCCCCc-----ccchhhhhCCCCCcEEeecCccCCC-CChhh
Q 042164            7 KGPIAISLPQRDIQ-----ELPERL-QCPNLQLFLLFREGNGPM-----QISDHFFEGTEELKVLDFTGIHFSS-LPSSL   74 (235)
Q Consensus         7 ~~l~~L~l~~~~l~-----~i~~~~-~l~~L~~L~l~~~~~~~~-----~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l   74 (235)
                      .+++.++++++.++     .++... ..+.++.+++ +.+....     ......+..+++|+.|++++|.+.. .+..+
T Consensus        23 ~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l-~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~  101 (319)
T cd00116          23 LCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCL-SLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVL  101 (319)
T ss_pred             hhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEec-cccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHH
Confidence            34666666666653     233333 4555666666 3222210     0011123455666666666666553 22333


Q ss_pred             cCCcc---CcEEeccCcCCCC-----c-cccCCC-CCCcEEEecCCCCC-----CcchhhccCCCCcEEcccCCcCCCC-
Q 042164           75 GRLIN---LQTLCLDWCQLED-----V-AAIGQL-KKLEILSFRGSNIK-----QLPLEIGQLTRLQLLDLSNCWSLEV-  138 (235)
Q Consensus        75 ~~l~~---L~~L~l~~~~l~~-----~-~~~~~l-~~L~~L~l~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~~~-  138 (235)
                      ..+.+   |++|++++|.+..     + ..+..+ ++|+.+++++|.++     .++..+..+++|++|++++|.+.+. 
T Consensus       102 ~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~  181 (319)
T cd00116         102 ESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAG  181 (319)
T ss_pred             HHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHH
Confidence            33333   6666666666551     1 334444 56666666666655     2233344555666666666653221 


Q ss_pred             ---CchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          139 ---IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       139 ---~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                         ++.. +..+++|++|++++|.+.+.    ........+..+++|+.|++++|.+.
T Consensus       182 ~~~l~~~-l~~~~~L~~L~L~~n~i~~~----~~~~l~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         182 IRALAEG-LKANCNLEVLDLNNNGLTDE----GASALAETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             HHHHHHH-HHhCCCCCEEeccCCccChH----HHHHHHHHhcccCCCCEEecCCCcCc
Confidence               1111 33445666666666655422    11112334445566666666666554

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

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

Probab=99.51  E-value=7.9e-15  Score=118.14  Aligned_cols=203  Identities=21%  Similarity=0.206  Sum_probs=131.4

Q ss_pred             cCCCcEEecCCCCCCCCC-------CcC-CCCCccEEEeccCCCCCcccchhhhhCCCC---CcEEeecCccCCC-----
Q 042164            6 RKGPIAISLPQRDIQELP-------ERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEE---LKVLDFTGIHFSS-----   69 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~-------~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~---L~~L~l~~~~~~~-----   69 (235)
                      .+++++++++++.+..++       ..+ .+++|+.|++ +.+......+. .+..+..   |++|++++|.++.     
T Consensus        50 ~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l-~~~~~~~~~~~-~~~~l~~~~~L~~L~ls~~~~~~~~~~~  127 (319)
T cd00116          50 QPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDL-SDNALGPDGCG-VLESLLRSSSLQELKLNNNGLGDRGLRL  127 (319)
T ss_pred             CCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEc-cCCCCChhHHH-HHHHHhccCcccEEEeeCCccchHHHHH
Confidence            356888999888776322       222 6779999999 55444333332 2344444   9999999988873     


Q ss_pred             CChhhcCC-ccCcEEeccCcCCCC-----c-cccCCCCCCcEEEecCCCCC-----CcchhhccCCCCcEEcccCCcCCC
Q 042164           70 LPSSLGRL-INLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSNIK-----QLPLEIGQLTRLQLLDLSNCWSLE  137 (235)
Q Consensus        70 ~~~~l~~l-~~L~~L~l~~~~l~~-----~-~~~~~l~~L~~L~l~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~~  137 (235)
                      +...+..+ ++|+.+++++|.++.     + ..+..+++|++|++++|.++     .++..+..+++|++|++++|.+.+
T Consensus       128 l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~  207 (319)
T cd00116         128 LAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTD  207 (319)
T ss_pred             HHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccCh
Confidence            23345666 889999999998772     2 45667778999999999887     234445666799999999987332


Q ss_pred             CCc---hhhhcCCCCCcEEEeccccccccccCCCCCccchhc-ccCCCccceeeecCCCC-----CCCccc-ccccccee
Q 042164          138 VIP---PNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL-KGLSKLTTLNIQVPDAQ-----ILPQEW-VFVELQSY  207 (235)
Q Consensus       138 ~~~---~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~-~~~~~L~~L~l~~n~~~-----~~p~~~-~~~~L~~l  207 (235)
                      ...   ...+..+++|++|++++|.++..   + .......+ ...+.|+.|++++|.+.     .+.... .+++|+.+
T Consensus       208 ~~~~~l~~~~~~~~~L~~L~ls~n~l~~~---~-~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l  283 (319)
T cd00116         208 EGASALAETLASLKSLEVLNLGDNNLTDA---G-AAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLEL  283 (319)
T ss_pred             HHHHHHHHHhcccCCCCEEecCCCcCchH---H-HHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEE
Confidence            211   12256778899999999887632   0 00011111 12478999999999875     222222 55788888


Q ss_pred             EEEecccc
Q 042164          208 RICIGNKW  215 (235)
Q Consensus       208 ~l~~~~~~  215 (235)
                      +++ ++..
T Consensus       284 ~l~-~N~l  290 (319)
T cd00116         284 DLR-GNKF  290 (319)
T ss_pred             ECC-CCCC
Confidence            885 4433

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=99.50  E-value=8.4e-16  Score=126.46  Aligned_cols=188  Identities=22%  Similarity=0.301  Sum_probs=159.4

Q ss_pred             EEecCCCCCCCCCCcC---CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccC
Q 042164           11 AISLPQRDIQELPERL---QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW   87 (235)
Q Consensus        11 ~L~l~~~~l~~i~~~~---~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~   87 (235)
                      +|.|++..++.+|...   ++..-...++  +.+....+|.++ +.|..|+.+.++.|.+..+|..+..+..|.+++++.
T Consensus        54 ~l~Ls~rrlk~fpr~a~~~~ltdt~~aDl--srNR~~elp~~~-~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~  130 (722)
T KOG0532|consen   54 RLLLSGRRLKEFPRGAASYDLTDTVFADL--SRNRFSELPEEA-CAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSS  130 (722)
T ss_pred             ccccccchhhcCCCccccccccchhhhhc--cccccccCchHH-HHHHHHHHHHHHhccceecchhhhhhhHHHHhhhcc
Confidence            4677777888777665   4555556677  555666688774 788999999999999999999999999999999999


Q ss_pred             cCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccC
Q 042164           88 CQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVE  166 (235)
Q Consensus        88 ~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~  166 (235)
                      |+++.+ ..+..++ |+.|-+++|+++.+|..++..++|.+||.+.|. +..+|.+ ++.+.+|+.+.+..|.+.     
T Consensus       131 NqlS~lp~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s~ne-i~slpsq-l~~l~slr~l~vrRn~l~-----  202 (722)
T KOG0532|consen  131 NQLSHLPDGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNE-IQSLPSQ-LGYLTSLRDLNVRRNHLE-----  202 (722)
T ss_pred             chhhcCChhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhhhhh-hhhchHH-hhhHHHHHHHHHhhhhhh-----
Confidence            999987 5555555 999999999999999999988999999999998 7888888 899999999999999887     


Q ss_pred             CCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEEecccc
Q 042164          167 GGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKW  215 (235)
Q Consensus       167 ~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~  215 (235)
                          ..++.+..+| |..||+++|++..+|..+ .++.|+.|.+ .+|.+
T Consensus       203 ----~lp~El~~Lp-Li~lDfScNkis~iPv~fr~m~~Lq~l~L-enNPL  246 (722)
T KOG0532|consen  203 ----DLPEELCSLP-LIRLDFSCNKISYLPVDFRKMRHLQVLQL-ENNPL  246 (722)
T ss_pred             ----hCCHHHhCCc-eeeeecccCceeecchhhhhhhhheeeee-ccCCC
Confidence                4577777665 888999999999999988 8889999988 67776

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

Probab=99.47  E-value=8.5e-15  Score=112.44  Aligned_cols=183  Identities=16%  Similarity=0.162  Sum_probs=142.6

Q ss_pred             cccCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCccc----chh-----h--------------hhCCCCCcE
Q 042164            4 TIRKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQI----SDH-----F--------------FEGTEELKV   59 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~----~~~-----~--------------~~~~~~L~~   59 (235)
                      ..|+++..+.++.|.-..|-... .-+.|+++..  .+.-+...    |..     .              ...-..|++
T Consensus       211 ~~f~~l~~~~~s~~~~~~i~~~~~~kptl~t~~v--~~s~~~~~~~l~pe~~~~D~~~~E~~t~~G~~~~~~dTWq~Lte  288 (490)
T KOG1259|consen  211 NAFRNLKTLKFSALSTENIVDIELLKPTLQTICV--HNTTIQDVPSLLPETILADPSGSEPSTSNGSALVSADTWQELTE  288 (490)
T ss_pred             HHhhhhheeeeeccchhheeceeecCchhheeee--ecccccccccccchhhhcCccCCCCCccCCceEEecchHhhhhh
Confidence            45678888888888766554443 4566666665  22221111    100     0              011255889


Q ss_pred             EeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCC
Q 042164           60 LDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVI  139 (235)
Q Consensus        60 L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~  139 (235)
                      +|+++|.|+.+.++..-.|.+++|++++|.+..+..++.+++|..||+++|.++.+..+-.++.+.+.|.++.|. +..+
T Consensus       289 lDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N~-iE~L  367 (490)
T KOG1259|consen  289 LDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQNK-IETL  367 (490)
T ss_pred             ccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhhhh-Hhhh
Confidence            999999999998888889999999999999999988999999999999999999887777788899999999997 6666


Q ss_pred             chhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcc
Q 042164          140 PPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQE  198 (235)
Q Consensus       140 ~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~  198 (235)
                      ..  +..+.+|..|++++|+|...       .....++.+|.|+.+.|.+|+++.+|..
T Consensus       368 SG--L~KLYSLvnLDl~~N~Ie~l-------deV~~IG~LPCLE~l~L~~NPl~~~vdY  417 (490)
T KOG1259|consen  368 SG--LRKLYSLVNLDLSSNQIEEL-------DEVNHIGNLPCLETLRLTGNPLAGSVDY  417 (490)
T ss_pred             hh--hHhhhhheeccccccchhhH-------HHhcccccccHHHHHhhcCCCccccchH
Confidence            54  78888999999999999743       3466888999999999999999877653

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

Probab=99.46  E-value=8.9e-14  Score=101.18  Aligned_cols=130  Identities=24%  Similarity=0.268  Sum_probs=43.7

Q ss_pred             hCCCCCcEEeecCccCCCCChhhc-CCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhh-ccCCCCcEEc
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLG-RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLD  129 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~-~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~-~~l~~L~~L~  129 (235)
                      .....+++|+|++|.++.+- .+. .+.+|+.|++++|.+..+..+..+++|++|++++|.++++...+ ..+++|++|+
T Consensus        16 ~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~   94 (175)
T PF14580_consen   16 NNPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELY   94 (175)
T ss_dssp             ---------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE
T ss_pred             cccccccccccccccccccc-chhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEE
Confidence            35556677777777776653 243 46677777777777777766667777777777777777665443 3567777777


Q ss_pred             ccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceee
Q 042164          130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNI  187 (235)
Q Consensus       130 l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l  187 (235)
                      +++|++...-.-..+..+++|+.|++.+|.+...     ...-...+..+|+|+.||-
T Consensus        95 L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~-----~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   95 LSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEK-----KNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             -TTS---SCCCCGGGGG-TT--EEE-TT-GGGGS-----TTHHHHHHHH-TT-SEETT
T ss_pred             CcCCcCCChHHhHHHHcCCCcceeeccCCcccch-----hhHHHHHHHHcChhheeCC
Confidence            7777632211112256677777777777776522     1223445566777776663

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

Probab=99.45  E-value=7.8e-14  Score=101.47  Aligned_cols=139  Identities=24%  Similarity=0.279  Sum_probs=55.4

Q ss_pred             cCccCCCCChhhcCCccCcEEeccCcCCCCccccC-CCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCch
Q 042164           63 TGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIG-QLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPP  141 (235)
Q Consensus        63 ~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~-~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~  141 (235)
                      ..+.+...+. +....++++|++.+|.++.+..++ .+.+|+.|+++.|.++.+. .+..++.|+.|++++|. ++.+.+
T Consensus         5 t~~~i~~~~~-~~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~-I~~i~~   81 (175)
T PF14580_consen    5 TANMIEQIAQ-YNNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNR-ISSISE   81 (175)
T ss_dssp             --------------------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--SS----S-CH
T ss_pred             cccccccccc-cccccccccccccccccccccchhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCC-CCcccc
Confidence            3344444443 456668999999999999987777 5889999999999999875 46779999999999998 667765


Q ss_pred             hhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-----cccccceeEEEe
Q 042164          142 NVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-----VFVELQSYRICI  211 (235)
Q Consensus       142 ~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-----~~~~L~~l~l~~  211 (235)
                      .....+++|++|++++|.+...       .....++.+++|+.|++.+|++..-+.--     .+|+|+.||-..
T Consensus        82 ~l~~~lp~L~~L~L~~N~I~~l-------~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen   82 GLDKNLPNLQELYLSNNKISDL-------NELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             HHHHH-TT--EEE-TTS---SC-------CCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTEE
T ss_pred             chHHhCCcCCEEECcCCcCCCh-------HHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCEE
Confidence            4335689999999999999744       34677888999999999999997544422     778888887643

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

Probab=99.39  E-value=5.3e-14  Score=112.60  Aligned_cols=202  Identities=23%  Similarity=0.151  Sum_probs=135.6

Q ss_pred             cCCCcEEecCCCCCCCCCC--cC-CCCCccEEEeccCCCCCcc-cchhhhhCCCCCcEEeecCccCCCCChh--hcCCcc
Q 042164            6 RKGPIAISLPQRDIQELPE--RL-QCPNLQLFLLFREGNGPMQ-ISDHFFEGTEELKVLDFTGIHFSSLPSS--LGRLIN   79 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~--~~-~l~~L~~L~l~~~~~~~~~-~~~~~~~~~~~L~~L~l~~~~~~~~~~~--l~~l~~   79 (235)
                      +.+|+.+.+.++.+...+.  .. .|++++.|++ +.+-.... ....+.+.+++|+.|+++.|.+....+.  -..+++
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdL-S~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~  198 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDL-SRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSH  198 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecc-hhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhh
Confidence            4678888888888875553  33 7888888888 44444332 2233456788889999988887643221  135788


Q ss_pred             CcEEeccCcCCC--Cc-cccCCCCCCcEEEecCCC-CCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEe
Q 042164           80 LQTLCLDWCQLE--DV-AAIGQLKKLEILSFRGSN-IKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYM  155 (235)
Q Consensus        80 L~~L~l~~~~l~--~~-~~~~~l~~L~~L~l~~~~-~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l  155 (235)
                      |+.|.++.|.++  ++ .....+++++.|++.+|. +.........+..|+.||+++|.++..-.....+.++.|+.|++
T Consensus       199 lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnl  278 (505)
T KOG3207|consen  199 LKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNL  278 (505)
T ss_pred             hheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhc
Confidence            888888888887  34 555678888888888884 33222233456788899999987544332334788888999999


Q ss_pred             ccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc---cccccceeEEE
Q 042164          156 DISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW---VFVELQSYRIC  210 (235)
Q Consensus       156 ~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~---~~~~L~~l~l~  210 (235)
                      +.+.+.+...+.  .........+++|+.|+++.|++++++.--   ..++|++|.+.
T Consensus       279 s~tgi~si~~~d--~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~  334 (505)
T KOG3207|consen  279 SSTGIASIAEPD--VESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRIT  334 (505)
T ss_pred             cccCcchhcCCC--ccchhhhcccccceeeecccCccccccccchhhccchhhhhhcc
Confidence            988887551111  112223456788999999999986555433   66778888763

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

Probab=99.32  E-value=4.1e-13  Score=107.58  Aligned_cols=194  Identities=17%  Similarity=0.160  Sum_probs=141.6

Q ss_pred             CCCCccEEEeccCCCCCcccch-hhhhCCCCCcEEeecCccCCC---CChhhcCCccCcEEeccCcCCCCc---cccCCC
Q 042164           27 QCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSS---LPSSLGRLINLQTLCLDWCQLEDV---AAIGQL   99 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~---~~~~l~~l~~L~~L~l~~~~l~~~---~~~~~l   99 (235)
                      ++++|+...+  ++......+. +....|++++.||++.|-+..   +.....++|+|+.|+++.|.+...   ..-..+
T Consensus       119 n~kkL~~IsL--dn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l  196 (505)
T KOG3207|consen  119 NLKKLREISL--DNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLL  196 (505)
T ss_pred             hHHhhhheee--cCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhh
Confidence            8999999999  7766665553 345789999999999998774   345568899999999999998844   223367


Q ss_pred             CCCcEEEecCCCCC--CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcc
Q 042164          100 KKLEILSFRGSNIK--QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELK  177 (235)
Q Consensus       100 ~~L~~L~l~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~  177 (235)
                      ++++.|.++.|.++  .+......+|+|+.|.+..|......... ..-+..|++|++++|.+-..       +.....+
T Consensus       197 ~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~-~~i~~~L~~LdLs~N~li~~-------~~~~~~~  268 (505)
T KOG3207|consen  197 SHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATS-TKILQTLQELDLSNNNLIDF-------DQGYKVG  268 (505)
T ss_pred             hhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecch-hhhhhHHhhccccCCccccc-------ccccccc
Confidence            89999999999988  44444668999999999999422222111 34456799999999987633       3346778


Q ss_pred             cCCCccceeeecCCCC--CCCcc------ccccccceeEEEecccccccchhhhhhhhhcccc
Q 042164          178 GLSKLTTLNIQVPDAQ--ILPQE------WVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQ  232 (235)
Q Consensus       178 ~~~~L~~L~l~~n~~~--~~p~~------~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~  232 (235)
                      .+|.|+.|.++.+.+.  ..|..      ..|++|+.|.+..++.  ..|.....+-.+++|+
T Consensus       269 ~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I--~~w~sl~~l~~l~nlk  329 (505)
T KOG3207|consen  269 TLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNI--RDWRSLNHLRTLENLK  329 (505)
T ss_pred             cccchhhhhccccCcchhcCCCccchhhhcccccceeeecccCcc--ccccccchhhccchhh
Confidence            8999999999999986  34444      2899999999965543  3555334444443333

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

Probab=99.29  E-value=4.3e-12  Score=105.34  Aligned_cols=169  Identities=28%  Similarity=0.367  Sum_probs=79.5

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCC-CCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCcccc-CCCCCCcE
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTE-ELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAI-GQLKKLEI  104 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~-~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~-~~l~~L~~  104 (235)
                      ....++.+.+  .++.+..++... ..+. +|+.|++++|.+..+|..+..+++|+.|+++.|.+.++... +..+.|+.
T Consensus       114 ~~~~l~~L~l--~~n~i~~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         114 ELTNLTSLDL--DNNNITDIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             cccceeEEec--CCcccccCcccc-ccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            3444555555  444444444432 2232 55555555555555544455555555555555555555222 24555555


Q ss_pred             EEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccc
Q 042164          105 LSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTT  184 (235)
Q Consensus       105 L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~  184 (235)
                      +++++|.+..+|........|+.+.++.|.... .+.. +..+.++..+.+..|++.         .....++.+++++.
T Consensus       191 L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~-~~~~-~~~~~~l~~l~l~~n~~~---------~~~~~~~~l~~l~~  259 (394)
T COG4886         191 LDLSGNKISDLPPEIELLSALEELDLSNNSIIE-LLSS-LSNLKNLSGLELSNNKLE---------DLPESIGNLSNLET  259 (394)
T ss_pred             eeccCCccccCchhhhhhhhhhhhhhcCCccee-cchh-hhhcccccccccCCceee---------eccchhccccccce
Confidence            555555555555444444445555555553122 2211 344444444444444443         11334444444555


Q ss_pred             eeeecCCCCCCCccccccccceeEE
Q 042164          185 LNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       185 L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      |++++|.+..++......+++.+++
T Consensus       260 L~~s~n~i~~i~~~~~~~~l~~L~~  284 (394)
T COG4886         260 LDLSNNQISSISSLGSLTNLRELDL  284 (394)
T ss_pred             eccccccccccccccccCccCEEec
Confidence            5555555554444224444444444

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

Probab=99.27  E-value=6.4e-12  Score=104.30  Aligned_cols=178  Identities=26%  Similarity=0.297  Sum_probs=143.6

Q ss_pred             CCCcEEecCCCCCCCCCCcC-CCC-CccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            7 KGPIAISLPQRDIQELPERL-QCP-NLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~-~l~-~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      +.++.+++.++.+..+++.. ..+ +|+.|++  ..+.+..++.. ...++.|+.|++++|.++.+|......+.|+.++
T Consensus       116 ~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l--~~N~i~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~  192 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPLIGLLKSNLKELDL--SDNKIESLPSP-LRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLD  192 (394)
T ss_pred             cceeEEecCCcccccCccccccchhhcccccc--cccchhhhhhh-hhccccccccccCCchhhhhhhhhhhhhhhhhee
Confidence            46888999999999998888 443 8999999  66777767544 4789999999999999999988766899999999


Q ss_pred             ccCcCCCCccc-cCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccc
Q 042164           85 LDWCQLEDVAA-IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD  163 (235)
Q Consensus        85 l~~~~l~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  163 (235)
                      +++|++..++. ......|.++.+++|.+...+..+.++.++..+.+..|+ ...++.. ++.+++++.+++++|.++..
T Consensus       193 ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~-~~~~~~~-~~~l~~l~~L~~s~n~i~~i  270 (394)
T COG4886         193 LSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNK-LEDLPES-IGNLSNLETLDLSNNQISSI  270 (394)
T ss_pred             ccCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCce-eeeccch-hccccccceecccccccccc
Confidence            99999998844 456677999999999777777778888899988888887 4443443 78888899999999998822


Q ss_pred             ccCCCCCccchhcccCCCccceeeecCCCCCCCccc
Q 042164          164 KVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW  199 (235)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~  199 (235)
                               .. ++...+++.+++++|.+..++...
T Consensus       271 ---------~~-~~~~~~l~~L~~s~n~~~~~~~~~  296 (394)
T COG4886         271 ---------SS-LGSLTNLRELDLSGNSLSNALPLI  296 (394)
T ss_pred             ---------cc-ccccCccCEEeccCccccccchhh
Confidence                     22 778889999999999887555444

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

Probab=99.15  E-value=3.3e-12  Score=99.81  Aligned_cols=181  Identities=17%  Similarity=0.144  Sum_probs=82.6

Q ss_pred             cCCCcEEecCCCCCC-----CCCCcC-CCCCccEEEeccCCCCCcc----cchh------hhhCCCCCcEEeecCccCCC
Q 042164            6 RKGPIAISLPQRDIQ-----ELPERL-QCPNLQLFLLFREGNGPMQ----ISDH------FFEGTEELKVLDFTGIHFSS   69 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-----~i~~~~-~l~~L~~L~l~~~~~~~~~----~~~~------~~~~~~~L~~L~l~~~~~~~   69 (235)
                      +..++.+++++|.+.     .+.+.+ ..++|+..++  .+.+.+.    +|+.      .+.+++.|++|+|++|-+..
T Consensus        29 ~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~--sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~  106 (382)
T KOG1909|consen   29 MDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNL--SDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGP  106 (382)
T ss_pred             cCceEEEeccCCchhHHHHHHHHHHHhhcccceeeeh--HhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCc
Confidence            456677777777764     233333 4445555555  3333332    1211      11344566666666665541


Q ss_pred             --CC---hhhcCCccCcEEeccCcCCCCc---------------cccCCCCCCcEEEecCCCCCCc-----chhhccCCC
Q 042164           70 --LP---SSLGRLINLQTLCLDWCQLEDV---------------AAIGQLKKLEILSFRGSNIKQL-----PLEIGQLTR  124 (235)
Q Consensus        70 --~~---~~l~~l~~L~~L~l~~~~l~~~---------------~~~~~l~~L~~L~l~~~~~~~~-----~~~~~~l~~  124 (235)
                        ++   +-+.++..|++|.+.+|.+...               ...+.-+.|+++....|++...     ...+...+.
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~  186 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPT  186 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccc
Confidence              21   1234455666666666655421               1233344555555555554421     122444455


Q ss_pred             CcEEcccCCcCCCC---CchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCC
Q 042164          125 LQLLDLSNCWSLEV---IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDA  192 (235)
Q Consensus       125 L~~L~l~~~~~~~~---~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~  192 (235)
                      |+.+.+..|.+-..   .-.+.+.+|++|+.|++..|-++..    ....+...+..+++|++|.++.|.+
T Consensus       187 leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~e----gs~~LakaL~s~~~L~El~l~dcll  253 (382)
T KOG1909|consen  187 LEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLE----GSVALAKALSSWPHLRELNLGDCLL  253 (382)
T ss_pred             cceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhH----HHHHHHHHhcccchheeeccccccc
Confidence            55555555542110   1122244555555555555544322    1122333444444555555554444

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

Probab=99.13  E-value=5.4e-12  Score=97.21  Aligned_cols=127  Identities=22%  Similarity=0.295  Sum_probs=86.2

Q ss_pred             cccCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcE
Q 042164            4 TIRKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQT   82 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~   82 (235)
                      ..++-++++|+++|.|+.|-+.. -.|.++.|++  +.+.+..+..  ++.+.+|+.||+++|.++.+...=..+-+.+.
T Consensus       281 dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~l--S~N~i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKt  356 (490)
T KOG1259|consen  281 DTWQELTELDLSGNLITQIDESVKLAPKLRRLIL--SQNRIRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNIKT  356 (490)
T ss_pred             chHhhhhhccccccchhhhhhhhhhccceeEEec--cccceeeehh--hhhcccceEeecccchhHhhhhhHhhhcCEee
Confidence            34556777777777777666655 5677777777  4444444443  35677777777777777665443456667777


Q ss_pred             EeccCcCCCCccccCCCCCCcEEEecCCCCCCc--chhhccCCCCcEEcccCCc
Q 042164           83 LCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQL--PLEIGQLTRLQLLDLSNCW  134 (235)
Q Consensus        83 L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~--~~~~~~l~~L~~L~l~~~~  134 (235)
                      |.+..|.++.+..++++.+|..||+.+|+|..+  ...++++|.|+++.+.+|+
T Consensus       357 L~La~N~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  357 LKLAQNKIETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNP  410 (490)
T ss_pred             eehhhhhHhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCC
Confidence            777777777777777777777777777777643  3347777777777777776

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

Probab=99.13  E-value=1.6e-11  Score=96.02  Aligned_cols=199  Identities=18%  Similarity=0.174  Sum_probs=127.9

Q ss_pred             CCCcEEecCCCC----CCCCCCcC--------CCCCccEEEeccCCCCCcccchh---hhhCCCCCcEEeecCccCCCCC
Q 042164            7 KGPIAISLPQRD----IQELPERL--------QCPNLQLFLLFREGNGPMQISDH---FFEGTEELKVLDFTGIHFSSLP   71 (235)
Q Consensus         7 ~~l~~L~l~~~~----l~~i~~~~--------~l~~L~~L~l~~~~~~~~~~~~~---~~~~~~~L~~L~l~~~~~~~~~   71 (235)
                      +++++.+++.-.    ...+|+..        .+++|++++| ++|.+-...++.   ++..+..|++|++.+|+++...
T Consensus        58 ~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldL-SDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~a  136 (382)
T KOG1909|consen   58 KELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDL-SDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEA  136 (382)
T ss_pred             ccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeec-cccccCccchHHHHHHHHhccCHHHHhhhcCCCChhH
Confidence            467777776432    22444432        6778999999 777765544432   3456788889999988886321


Q ss_pred             -----hh---------hcCCccCcEEeccCcCCCCc------cccCCCCCCcEEEecCCCCC--C---cchhhccCCCCc
Q 042164           72 -----SS---------LGRLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRGSNIK--Q---LPLEIGQLTRLQ  126 (235)
Q Consensus        72 -----~~---------l~~l~~L~~L~l~~~~l~~~------~~~~~l~~L~~L~l~~~~~~--~---~~~~~~~l~~L~  126 (235)
                           ..         ...=+.||++.+.+|.+..-      ..+...+.|+.+.+..|.|.  .   +...+..+++|+
T Consensus       137 g~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~Le  216 (382)
T KOG1909|consen  137 GGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLE  216 (382)
T ss_pred             HHHHHHHHHHHHHHhccCCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcce
Confidence                 11         22336788888888887632      56677788888888888776  2   234577888899


Q ss_pred             EEcccCCcCCCCCc---hhhhcCCCCCcEEEeccccccccccCCCCCccchhc-ccCCCccceeeecCCCCCC-----Cc
Q 042164          127 LLDLSNCWSLEVIP---PNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL-KGLSKLTTLNIQVPDAQIL-----PQ  197 (235)
Q Consensus       127 ~L~l~~~~~~~~~~---~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~-----p~  197 (235)
                      .||+++|.+...-.   ...++.++.|+++++++|.+...   | +......+ ...|+|++|.+.+|.++.-     ..
T Consensus       217 vLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~---G-a~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~  292 (382)
T KOG1909|consen  217 VLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENE---G-AIAFVDALKESAPSLEVLELAGNEITRDAALALAA  292 (382)
T ss_pred             eeecccchhhhHHHHHHHHHhcccchheeecccccccccc---c-HHHHHHHHhccCCCCceeccCcchhHHHHHHHHHH
Confidence            99998886432211   12367778888888888887633   2 12222222 2467888888888887511     11


Q ss_pred             cc-cccccceeEEE
Q 042164          198 EW-VFVELQSYRIC  210 (235)
Q Consensus       198 ~~-~~~~L~~l~l~  210 (235)
                      .. ..+.|..|++.
T Consensus       293 ~~~ek~dL~kLnLn  306 (382)
T KOG1909|consen  293 CMAEKPDLEKLNLN  306 (382)
T ss_pred             HHhcchhhHHhcCC
Confidence            11 55777888884

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.03  E-value=4.6e-10  Score=100.61  Aligned_cols=151  Identities=28%  Similarity=0.424  Sum_probs=117.1

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCC-CCcccchhhhhCCCCCcEEeecCcc-CCCCChhhcCCccCcEE
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGN-GPMQISDHFFEGTEELKVLDFTGIH-FSSLPSSLGRLINLQTL   83 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~-~~~~~~~~~~~~~~~L~~L~l~~~~-~~~~~~~l~~l~~L~~L   83 (235)
                      +..++++.+.++.+..++....++.|++|-+ ..+. ....++..+|..++.|++||+++|. +.++|..++.+.+||+|
T Consensus       522 ~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll-~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL  600 (889)
T KOG4658|consen  522 WNSVRRMSLMNNKIEHIAGSSENPKLRTLLL-QRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYL  600 (889)
T ss_pred             hhheeEEEEeccchhhccCCCCCCccceEEE-eecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcc
Confidence            3467889999999988888888889999998 4444 2677788888999999999999764 66799999999999999


Q ss_pred             eccCcCCCCc-cccCCCCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcC-C-CCCchhhhcCCCCCcEEEeccc
Q 042164           84 CLDWCQLEDV-AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWS-L-EVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus        84 ~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~-~-~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      +++++.+..+ ..++.++.|.+|++..+... .+|.....+.+|++|.+..... . ...-.+ +..+.+|+.+.....
T Consensus       601 ~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~e-l~~Le~L~~ls~~~~  678 (889)
T KOG4658|consen  601 DLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKE-LENLEHLENLSITIS  678 (889)
T ss_pred             cccCCCccccchHHHHHHhhheeccccccccccccchhhhcccccEEEeeccccccchhhHHh-hhcccchhhheeecc
Confidence            9999999988 88999999999999988544 5566667799999998876531 1 111122 455566666555433

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

Probab=98.96  E-value=7.6e-11  Score=98.42  Aligned_cols=28  Identities=14%  Similarity=0.143  Sum_probs=16.5

Q ss_pred             ccceeeecCCCCCCCccc-cccccceeEE
Q 042164          182 LTTLNIQVPDAQILPQEW-VFVELQSYRI  209 (235)
Q Consensus       182 L~~L~l~~n~~~~~p~~~-~~~~L~~l~l  209 (235)
                      |+.+++++|++..++..+ .+..+..+++
T Consensus       234 L~~l~l~~n~i~~~~~~~~~~~~l~~l~~  262 (414)
T KOG0531|consen  234 LRELYLSGNRISRSPEGLENLKNLPVLDL  262 (414)
T ss_pred             HHHHhcccCccccccccccccccccccch
Confidence            667777777776654222 5555555555

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

Probab=98.94  E-value=6.6e-12  Score=106.68  Aligned_cols=127  Identities=24%  Similarity=0.240  Sum_probs=95.4

Q ss_pred             CcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCC
Q 042164           57 LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSL  136 (235)
Q Consensus        57 L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~  136 (235)
                      |.+.+.++|.+..+...++-++.+++|++++|++..+..+..++.|++||+++|.+..+|.--..-.+|+.|.+++|. .
T Consensus       166 L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN~-l  244 (1096)
T KOG1859|consen  166 LATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNNA-L  244 (1096)
T ss_pred             HhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhhhheeeeecccH-H
Confidence            455566777777777778888888999999998888888888888999999998888777642222348888888887 4


Q ss_pred             CCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          137 EVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       137 ~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      ..+-.  +.++.+|+.|++++|-+.+.       .-+..+..+..|++|.|.||++.
T Consensus       245 ~tL~g--ie~LksL~~LDlsyNll~~h-------seL~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  245 TTLRG--IENLKSLYGLDLSYNLLSEH-------SELEPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             Hhhhh--HHhhhhhhccchhHhhhhcc-------hhhhHHHHHHHHHHHhhcCCccc
Confidence            44443  67788888888888877644       33455566677888888888874

>PLN03150 hypothetical protein; Provisional

Probab=98.90  E-value=6.3e-09  Score=91.01  Aligned_cols=81  Identities=27%  Similarity=0.425  Sum_probs=43.4

Q ss_pred             CcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEec
Q 042164           80 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD  156 (235)
Q Consensus        80 L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~  156 (235)
                      ++.|++++|.+.+.  ..++.+++|+.|++++|.+. .+|..++.+++|+.|++++|.+.+.+|.. ++.+++|+.|+++
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  498 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPES-LGQLTSLRILNLN  498 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchH-HhcCCCCCEEECc
Confidence            44555555555432  44555555555555555554 44555555555555555555544455544 5555555555555


Q ss_pred             ccccc
Q 042164          157 ISFSQ  161 (235)
Q Consensus       157 ~n~~~  161 (235)
                      +|.++
T Consensus       499 ~N~l~  503 (623)
T PLN03150        499 GNSLS  503 (623)
T ss_pred             CCccc
Confidence            55554

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

Probab=98.87  E-value=1.9e-10  Score=96.07  Aligned_cols=167  Identities=25%  Similarity=0.296  Sum_probs=118.9

Q ss_pred             CCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEe
Q 042164           28 CPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSF  107 (235)
Q Consensus        28 l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l  107 (235)
                      +..+..+.+  ..+.+...... ...+.+++.|++.+|.+..+...+..+++|+++++++|.+..+..+..+..|+.|++
T Consensus        71 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   71 LTSLKELNL--RQNLIAKILNH-LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNL  147 (414)
T ss_pred             hHhHHhhcc--chhhhhhhhcc-cccccceeeeeccccchhhcccchhhhhcchheeccccccccccchhhccchhhhee
Confidence            444555555  44444442322 367888999999999998876557889999999999999998888888888999999


Q ss_pred             cCCCCCCcchhhccCCCCcEEcccCCcCCCCCch-hhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCcccee
Q 042164          108 RGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPP-NVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLN  186 (235)
Q Consensus       108 ~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~  186 (235)
                      .+|.++.+.. +..++.|+.+++++|. +..+.. . ...+.+++.+++..|.+.          ....+.....+..++
T Consensus       148 ~~N~i~~~~~-~~~l~~L~~l~l~~n~-i~~ie~~~-~~~~~~l~~l~l~~n~i~----------~i~~~~~~~~l~~~~  214 (414)
T KOG0531|consen  148 SGNLISDISG-LESLKSLKLLDLSYNR-IVDIENDE-LSELISLEELDLGGNSIR----------EIEGLDLLKKLVLLS  214 (414)
T ss_pred             ccCcchhccC-CccchhhhcccCCcch-hhhhhhhh-hhhccchHHHhccCCchh----------cccchHHHHHHHHhh
Confidence            9999887643 3448889999999987 555544 2 367888999999998887          334444455566668


Q ss_pred             eecCCCCCCCccccccc--cceeEEE
Q 042164          187 IQVPDAQILPQEWVFVE--LQSYRIC  210 (235)
Q Consensus       187 l~~n~~~~~p~~~~~~~--L~~l~l~  210 (235)
                      +..|.+..+-.......  |+.+++.
T Consensus       215 l~~n~i~~~~~l~~~~~~~L~~l~l~  240 (414)
T KOG0531|consen  215 LLDNKISKLEGLNELVMLHLRELYLS  240 (414)
T ss_pred             cccccceeccCcccchhHHHHHHhcc
Confidence            88888764443322333  7777774

>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=98.85  E-value=2.4e-09  Score=64.47  Aligned_cols=58  Identities=33%  Similarity=0.497  Sum_probs=26.7

Q ss_pred             CCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccc
Q 042164          101 KLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF  159 (235)
Q Consensus       101 ~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~  159 (235)
                      +|++|++++|.++.+|. .|..+++|++|++++|. +..+++.++..+++|+++++++|+
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 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNN-LTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSS-ESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCc-cCccCHHHHcCCCCCCEEeCcCCc
Confidence            34444444444444443 24444455555555444 334444434444445555444443

...

>PLN03150 hypothetical protein; Provisional

Probab=98.85  E-value=9.3e-09  Score=89.96  Aligned_cols=102  Identities=21%  Similarity=0.280  Sum_probs=87.6

Q ss_pred             CCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccC
Q 042164          101 KLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGL  179 (235)
Q Consensus       101 ~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~  179 (235)
                      .++.|++++|.+. .+|..+..+++|+.|++++|.+.+.+|.. ++.+++|+.|++++|.+++.        ++..++.+
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~-~~~l~~L~~LdLs~N~lsg~--------iP~~l~~L  489 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPS-LGSITSLEVLDLSYNSFNGS--------IPESLGQL  489 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChH-HhCCCCCCEEECCCCCCCCC--------CchHHhcC
Confidence            3788999999998 78888999999999999999977889887 89999999999999999854        67788999


Q ss_pred             CCccceeeecCCCC-CCCccc--cccccceeEEEe
Q 042164          180 SKLTTLNIQVPDAQ-ILPQEW--VFVELQSYRICI  211 (235)
Q Consensus       180 ~~L~~L~l~~n~~~-~~p~~~--~~~~L~~l~l~~  211 (235)
                      ++|+.|+|++|.+. .+|..+  ...++..+++..
T Consensus       490 ~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~  524 (623)
T PLN03150        490 TSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTD  524 (623)
T ss_pred             CCCCEEECcCCcccccCChHHhhccccCceEEecC
Confidence            99999999999997 888876  234566777753

>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=98.83  E-value=3e-09  Score=64.02  Aligned_cols=61  Identities=30%  Similarity=0.334  Sum_probs=51.8

Q ss_pred             CCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCC
Q 042164          123 TRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDA  192 (235)
Q Consensus       123 ~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~  192 (235)
                      ++|+.|++++|+ +..++...+..+++|++|++++|.++..        ....+.++++|+.|++++|++
T Consensus         1 p~L~~L~l~~n~-l~~i~~~~f~~l~~L~~L~l~~N~l~~i--------~~~~f~~l~~L~~L~l~~N~l   61 (61)
T PF13855_consen    1 PNLESLDLSNNK-LTEIPPDSFSNLPNLETLDLSNNNLTSI--------PPDAFSNLPNLRYLDLSNNNL   61 (61)
T ss_dssp             TTESEEEETSST-ESEECTTTTTTGTTESEEEETSSSESEE--------ETTTTTTSTTESEEEETSSSB
T ss_pred             CcCcEEECCCCC-CCccCHHHHcCCCCCCEeEccCCccCcc--------CHHHHcCCCCCCEEeCcCCcC
Confidence            578899999997 7788877789999999999999998844        456788999999999999874

...

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.77  E-value=2.6e-09  Score=82.40  Aligned_cols=193  Identities=21%  Similarity=0.226  Sum_probs=115.3

Q ss_pred             CccEEEeccCCCCCcccch--hhhhCCCCCcEEeecCccCCC---CChhhcCCccCcEEeccCcCCCCc-ccc-CCCCCC
Q 042164           30 NLQLFLLFREGNGPMQISD--HFFEGTEELKVLDFTGIHFSS---LPSSLGRLINLQTLCLDWCQLEDV-AAI-GQLKKL  102 (235)
Q Consensus        30 ~L~~L~l~~~~~~~~~~~~--~~~~~~~~L~~L~l~~~~~~~---~~~~l~~l~~L~~L~l~~~~l~~~-~~~-~~l~~L  102 (235)
                      .++.+.+  .+..+....+  .+.+.+..++++|+.+|.++.   +...+..+|.|++|+++.|.+... ... ....+|
T Consensus        46 a~ellvl--n~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl  123 (418)
T KOG2982|consen   46 ALELLVL--NGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNL  123 (418)
T ss_pred             chhhhee--cCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccce
Confidence            3444555  3344433332  223567889999999999873   666678999999999999998854 555 477899


Q ss_pred             cEEEecCCCCC--CcchhhccCCCCcEEcccCCcCCCC-CchhhhcCC-CCCcEEEeccccccccccCCCCCccchhccc
Q 042164          103 EILSFRGSNIK--QLPLEIGQLTRLQLLDLSNCWSLEV-IPPNVISKL-SRLEELYMDISFSQWDKVEGGSNASLAELKG  178 (235)
Q Consensus       103 ~~L~l~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~l~~~-~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~  178 (235)
                      ++|-+.++.+.  .....+..+|.++.+++++|.+... +..+-.... +.+.++++..|...      .+.........
T Consensus       124 ~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~------~w~~~~~l~r~  197 (418)
T KOG2982|consen  124 RVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQ------LWLNKNKLSRI  197 (418)
T ss_pred             EEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhhccccccccccchhhhhhhcCCcHHH------HHHHHHhHHhh
Confidence            99999988655  5555678899999999999842110 111101222 24566666666443      11222333344


Q ss_pred             CCCccceeeecCCCCCCCccc---cccccceeEEEecccccccchhhhhhhhhcccc
Q 042164          179 LSKLTTLNIQVPDAQILPQEW---VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQ  232 (235)
Q Consensus       179 ~~~L~~L~l~~n~~~~~p~~~---~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~  232 (235)
                      +|++..+.+..|++++....-   .++.+..|.+...+  ++.|...+.+++++.|.
T Consensus       198 Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~--idswasvD~Ln~f~~l~  252 (418)
T KOG2982|consen  198 FPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANN--IDSWASVDALNGFPQLV  252 (418)
T ss_pred             cccchheeeecCcccchhhcccCCCCCcchhhhhcccc--cccHHHHHHHcCCchhh
Confidence            566666666666665444433   44444444442222  33555555555555544

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.75  E-value=7.7e-09  Score=92.92  Aligned_cols=159  Identities=25%  Similarity=0.344  Sum_probs=117.8

Q ss_pred             CCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCcc--CCCCCh-hhcCCccCcEEeccCcC-CCCc-
Q 042164           19 IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH--FSSLPS-SLGRLINLQTLCLDWCQ-LEDV-   93 (235)
Q Consensus        19 l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~--~~~~~~-~l~~l~~L~~L~l~~~~-l~~~-   93 (235)
                      ...+|...+....+...+  .++.+..++..  ..++.|+.|-+..|.  +..++. .|..++.|++|++++|. +..+ 
T Consensus       513 ~~~~~~~~~~~~~rr~s~--~~~~~~~~~~~--~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP  588 (889)
T KOG4658|consen  513 LSEIPQVKSWNSVRRMSL--MNNKIEHIAGS--SENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLP  588 (889)
T ss_pred             ccccccccchhheeEEEE--eccchhhccCC--CCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCC
Confidence            334666666777888888  66666666654  356689999998886  556654 47889999999999876 5567 


Q ss_pred             cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccc
Q 042164           94 AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASL  173 (235)
Q Consensus        94 ~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~  173 (235)
                      ..++.+-+|++|+++.+.+..+|..++++++|.+|++..+.....+ +.+...+.+|++|.+......      ......
T Consensus       589 ~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~-~~i~~~L~~Lr~L~l~~s~~~------~~~~~l  661 (889)
T KOG4658|consen  589 SSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESI-PGILLELQSLRVLRLPRSALS------NDKLLL  661 (889)
T ss_pred             hHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccc-cchhhhcccccEEEeeccccc------cchhhH
Confidence            8899999999999999999999999999999999999988744444 444667999999998776532      112234


Q ss_pred             hhcccCCCccceeee
Q 042164          174 AELKGLSKLTTLNIQ  188 (235)
Q Consensus       174 ~~~~~~~~L~~L~l~  188 (235)
                      ..+..+++|+.+...
T Consensus       662 ~el~~Le~L~~ls~~  676 (889)
T KOG4658|consen  662 KELENLEHLENLSIT  676 (889)
T ss_pred             Hhhhcccchhhheee
Confidence            444555555555443

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

Probab=98.74  E-value=2.1e-10  Score=97.82  Aligned_cols=122  Identities=21%  Similarity=0.295  Sum_probs=93.5

Q ss_pred             cCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecc
Q 042164           79 NLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI  157 (235)
Q Consensus        79 ~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  157 (235)
                      .|.+.++++|.+..+ .++.-++.++.|+++.|+++... .+..+++|++||+++|. ...+|.---..| +|..|.+.+
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-LRHVPQLSMVGC-KLQLLNLRN  241 (1096)
T ss_pred             hHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccch-hccccccchhhh-hheeeeecc
Confidence            455566777777766 77777888999999999988664 67889999999999997 666664211233 499999999


Q ss_pred             ccccccccCCCCCccchhcccCCCccceeeecCCCC---CCCccccccccceeEEEeccc
Q 042164          158 SFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ---ILPQEWVFVELQSYRICIGNK  214 (235)
Q Consensus       158 n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~---~~p~~~~~~~L~~l~l~~~~~  214 (235)
                      |.++          .+..+.++.+|+.||++.|-+.   .+-.-+.+..|+.|++. ||.
T Consensus       242 N~l~----------tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~Le-GNP  290 (1096)
T KOG1859|consen  242 NALT----------TLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLE-GNP  290 (1096)
T ss_pred             cHHH----------hhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhc-CCc
Confidence            9887          5677888999999999999875   44444478889999995 444

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

Probab=98.71  E-value=1.6e-10  Score=89.05  Aligned_cols=155  Identities=19%  Similarity=0.200  Sum_probs=86.7

Q ss_pred             CCCcEEeecCccCC--CCChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCC-CCCCc--chhhccCCCCcE
Q 042164           55 EELKVLDFTGIHFS--SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGS-NIKQL--PLEIGQLTRLQL  127 (235)
Q Consensus        55 ~~L~~L~l~~~~~~--~~~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~-~~~~~--~~~~~~l~~L~~  127 (235)
                      ..|+.+|+++..++  .+...+..|.+|+.+.+.++.+.+-  ..++.-..|+.++++.+ .++..  .-.+.+|..|..
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            34778888877776  3555667778888888888887743  66777777888888776 55533  234677788888


Q ss_pred             EcccCCcCCCCCchhhhcC-CCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCC-CC-CCCccc-cccc
Q 042164          128 LDLSNCWSLEVIPPNVISK-LSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPD-AQ-ILPQEW-VFVE  203 (235)
Q Consensus       128 L~l~~~~~~~~~~~~~l~~-~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~-~~-~~p~~~-~~~~  203 (235)
                      |++++|....+....+..+ -++|..|++++.+-.-     .......-...+|+|.+|||+.|. ++ ++-..+ .|+.
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl-----~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~  339 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNL-----QKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNY  339 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhh-----hhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcch
Confidence            8888775433221111111 2455566665542110     001122233455666666665443 22 222222 5555


Q ss_pred             cceeEEEeccc
Q 042164          204 LQSYRICIGNK  214 (235)
Q Consensus       204 L~~l~l~~~~~  214 (235)
                      |+++.++.|-.
T Consensus       340 L~~lSlsRCY~  350 (419)
T KOG2120|consen  340 LQHLSLSRCYD  350 (419)
T ss_pred             heeeehhhhcC
Confidence            55555554443

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

Probab=98.66  E-value=6e-10  Score=85.90  Aligned_cols=175  Identities=22%  Similarity=0.235  Sum_probs=117.7

Q ss_pred             CCCcEEecCCCCCC--CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCc-cCCC--CChhhcCCccC
Q 042164            7 KGPIAISLPQRDIQ--ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGI-HFSS--LPSSLGRLINL   80 (235)
Q Consensus         7 ~~l~~L~l~~~~l~--~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~~~~--~~~~l~~l~~L   80 (235)
                      ..++++|+++..|+  .+-... .|.+|+.+.+ ........+... +++-..|+.|+++++ +++.  +.-.+..|+.|
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSl-Eg~~LdD~I~~~-iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L  262 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSL-EGLRLDDPIVNT-IAKNSNLVRLNLSMCSGFTENALQLLLSSCSRL  262 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccc-cccccCcHHHHH-HhccccceeeccccccccchhHHHHHHHhhhhH
Confidence            35788888888876  232333 7888888888 444333444444 477888999999876 4664  33457889999


Q ss_pred             cEEeccCcCCC-Cc--cccC-CCCCCcEEEecCCCCC----CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcE
Q 042164           81 QTLCLDWCQLE-DV--AAIG-QLKKLEILSFRGSNIK----QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEE  152 (235)
Q Consensus        81 ~~L~l~~~~l~-~~--~~~~-~l~~L~~L~l~~~~~~----~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~  152 (235)
                      ..|++++|.+. +.  ..+. --++|+.|+++++.-.    .+..-..++++|.+||+++|-.+..--...+-+.+-|++
T Consensus       263 ~~LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~  342 (419)
T KOG2120|consen  263 DELNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQH  342 (419)
T ss_pred             hhcCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchhee
Confidence            99999999865 22  2222 2357888888887422    333335678999999999885333322334777888999


Q ss_pred             EEeccccccccccCCCCCccchhcccCCCccceeeecC
Q 042164          153 LYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVP  190 (235)
Q Consensus       153 L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n  190 (235)
                      +.++.|..-       .+...-.++..|.|.+|++.|+
T Consensus       343 lSlsRCY~i-------~p~~~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  343 LSLSRCYDI-------IPETLLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             eehhhhcCC-------ChHHeeeeccCcceEEEEeccc
Confidence            998888543       2345556777888999988875

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

Probab=98.55  E-value=4.2e-09  Score=72.31  Aligned_cols=116  Identities=19%  Similarity=0.259  Sum_probs=71.8

Q ss_pred             CcEEeccCcCCCCc----cccCCCCCCcEEEecCCCCCCcchhhcc-CCCCcEEcccCCcCCCCCchhhhcCCCCCcEEE
Q 042164           80 LQTLCLDWCQLEDV----AAIGQLKKLEILSFRGSNIKQLPLEIGQ-LTRLQLLDLSNCWSLEVIPPNVISKLSRLEELY  154 (235)
Q Consensus        80 L~~L~l~~~~l~~~----~~~~~l~~L~~L~l~~~~~~~~~~~~~~-l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~  154 (235)
                      +..+++++|.+-.+    ..+.....|..+++++|.+..+|+.|.. .+.++.+++++|. +.++|.+ +..+++|+.++
T Consensus        29 ~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~ne-isdvPeE-~Aam~aLr~lN  106 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNE-ISDVPEE-LAAMPALRSLN  106 (177)
T ss_pred             hhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhh-hhhchHH-HhhhHHhhhcc
Confidence            33444444443322    3344455566677777777777766553 3467777777777 6777777 77777777777


Q ss_pred             eccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccce
Q 042164          155 MDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQS  206 (235)
Q Consensus       155 l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~  206 (235)
                      ++.|.+.         ..+..+..+.++-.|+..+|....+|-....+.+..
T Consensus       107 l~~N~l~---------~~p~vi~~L~~l~~Lds~~na~~eid~dl~~s~~~a  149 (177)
T KOG4579|consen  107 LRFNPLN---------AEPRVIAPLIKLDMLDSPENARAEIDVDLFYSSLPA  149 (177)
T ss_pred             cccCccc---------cchHHHHHHHhHHHhcCCCCccccCcHHHhccccHH
Confidence            7777766         234555556667777777777776666654444433

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.53  E-value=3e-08  Score=76.72  Aligned_cols=197  Identities=17%  Similarity=0.101  Sum_probs=95.6

Q ss_pred             CCcEEecCCCCCCCCCC---cC-CCCCccEEEeccCCCCCc-ccchhhhhCCCCCcEEeecCccCC--CCChhhcCCccC
Q 042164            8 GPIAISLPQRDIQELPE---RL-QCPNLQLFLLFREGNGPM-QISDHFFEGTEELKVLDFTGIHFS--SLPSSLGRLINL   80 (235)
Q Consensus         8 ~l~~L~l~~~~l~~i~~---~~-~l~~L~~L~l~~~~~~~~-~~~~~~~~~~~~L~~L~l~~~~~~--~~~~~l~~l~~L   80 (235)
                      .++++++.+|.|+...+   .. ++|+|++|++  +++.+. .+.... ....+|++|-+.++.+.  .....+..+|.+
T Consensus        72 ~v~elDL~~N~iSdWseI~~ile~lP~l~~LNl--s~N~L~s~I~~lp-~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~v  148 (418)
T KOG2982|consen   72 DVKELDLTGNLISDWSEIGAILEQLPALTTLNL--SCNSLSSDIKSLP-LPLKNLRVLVLNGTGLSWTQSTSSLDDLPKV  148 (418)
T ss_pred             hhhhhhcccchhccHHHHHHHHhcCccceEeec--cCCcCCCccccCc-ccccceEEEEEcCCCCChhhhhhhhhcchhh
Confidence            45555566665553222   22 5566666666  333222 221110 23455566666555543  233334455555


Q ss_pred             cEEeccCcCCCCc----cccCCCC-CCcEEEecCCCCC---CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcE
Q 042164           81 QTLCLDWCQLEDV----AAIGQLK-KLEILSFRGSNIK---QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEE  152 (235)
Q Consensus        81 ~~L~l~~~~l~~~----~~~~~l~-~L~~L~l~~~~~~---~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~  152 (235)
                      +.+.++.|.+..+    .....+. .++++....|...   ..-......+++..+.+..|++.+.-...-....+.+.-
T Consensus       149 telHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~  228 (418)
T KOG2982|consen  149 TELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSC  228 (418)
T ss_pred             hhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccCCCCCcchh
Confidence            5555555533211    1111111 2333333333221   111111234555555566665322222222344556667


Q ss_pred             EEeccccccccccCCCCCccchhcccCCCccceeeecCCCCC-----CCccccccccceeEEEeccc
Q 042164          153 LYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQI-----LPQEWVFVELQSYRICIGNK  214 (235)
Q Consensus       153 L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-----~p~~~~~~~L~~l~l~~~~~  214 (235)
                      |+++.+.+.+-       +....+.+++.|+.|.++.+++.+     .+..+...+|..+++..|..
T Consensus       229 LnL~~~~idsw-------asvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGsk  288 (418)
T KOG2982|consen  229 LNLGANNIDSW-------ASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGSK  288 (418)
T ss_pred             hhhcccccccH-------HHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCcc
Confidence            77777776522       456677888999999999988752     22223556677777755553

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

Probab=98.48  E-value=4e-08  Score=86.28  Aligned_cols=147  Identities=21%  Similarity=0.266  Sum_probs=87.9

Q ss_pred             ccCCCcEEecCCCCCC--CCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccC
Q 042164            5 IRKGPIAISLPQRDIQ--ELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINL   80 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~--~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L   80 (235)
                      ...+|++|+++|...-  ..|...  .+|.|++|.+ ++-.....--..++..+++|..||+++++++.+ .+++.+++|
T Consensus       120 sr~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i-~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknL  197 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVI-SGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNL  197 (699)
T ss_pred             HHHhhhhcCccccchhhccHHHHHhhhCcccceEEe-cCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccH
Confidence            3457788888875431  222222  6888888888 332222211122346778888888888888777 457788888


Q ss_pred             cEEeccCcCCCCc---cccCCCCCCcEEEecCCCCCCcc-------hhhccCCCCcEEcccCCcCCCCCchhhhcCCCCC
Q 042164           81 QTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLP-------LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRL  150 (235)
Q Consensus        81 ~~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~~~-------~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L  150 (235)
                      +.|.+.+=.+...   ..+..+++|+.||+|.......+       +....+|.|+.||.+++.+...+-...+..-++|
T Consensus       198 q~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L  277 (699)
T KOG3665|consen  198 QVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNL  277 (699)
T ss_pred             HHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccH
Confidence            8887777666532   66667888888888876544222       1223467777777776654444433333333444


Q ss_pred             cEE
Q 042164          151 EEL  153 (235)
Q Consensus       151 ~~L  153 (235)
                      +.+
T Consensus       278 ~~i  280 (699)
T KOG3665|consen  278 QQI  280 (699)
T ss_pred             hhh
Confidence            443

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

Probab=98.48  E-value=2.6e-07  Score=51.32  Aligned_cols=40  Identities=33%  Similarity=0.516  Sum_probs=26.3

Q ss_pred             CCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccc
Q 042164           56 ELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAA   95 (235)
Q Consensus        56 ~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~   95 (235)
                      +|++|++++|.++.+|+.+..|++|++|++++|.+++++.
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            5677777777777776667777777777777777665533

...

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

Probab=98.48  E-value=3.1e-07  Score=67.25  Aligned_cols=120  Identities=18%  Similarity=0.242  Sum_probs=81.2

Q ss_pred             cEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhc-CCccCcEEeccC
Q 042164           10 IAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLG-RLINLQTLCLDW   87 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~-~l~~L~~L~l~~   87 (235)
                      +++++.+..+..+.... -..+...+++  .++.+..++.  |..++.|.+|.+++|.|+.+.+.+. -+++|..|.+.+
T Consensus        22 ~e~~LR~lkip~ienlg~~~d~~d~iDL--tdNdl~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~Ltn   97 (233)
T KOG1644|consen   22 RELDLRGLKIPVIENLGATLDQFDAIDL--TDNDLRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTN   97 (233)
T ss_pred             cccccccccccchhhccccccccceecc--cccchhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecC
Confidence            45667766666554432 4556667777  5555554444  5677888888888888887655443 457788888888


Q ss_pred             cCCCCc---cccCCCCCCcEEEecCCCCCCcc----hhhccCCCCcEEcccCC
Q 042164           88 CQLEDV---AAIGQLKKLEILSFRGSNIKQLP----LEIGQLTRLQLLDLSNC  133 (235)
Q Consensus        88 ~~l~~~---~~~~~l~~L~~L~l~~~~~~~~~----~~~~~l~~L~~L~l~~~  133 (235)
                      |.+.++   ..+..+++|++|.+-+|.++.-.    -.+..+|+|+.||+..-
T Consensus        98 Nsi~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen   98 NSIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             cchhhhhhcchhccCCccceeeecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            887755   66667778888888888776322    13567778888887764

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

Probab=98.41  E-value=1.7e-08  Score=69.38  Aligned_cols=90  Identities=21%  Similarity=0.288  Sum_probs=56.3

Q ss_pred             hCCCCCcEEeecCccCCCCChhhc-CCccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEc
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLG-RLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD  129 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~-~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~  129 (235)
                      .....|...+|++|.+..+|+.|. .++.++.+++.+|.++++ ..+..++.|+.++++.|.+...|+.+..+.++.+|+
T Consensus        50 ~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   50 SKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             hCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhc
Confidence            445555666666666666665553 344666666666666666 446666666666676666666666655566666776


Q ss_pred             ccCCcCCCCCchh
Q 042164          130 LSNCWSLEVIPPN  142 (235)
Q Consensus       130 l~~~~~~~~~~~~  142 (235)
                      ..+|. ...++-+
T Consensus       130 s~~na-~~eid~d  141 (177)
T KOG4579|consen  130 SPENA-RAEIDVD  141 (177)
T ss_pred             CCCCc-cccCcHH
Confidence            66665 5555544

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

Probab=98.39  E-value=7.4e-07  Score=65.30  Aligned_cols=104  Identities=23%  Similarity=0.262  Sum_probs=52.4

Q ss_pred             cCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhc-cCCCCcEEcccCCcC--CCCCchhhhcCCCCCcEEEe
Q 042164           79 NLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIG-QLTRLQLLDLSNCWS--LEVIPPNVISKLSRLEELYM  155 (235)
Q Consensus        79 ~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~-~l~~L~~L~l~~~~~--~~~~~~~~l~~~~~L~~L~l  155 (235)
                      +...+++.+|.+..+..+..+++|.+|.++.|+|+.+.+.+. .+++|..|.+.+|.+  ++++.+  +..||+|+.|.+
T Consensus        43 ~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~p--La~~p~L~~Ltl  120 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDP--LASCPKLEYLTL  120 (233)
T ss_pred             ccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcch--hccCCccceeee
Confidence            445555555555555555555556666666665555444332 234555555555542  233333  455556666665


Q ss_pred             ccccccccccCCCCCccchhcccCCCccceeeec
Q 042164          156 DISFSQWDKVEGGSNASLAELKGLSKLTTLNIQV  189 (235)
Q Consensus       156 ~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  189 (235)
                      -+|.++..     ...-...+..+|+|+.||+++
T Consensus       121 l~Npv~~k-----~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  121 LGNPVEHK-----KNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             cCCchhcc-----cCceeEEEEecCcceEeehhh
Confidence            55555421     112233444555666655543

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

Probab=98.34  E-value=2.7e-07  Score=70.64  Aligned_cols=201  Identities=14%  Similarity=0.091  Sum_probs=124.7

Q ss_pred             ccCCCcEEecCCCCCC-----CCCCcC-CCCCccEEEeccCCCCCccc----chh------hhhCCCCCcEEeecCccCC
Q 042164            5 IRKGPIAISLPQRDIQ-----ELPERL-QCPNLQLFLLFREGNGPMQI----SDH------FFEGTEELKVLDFTGIHFS   68 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~-----~i~~~~-~l~~L~~L~l~~~~~~~~~~----~~~------~~~~~~~L~~L~l~~~~~~   68 (235)
                      .+..++.+++++|.|.     .+...+ .-.+|+..++  ...+++..    +..      .+-+|+.|+.+++++|.|+
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnf--sd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg  105 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNF--SDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFG  105 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeeh--hhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccC
Confidence            3678899999999986     233333 6677777777  44444332    221      2357889999999999887


Q ss_pred             C-CChh----hcCCccCcEEeccCcCCCCc---------------cccCCCCCCcEEEecCCCCCCcchh-----hccCC
Q 042164           69 S-LPSS----LGRLINLQTLCLDWCQLEDV---------------AAIGQLKKLEILSFRGSNIKQLPLE-----IGQLT  123 (235)
Q Consensus        69 ~-~~~~----l~~l~~L~~L~l~~~~l~~~---------------~~~~~l~~L~~L~l~~~~~~~~~~~-----~~~l~  123 (235)
                      . .|+.    +..-..|.+|.+++|.+..+               .....-+.|++.....|++...+..     +..-.
T Consensus       106 ~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~sh~  185 (388)
T COG5238         106 SEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLESHE  185 (388)
T ss_pred             cccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHhhc
Confidence            3 5543    45567899999999987643               1233457788888888887754432     33335


Q ss_pred             CCcEEcccCCcCCCC----CchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-----C
Q 042164          124 RLQLLDLSNCWSLEV----IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-----I  194 (235)
Q Consensus       124 ~L~~L~l~~~~~~~~----~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-----~  194 (235)
                      .|+.+-+..|.+.-.    +...-+..+.+|+.|+++.|-++-.    ........+..++.|++|.+..|-++     .
T Consensus       186 ~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~----gS~~La~al~~W~~lrEL~lnDClls~~G~~~  261 (388)
T COG5238         186 NLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLE----GSRYLADALCEWNLLRELRLNDCLLSNEGVKS  261 (388)
T ss_pred             CceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhh----hHHHHHHHhcccchhhhccccchhhccccHHH
Confidence            677777777763211    1111145667888888888877622    11223345556677788877777654     1


Q ss_pred             CCccc---cccccceeEEEe
Q 042164          195 LPQEW---VFVELQSYRICI  211 (235)
Q Consensus       195 ~p~~~---~~~~L~~l~l~~  211 (235)
                      +-..+   .+++|..|...+
T Consensus       262 v~~~f~e~~~p~l~~L~~~Y  281 (388)
T COG5238         262 VLRRFNEKFVPNLMPLPGDY  281 (388)
T ss_pred             HHHHhhhhcCCCccccccch
Confidence            11111   556666666543

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

Probab=98.26  E-value=6.5e-07  Score=78.81  Aligned_cols=152  Identities=23%  Similarity=0.221  Sum_probs=103.0

Q ss_pred             CCCCcEEeecCccC-CCC-Chhh-cCCccCcEEeccCcCCC--Cc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcE
Q 042164           54 TEELKVLDFTGIHF-SSL-PSSL-GRLINLQTLCLDWCQLE--DV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQL  127 (235)
Q Consensus        54 ~~~L~~L~l~~~~~-~~~-~~~l-~~l~~L~~L~l~~~~l~--~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~  127 (235)
                      -.+|+.|++++... ..- |..+ .-+|+|+.|.+.+-.+.  ++ ....++++|..||+++++++.+ ..++++++|+.
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~  199 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQV  199 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHH
Confidence            47789999988543 221 2223 45899999999887755  44 6667889999999999999877 56788999999


Q ss_pred             EcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccc--ccccc
Q 042164          128 LDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW--VFVEL  204 (235)
Q Consensus       128 L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~--~~~~L  204 (235)
                      |.+.+-.+.....-..+-++++|+.||+|........  .........-..+|+||-||.|++.+. .+-..+  ..++|
T Consensus       200 L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~--~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L  277 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDT--KIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNL  277 (699)
T ss_pred             HhccCCCCCchhhHHHHhcccCCCeeeccccccccch--HHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccH
Confidence            9888766433222222678899999999987665220  111122344456899999999988775 333333  55555


Q ss_pred             ceeE
Q 042164          205 QSYR  208 (235)
Q Consensus       205 ~~l~  208 (235)
                      +.+.
T Consensus       278 ~~i~  281 (699)
T KOG3665|consen  278 QQIA  281 (699)
T ss_pred             hhhh
Confidence            5554

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

Probab=98.17  E-value=3.1e-06  Score=46.97  Aligned_cols=33  Identities=39%  Similarity=0.538  Sum_probs=13.1

Q ss_pred             CcEEEecCCCCCCcchhhccCCCCcEEcccCCc
Q 042164          102 LEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCW  134 (235)
Q Consensus       102 L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~  134 (235)
                      |++|++++|+++.+|+.++++++|+.|++++|+
T Consensus         3 L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    3 LEELDLSNNQITDLPPELSNLPNLETLNLSNNP   35 (44)
T ss_dssp             -SEEEETSSS-SSHGGHGTTCTTSSEEEETSSC
T ss_pred             ceEEEccCCCCcccCchHhCCCCCCEEEecCCC
Confidence            344444444444443334444444444444443

...

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

Probab=98.14  E-value=3.3e-06  Score=64.87  Aligned_cols=136  Identities=20%  Similarity=0.208  Sum_probs=71.7

Q ss_pred             CCCCCcEEeecCccCCC-----CChhhcCCccCcEEeccCcCCC----Cc--------cccCCCCCCcEEEecCCCCC-C
Q 042164           53 GTEELKVLDFTGIHFSS-----LPSSLGRLINLQTLCLDWCQLE----DV--------AAIGQLKKLEILSFRGSNIK-Q  114 (235)
Q Consensus        53 ~~~~L~~L~l~~~~~~~-----~~~~l~~l~~L~~L~l~~~~l~----~~--------~~~~~l~~L~~L~l~~~~~~-~  114 (235)
                      .+..+..+++++|.|+.     +...+..-.+|+..+++.-...    ++        +++.+|++|+.++++.|.+. .
T Consensus        28 ~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~~  107 (388)
T COG5238          28 MMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGSE  107 (388)
T ss_pred             hhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCcc
Confidence            45666667777776652     2223444456666666553322    11        55666677777777777665 3


Q ss_pred             cchh----hccCCCCcEEcccCCcCCCCCchhh-------------hcCCCCCcEEEeccccccccccCCCCCccchhcc
Q 042164          115 LPLE----IGQLTRLQLLDLSNCWSLEVIPPNV-------------ISKLSRLEELYMDISFSQWDKVEGGSNASLAELK  177 (235)
Q Consensus       115 ~~~~----~~~l~~L~~L~l~~~~~~~~~~~~~-------------l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~  177 (235)
                      +|+.    +.+-..|.||.+++|+ .|.+...-             .+.-|.|+.+....|++...    ........+.
T Consensus       108 ~~e~L~d~is~~t~l~HL~l~NnG-lGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRleng----s~~~~a~~l~  182 (388)
T COG5238         108 FPEELGDLISSSTDLVHLKLNNNG-LGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENG----SKELSAALLE  182 (388)
T ss_pred             cchHHHHHHhcCCCceeEEeecCC-CCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccC----cHHHHHHHHH
Confidence            4432    3445567777777665 44432211             23455667776666665422    1112223334


Q ss_pred             cCCCccceeeecCCCC
Q 042164          178 GLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       178 ~~~~L~~L~l~~n~~~  193 (235)
                      ...+|..+.+..|.++
T Consensus       183 sh~~lk~vki~qNgIr  198 (388)
T COG5238         183 SHENLKEVKIQQNGIR  198 (388)
T ss_pred             hhcCceeEEeeecCcC
Confidence            4445555555555554

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.07  E-value=1.8e-07  Score=71.77  Aligned_cols=105  Identities=27%  Similarity=0.362  Sum_probs=56.6

Q ss_pred             CccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCch-hhhcCCCCCcEEEe
Q 042164           77 LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPP-NVISKLSRLEELYM  155 (235)
Q Consensus        77 l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~l~~~~~L~~L~l  155 (235)
                      +.+.+.|++-+|.+.++.....++.|+.|.++-|.|+++. .+..|.+|++|.+..|. +..+.+ ..+.++++|+.|++
T Consensus        18 l~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN~-I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKNC-IESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHHhhhhcccCCCccHHHHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhcc-cccHHHHHHHhcCchhhhHhh
Confidence            4445555666666666555556666666666666666552 24556666666666665 333332 23556666666666


Q ss_pred             ccccccccccCCCCCccchhcccCCCcccee
Q 042164          156 DISFSQWDKVEGGSNASLAELKGLSKLTTLN  186 (235)
Q Consensus       156 ~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~  186 (235)
                      ..|.=-+.   +....-...+..+|+|++||
T Consensus        96 ~ENPCc~~---ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   96 DENPCCGE---AGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             ccCCcccc---cchhHHHHHHHHcccchhcc
Confidence            66543311   11122334455566666665

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.98  E-value=3e-05  Score=63.75  Aligned_cols=132  Identities=18%  Similarity=0.271  Sum_probs=80.2

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCc-cCCCCChhhcCCccCcEEec
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGI-HFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~~~~~~~~l~~l~~L~~L~l   85 (235)
                      .++++|++++|.++.+|.  -..+|++|.+ ..+.....+|..+   ..+|+.|++++| .+..+|.      +|+.|.+
T Consensus        52 ~~l~~L~Is~c~L~sLP~--LP~sLtsL~L-snc~nLtsLP~~L---P~nLe~L~Ls~Cs~L~sLP~------sLe~L~L  119 (426)
T PRK15386         52 RASGRLYIKDCDIESLPV--LPNELTEITI-ENCNNLTTLPGSI---PEGLEKLTVCHCPEISGLPE------SVRSLEI  119 (426)
T ss_pred             cCCCEEEeCCCCCcccCC--CCCCCcEEEc-cCCCCcccCCchh---hhhhhheEccCccccccccc------ccceEEe
Confidence            678899999999998883  2457999999 6667666666532   468899999988 5666664      3566666


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCC---CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIK---QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~---~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      ..+....+..+  .++|+.|.+..+...   .++.  .-.++|++|++++|. ....|.. +  ..+|+.|.++.+
T Consensus       120 ~~n~~~~L~~L--PssLk~L~I~~~n~~~~~~lp~--~LPsSLk~L~Is~c~-~i~LP~~-L--P~SLk~L~ls~n  187 (426)
T PRK15386        120 KGSATDSIKNV--PNGLTSLSINSYNPENQARIDN--LISPSLKTLSLTGCS-NIILPEK-L--PESLQSITLHIE  187 (426)
T ss_pred             CCCCCcccccC--cchHhheecccccccccccccc--ccCCcccEEEecCCC-cccCccc-c--cccCcEEEeccc
Confidence            55544333211  124666666433211   1121  012467788877776 3333332 1  146777777654

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

Probab=97.85  E-value=7.6e-05  Score=51.71  Aligned_cols=115  Identities=16%  Similarity=0.337  Sum_probs=42.4

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCc
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLE  103 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~  103 (235)
                      ++.+|+.+.+  .. ....++...|..+..++.+.+..+ +..++ ..|..+++++.+.+.. .+..+  ..+..+..++
T Consensus        10 ~~~~l~~i~~--~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~   84 (129)
T PF13306_consen   10 NCSNLESITF--PN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLK   84 (129)
T ss_dssp             T-TT--EEEE--TS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTEC
T ss_pred             CCCCCCEEEE--CC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccccc
Confidence            4556666665  32 233455555566656666666553 44433 2345555566666644 33322  4444555566


Q ss_pred             EEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCC
Q 042164          104 ILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRL  150 (235)
Q Consensus       104 ~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L  150 (235)
                      .+.+..+ +..++.. +.++ .++.+.+..+  ...++...+.++++|
T Consensus        85 ~i~~~~~-~~~i~~~~f~~~-~l~~i~~~~~--~~~i~~~~F~~~~~l  128 (129)
T PF13306_consen   85 NIDIPSN-ITEIGSSSFSNC-NLKEINIPSN--ITKIEENAFKNCTKL  128 (129)
T ss_dssp             EEEETTT--BEEHTTTTTT--T--EEE-TTB---SS----GGG-----
T ss_pred             ccccCcc-ccEEchhhhcCC-CceEEEECCC--ccEECCccccccccC
Confidence            6655443 3333322 4444 5555555432  333444444444443

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.75  E-value=1.4e-06  Score=67.04  Aligned_cols=99  Identities=23%  Similarity=0.336  Sum_probs=75.6

Q ss_pred             CCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhccc
Q 042164           99 LKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKG  178 (235)
Q Consensus        99 l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~  178 (235)
                      +.+.+.|+.+++.++.+. ....++.|+.|.++-|+ +..+.+  +..|++|++|.|..|.|...       .-++-+.+
T Consensus        18 l~~vkKLNcwg~~L~DIs-ic~kMp~lEVLsLSvNk-IssL~p--l~rCtrLkElYLRkN~I~sl-------dEL~YLkn   86 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDIS-ICEKMPLLEVLSLSVNK-ISSLAP--LQRCTRLKELYLRKNCIESL-------DELEYLKN   86 (388)
T ss_pred             HHHhhhhcccCCCccHHH-HHHhcccceeEEeeccc-cccchh--HHHHHHHHHHHHHhcccccH-------HHHHHHhc
Confidence            456778899999888653 34578999999999998 666655  78899999999999988744       45677888


Q ss_pred             CCCccceeeecCCCC-CCCccc------cccccceeE
Q 042164          179 LSKLTTLNIQVPDAQ-ILPQEW------VFVELQSYR  208 (235)
Q Consensus       179 ~~~L~~L~l~~n~~~-~~p~~~------~~~~L~~l~  208 (235)
                      +|+|+.|.|..|+-. .-+...      .+|+|+.|+
T Consensus        87 lpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   87 LPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             CchhhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            999999999988853 333222      677888776

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

Probab=97.71  E-value=0.00015  Score=50.18  Aligned_cols=106  Identities=19%  Similarity=0.329  Sum_probs=58.6

Q ss_pred             cchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcch-hhcc
Q 042164           46 ISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQ  121 (235)
Q Consensus        46 ~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~  121 (235)
                      +++..|..+..|+.+.+.. .+..++ ..|..+++|+.+.+..+ +..+  ..+..+.+++.+.+.. .+..++. .+..
T Consensus         3 i~~~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~   79 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSN   79 (129)
T ss_dssp             E-TTTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT
T ss_pred             ECHHHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccc
Confidence            4566678888888888875 455554 34677778888888774 6655  6677777788888865 4444433 3666


Q ss_pred             CCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecc
Q 042164          122 LTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI  157 (235)
Q Consensus       122 l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  157 (235)
                      +++++.+.+..+  ...++...+.++ +++.+.+..
T Consensus        80 ~~~l~~i~~~~~--~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   80 CTNLKNIDIPSN--ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             -TTECEEEETTT---BEEHTTTTTT--T--EEE-TT
T ss_pred             cccccccccCcc--ccEEchhhhcCC-CceEEEECC
Confidence            778888877654  445555556666 777777654

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.65  E-value=0.00026  Score=58.38  Aligned_cols=72  Identities=22%  Similarity=0.302  Sum_probs=50.2

Q ss_pred             hCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcC-CCCcc-ccCCCCCCcEEEecCC-CCCCcchhhccCCCCcEE
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQ-LEDVA-AIGQLKKLEILSFRGS-NIKQLPLEIGQLTRLQLL  128 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~-l~~~~-~~~~l~~L~~L~l~~~-~~~~~~~~~~~l~~L~~L  128 (235)
                      ..+.+++.|++++|.++.+|.   --.+|+.|.+.+|. +..++ .+  ..+|+.|+++.| .+..+|.      +|+.|
T Consensus        49 ~~~~~l~~L~Is~c~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP~------sLe~L  117 (426)
T PRK15386         49 EEARASGRLYIKDCDIESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLPE------SVRSL  117 (426)
T ss_pred             HHhcCCCEEEeCCCCCcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccccccc------ccceE
Confidence            357889999999999888872   12369999998865 44442 23  358999999988 6656653      45566


Q ss_pred             cccCCc
Q 042164          129 DLSNCW  134 (235)
Q Consensus       129 ~l~~~~  134 (235)
                      ++..+.
T Consensus       118 ~L~~n~  123 (426)
T PRK15386        118 EIKGSA  123 (426)
T ss_pred             EeCCCC
Confidence            665543

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

Probab=97.55  E-value=3.5e-05  Score=58.83  Aligned_cols=102  Identities=25%  Similarity=0.329  Sum_probs=53.2

Q ss_pred             hCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCC---Cc-cccCCCCCCcEEEecCCCCCCcc--hhhccCCCC
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLE---DV-AAIGQLKKLEILSFRGSNIKQLP--LEIGQLTRL  125 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~---~~-~~~~~l~~L~~L~l~~~~~~~~~--~~~~~l~~L  125 (235)
                      ..+..|+.|.+.+..++.+. .+..+++|+.|.++.|...   ++ .....+++|+++++++|.+..+.  ..+..+.+|
T Consensus        40 d~~~~le~ls~~n~gltt~~-~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL  118 (260)
T KOG2739|consen   40 DEFVELELLSVINVGLTTLT-NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENL  118 (260)
T ss_pred             ccccchhhhhhhccceeecc-cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcch
Confidence            34455555555555555432 2445667777777776322   33 22334467777777777665221  224455666


Q ss_pred             cEEcccCCcCCCCC--chhhhcCCCCCcEEE
Q 042164          126 QLLDLSNCWSLEVI--PPNVISKLSRLEELY  154 (235)
Q Consensus       126 ~~L~l~~~~~~~~~--~~~~l~~~~~L~~L~  154 (235)
                      ..|++..|.....-  -+.++.-+++|..++
T Consensus       119 ~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD  149 (260)
T KOG2739|consen  119 KSLDLFNCSVTNLDDYREKVFLLLPSLKYLD  149 (260)
T ss_pred             hhhhcccCCccccccHHHHHHHHhhhhcccc
Confidence            66666666532211  123344555555554

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

Probab=97.53  E-value=4.1e-05  Score=58.41  Aligned_cols=123  Identities=20%  Similarity=0.204  Sum_probs=84.4

Q ss_pred             CCcEEecCCCCCC--CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCc--cCC-CCChhhcCCccCc
Q 042164            8 GPIAISLPQRDIQ--ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGI--HFS-SLPSSLGRLINLQ   81 (235)
Q Consensus         8 ~l~~L~l~~~~l~--~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~--~~~-~~~~~l~~l~~L~   81 (235)
                      +++.+.+.++.-.  .+.... ....|+.+.+  .+....++..  |-.+++|+.|.++.|  ++. .++.....+|+|+
T Consensus        19 ~v~~l~lD~~~s~~g~~~gl~d~~~~le~ls~--~n~gltt~~~--~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~   94 (260)
T KOG2739|consen   19 QVDELFLDNARSGAGKLGGLTDEFVELELLSV--INVGLTTLTN--FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLK   94 (260)
T ss_pred             hhhhhhcchhhhcCCCcccccccccchhhhhh--hccceeeccc--CCCcchhhhhcccCCcccccccceehhhhCCcee
Confidence            3445555544332  244444 5667777776  4444443433  467889999999999  444 3555556779999


Q ss_pred             EEeccCcCCCCc---cccCCCCCCcEEEecCCCCCCc--c--hhhccCCCCcEEcccCCc
Q 042164           82 TLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQL--P--LEIGQLTRLQLLDLSNCW  134 (235)
Q Consensus        82 ~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~~--~--~~~~~l~~L~~L~l~~~~  134 (235)
                      +++++.|+++.+   ..+..+.+|..|++..|..+.+  +  ..|.-+++|.+|+-.+..
T Consensus        95 ~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv~  154 (260)
T KOG2739|consen   95 VLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDVD  154 (260)
T ss_pred             EEeecCCccccccccchhhhhcchhhhhcccCCccccccHHHHHHHHhhhhccccccccC
Confidence            999999998866   5566677888999999977633  2  236778999999877654

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

Probab=96.97  E-value=5.1e-05  Score=61.67  Aligned_cols=199  Identities=18%  Similarity=0.127  Sum_probs=106.2

Q ss_pred             CCcEEecCCCCCC---CCCCcC-CCCCccEEEeccCCCCCcccc-hhhhhCCCCCcEEeecCc-cCCCC--ChhhcCCcc
Q 042164            8 GPIAISLPQRDIQ---ELPERL-QCPNLQLFLLFREGNGPMQIS-DHFFEGTEELKVLDFTGI-HFSSL--PSSLGRLIN   79 (235)
Q Consensus         8 ~l~~L~l~~~~l~---~i~~~~-~l~~L~~L~l~~~~~~~~~~~-~~~~~~~~~L~~L~l~~~-~~~~~--~~~l~~l~~   79 (235)
                      .++.|++.|+.=.   .+.... .+++++.|.+ ..+..+.+.. .++-..++.|++|++..| .++..  -.....+++
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l-~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~k  217 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLAL-YGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRK  217 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhh-hcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhh
Confidence            4677888887633   233333 7888888888 5665544322 222346788888888874 45532  223457889


Q ss_pred             CcEEeccCcC-CC--Cc-cccCCCCCCcEEEecCC---------------------------CCCCcc--hhhccCCCCc
Q 042164           80 LQTLCLDWCQ-LE--DV-AAIGQLKKLEILSFRGS---------------------------NIKQLP--LEIGQLTRLQ  126 (235)
Q Consensus        80 L~~L~l~~~~-l~--~~-~~~~~l~~L~~L~l~~~---------------------------~~~~~~--~~~~~l~~L~  126 (235)
                      |.++++++|. ++  ++ .....++.++.+...++                           .++...  ..-..+..|+
T Consensus       218 L~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq  297 (483)
T KOG4341|consen  218 LKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQ  297 (483)
T ss_pred             HHHhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhh
Confidence            9999998886 43  23 22223333333322222                           122111  1112355666


Q ss_pred             EEcccCCcCCCCCchh-hhcCCCCCcEEEecccc-ccccccCCCCCccch-hcccCCCccceeeecCCCCC---CCccc-
Q 042164          127 LLDLSNCWSLEVIPPN-VISKLSRLEELYMDISF-SQWDKVEGGSNASLA-ELKGLSKLTTLNIQVPDAQI---LPQEW-  199 (235)
Q Consensus       127 ~L~l~~~~~~~~~~~~-~l~~~~~L~~L~l~~n~-~~~~~~~~~~~~~~~-~~~~~~~L~~L~l~~n~~~~---~p~~~-  199 (235)
                      .++.+.+...+..+-+ ...++.+|+.+-+..+. ++.        .... .-.+++.|+.+++.++....   +-.-. 
T Consensus       298 ~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd--------~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~  369 (483)
T KOG4341|consen  298 VLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSD--------RGFTMLGRNCPHLERLDLEECGLITDGTLASLSR  369 (483)
T ss_pred             hhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhh--------hhhhhhhcCChhhhhhcccccceehhhhHhhhcc
Confidence            6666665433333322 23456677777776664 221        1112 22356777777777765431   11111 


Q ss_pred             cccccceeEEEecccc
Q 042164          200 VFVELQSYRICIGNKW  215 (235)
Q Consensus       200 ~~~~L~~l~l~~~~~~  215 (235)
                      .++.|+.+.++.+...
T Consensus       370 ~C~~lr~lslshce~i  385 (483)
T KOG4341|consen  370 NCPRLRVLSLSHCELI  385 (483)
T ss_pred             CCchhccCChhhhhhh
Confidence            7777777777644433

>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=96.52  E-value=0.0011  Score=30.70  Aligned_cols=21  Identities=38%  Similarity=0.721  Sum_probs=14.8

Q ss_pred             CCcEEeecCccCCCCChhhcC
Q 042164           56 ELKVLDFTGIHFSSLPSSLGR   76 (235)
Q Consensus        56 ~L~~L~l~~~~~~~~~~~l~~   76 (235)
                      +|++|++++|.++.+|+.|+.
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            467788888887777765543

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

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

Probab=96.39  E-value=0.0018  Score=27.86  Aligned_cols=17  Identities=29%  Similarity=0.430  Sum_probs=9.1

Q ss_pred             CCccceeeecCCCCCCC
Q 042164          180 SKLTTLNIQVPDAQILP  196 (235)
Q Consensus       180 ~~L~~L~l~~n~~~~~p  196 (235)
                      ++|+.|++++|.++.+|
T Consensus         1 ~~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             TT-SEEEETSS--SSE-
T ss_pred             CccCEEECCCCCCCCCc
Confidence            45777777777776655

...

>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=95.70  E-value=0.0046  Score=28.50  Aligned_cols=16  Identities=38%  Similarity=0.748  Sum_probs=7.2

Q ss_pred             CcEEEecCCCCCCcch
Q 042164          102 LEILSFRGSNIKQLPL  117 (235)
Q Consensus       102 L~~L~l~~~~~~~~~~  117 (235)
                      |++|++++|.++.+|.
T Consensus         2 L~~Ldls~n~l~~ip~   17 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPS   17 (22)
T ss_dssp             ESEEEETSSEESEEGT
T ss_pred             ccEEECCCCcCEeCCh
Confidence            3444444444444443

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 ....

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.95  E-value=0.0054  Score=45.46  Aligned_cols=82  Identities=21%  Similarity=0.171  Sum_probs=50.8

Q ss_pred             CCcEEEecCCCCCCcc-hhhccCCCCcEEcccCCcCCCCCchhhhcC-CCCCcEEEeccc-cccccccCCCCCccchhcc
Q 042164          101 KLEILSFRGSNIKQLP-LEIGQLTRLQLLDLSNCWSLEVIPPNVISK-LSRLEELYMDIS-FSQWDKVEGGSNASLAELK  177 (235)
Q Consensus       101 ~L~~L~l~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~-~~~L~~L~l~~n-~~~~~~~~~~~~~~~~~~~  177 (235)
                      .++.++.+++.|.... ..+.+++.++.|.+.+|+..+..--+-+++ .++|+.|++++| +|++        ..++.+.
T Consensus       102 ~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~--------~GL~~L~  173 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITD--------GGLACLL  173 (221)
T ss_pred             eEEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeech--------hHHHHHH
Confidence            3566777776666332 346667777777777776555443332333 367788888766 4552        3667777


Q ss_pred             cCCCccceeeecC
Q 042164          178 GLSKLTTLNIQVP  190 (235)
Q Consensus       178 ~~~~L~~L~l~~n  190 (235)
                      .+++|+.|.+.+-
T Consensus       174 ~lknLr~L~l~~l  186 (221)
T KOG3864|consen  174 KLKNLRRLHLYDL  186 (221)
T ss_pred             HhhhhHHHHhcCc
Confidence            7777777777653

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

Probab=94.91  E-value=0.014  Score=49.74  Aligned_cols=106  Identities=22%  Similarity=0.283  Sum_probs=45.1

Q ss_pred             CCCCcEEeecCcc-CCC--CChhhcCCccCcEEeccCc-C-CC--C--c-cccCCCCCCcEEEecCCC-CCCc--chhhc
Q 042164           54 TEELKVLDFTGIH-FSS--LPSSLGRLINLQTLCLDWC-Q-LE--D--V-AAIGQLKKLEILSFRGSN-IKQL--PLEIG  120 (235)
Q Consensus        54 ~~~L~~L~l~~~~-~~~--~~~~l~~l~~L~~L~l~~~-~-l~--~--~-~~~~~l~~L~~L~l~~~~-~~~~--~~~~~  120 (235)
                      ++.|+.|.+..+. +..  +-.....++.|+.++++++ . ..  .  . .....+++++.++++.+. ++..  .....
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            4555555555442 222  2233445555555555542 1 11  1  0 222234555555555554 3311  11122


Q ss_pred             cCCCCcEEcccCCc-CCCCCchhhhcCCCCCcEEEecccc
Q 042164          121 QLTRLQLLDLSNCW-SLEVIPPNVISKLSRLEELYMDISF  159 (235)
Q Consensus       121 ~l~~L~~L~l~~~~-~~~~~~~~~l~~~~~L~~L~l~~n~  159 (235)
                      .+++|+.|.+..|. +...--..+...++.|++|+++++.
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~  306 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCH  306 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCc
Confidence            35555555555443 1222122223445556666655543

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

Probab=94.50  E-value=0.021  Score=47.02  Aligned_cols=205  Identities=16%  Similarity=0.109  Sum_probs=110.8

Q ss_pred             cCCCcEEecCCCC-CC--CCCCcC-CCCCccEEEeccCCCCCcc-cchhhhhCCCCCcEEeecCcc-CCCC--ChhhcCC
Q 042164            6 RKGPIAISLPQRD-IQ--ELPERL-QCPNLQLFLLFREGNGPMQ-ISDHFFEGTEELKVLDFTGIH-FSSL--PSSLGRL   77 (235)
Q Consensus         6 ~~~l~~L~l~~~~-l~--~i~~~~-~l~~L~~L~l~~~~~~~~~-~~~~~~~~~~~L~~L~l~~~~-~~~~--~~~l~~l   77 (235)
                      .+++.+++++.|. ++  .+.... +++.++.+.+ +.|..... .-...-..+..+-.+++..|. ++..  ...-..+
T Consensus       215 C~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~-kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c  293 (483)
T KOG4341|consen  215 CRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSL-KGCLELELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGC  293 (483)
T ss_pred             hhhHHHhhhccCchhhcCcchHHhccchhhhhhhh-cccccccHHHHHHHhccChHhhccchhhhccccchHHHHHhhhh
Confidence            4577888888885 33  343334 6777777777 44433221 000111234445555655552 3321  1222456


Q ss_pred             ccCcEEeccCcC-CCC-c--cccCCCCCCcEEEecCCC-CC--CcchhhccCCCCcEEcccCCcCCCCC-chhhhcCCCC
Q 042164           78 INLQTLCLDWCQ-LED-V--AAIGQLKKLEILSFRGSN-IK--QLPLEIGQLTRLQLLDLSNCWSLEVI-PPNVISKLSR  149 (235)
Q Consensus        78 ~~L~~L~l~~~~-l~~-~--~~~~~l~~L~~L~l~~~~-~~--~~~~~~~~l~~L~~L~l~~~~~~~~~-~~~~l~~~~~  149 (235)
                      ..|+++..+++. +.. +  .-..+.++|+++.+..++ ++  .+...-.+++.|+.+++.++..+... -...-.+++.
T Consensus       294 ~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~  373 (483)
T KOG4341|consen  294 HALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPR  373 (483)
T ss_pred             hHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCCch
Confidence            778888877765 332 2  333466788888888874 44  22222346778888888887532221 1122356778


Q ss_pred             CcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC--CCCccc-cccccceeEEEeccc
Q 042164          150 LEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ--ILPQEW-VFVELQSYRICIGNK  214 (235)
Q Consensus       150 L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~--~~p~~~-~~~~L~~l~l~~~~~  214 (235)
                      |+++.++++..-..  .| ..........+..+..+.++.++..  ..-+.. .+++|+++++-.+..
T Consensus       374 lr~lslshce~itD--~g-i~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~  438 (483)
T KOG4341|consen  374 LRVLSLSHCELITD--EG-IRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQD  438 (483)
T ss_pred             hccCChhhhhhhhh--hh-hhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhh
Confidence            88888887753211  00 0111122234567778888877653  222222 777888877754443

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

Probab=94.42  E-value=0.023  Score=48.36  Aligned_cols=129  Identities=20%  Similarity=0.190  Sum_probs=83.4

Q ss_pred             cCCccCcEEeccCcC-CCC--c-cccCCCCCCcEEEecCC--CCCCc----chhhccCCCCcEEcccCCcCCCCCchhhh
Q 042164           75 GRLINLQTLCLDWCQ-LED--V-AAIGQLKKLEILSFRGS--NIKQL----PLEIGQLTRLQLLDLSNCWSLEVIPPNVI  144 (235)
Q Consensus        75 ~~l~~L~~L~l~~~~-l~~--~-~~~~~l~~L~~L~l~~~--~~~~~----~~~~~~l~~L~~L~l~~~~~~~~~~~~~l  144 (235)
                      ..++.|+.+.+..+. +..  + .....++.|+.++++.+  .+...    ......+++|+.++++.+..+++..-..+
T Consensus       185 ~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l  264 (482)
T KOG1947|consen  185 SSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSAL  264 (482)
T ss_pred             hhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHH
Confidence            347888888888775 443  4 56667888999999873  22211    22345678899999998874444433323


Q ss_pred             c-CCCCCcEEEecccc-ccccccCCCCCccchhcccCCCccceeeecCCCC---CCCccc-cccccceeEEE
Q 042164          145 S-KLSRLEELYMDISF-SQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ---ILPQEW-VFVELQSYRIC  210 (235)
Q Consensus       145 ~-~~~~L~~L~l~~n~-~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~---~~p~~~-~~~~L~~l~l~  210 (235)
                      + .|++|++|.+..+. ++..       .+......+++|++|+++++..-   .+.... .+++++.+.+.
T Consensus       265 ~~~c~~L~~L~l~~c~~lt~~-------gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~  329 (482)
T KOG1947|consen  265 ASRCPNLETLSLSNCSNLTDE-------GLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLL  329 (482)
T ss_pred             HhhCCCcceEccCCCCccchh-------HHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhh
Confidence            3 48899999977776 4522       44556667888999999977642   122222 66666666653

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

Probab=94.20  E-value=0.028  Score=26.88  Aligned_cols=20  Identities=25%  Similarity=0.396  Sum_probs=16.4

Q ss_pred             CCCccceeeecCCCCCCCcc
Q 042164          179 LSKLTTLNIQVPDAQILPQE  198 (235)
Q Consensus       179 ~~~L~~L~l~~n~~~~~p~~  198 (235)
                      +++|+.|+|++|.++.+|..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            36788899999998888875

>smart00370 LRR Leucine-rich repeats, outliers

Probab=94.20  E-value=0.028  Score=26.88  Aligned_cols=20  Identities=25%  Similarity=0.396  Sum_probs=16.4

Q ss_pred             CCCccceeeecCCCCCCCcc
Q 042164          179 LSKLTTLNIQVPDAQILPQE  198 (235)
Q Consensus       179 ~~~L~~L~l~~n~~~~~p~~  198 (235)
                      +++|+.|+|++|.++.+|..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHH
Confidence            36788899999998888875

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=94.09  E-value=0.00039  Score=59.00  Aligned_cols=179  Identities=20%  Similarity=0.178  Sum_probs=94.6

Q ss_pred             CcEEecCCCCCCCC-----CCcC-CCCCccEEEeccCCCCCcccchhh---hhCC-CCCcEEeecCccCCC-----CChh
Q 042164            9 PIAISLPQRDIQEL-----PERL-QCPNLQLFLLFREGNGPMQISDHF---FEGT-EELKVLDFTGIHFSS-----LPSS   73 (235)
Q Consensus         9 l~~L~l~~~~l~~i-----~~~~-~l~~L~~L~l~~~~~~~~~~~~~~---~~~~-~~L~~L~l~~~~~~~-----~~~~   73 (235)
                      +..+.+.+|.+..-     .... ...+|..+++ .+++....-...+   +... +.+++|++..|.++.     +.+.
T Consensus        89 l~~L~L~~~~l~~~~~~~l~~~l~t~~~L~~L~l-~~n~l~~~g~~~l~~~l~~~~~~l~~L~l~~c~l~~~g~~~l~~~  167 (478)
T KOG4308|consen   89 LLHLSLANNRLGDRGAEELAQALKTLPTLGQLDL-SGNNLGDEGARLLCEGLRLPQCLLQTLELVSCSLTSEGAAPLAAV  167 (478)
T ss_pred             HHHhhhhhCccccchHHHHHHHhcccccHhHhhc-ccCCCccHhHHHHHhhcccchHHHHHHHhhcccccccchHHHHHH
Confidence            45666666666521     1112 5666666777 4444332111111   1111 445666666666552     2344


Q ss_pred             hcCCccCcEEeccCcCCCCc------cccC----CCCCCcEEEecCCCCC-----CcchhhccCCC-CcEEcccCCcCCC
Q 042164           74 LGRLINLQTLCLDWCQLEDV------AAIG----QLKKLEILSFRGSNIK-----QLPLEIGQLTR-LQLLDLSNCWSLE  137 (235)
Q Consensus        74 l~~l~~L~~L~l~~~~l~~~------~~~~----~l~~L~~L~l~~~~~~-----~~~~~~~~l~~-L~~L~l~~~~~~~  137 (235)
                      +....+++.+++..|.+...      ..+.    ...++++|.+.++.++     .+...+...+. ++.+++..|+ ++
T Consensus       168 L~~~~~l~~l~l~~n~l~~~g~~~l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~~~~~~~~el~l~~n~-l~  246 (478)
T KOG4308|consen  168 LEKNEHLTELDLSLNGLIELGLLVLSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLASGESLLRELDLASNK-LG  246 (478)
T ss_pred             HhcccchhHHHHHhcccchhhhHHHhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHhccchhhHHHHHHhcC-cc
Confidence            55566777777777765311      2222    3556777777777665     12223444444 5667777776 33


Q ss_pred             CCc-h---hhhcCC-CCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          138 VIP-P---NVISKL-SRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       138 ~~~-~---~~l~~~-~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      +.. .   ..+..+ +++++++++.|.++..    ........+..++.++++.++.|++.
T Consensus       247 d~g~~~L~~~l~~~~~~l~~l~l~~nsi~~~----~~~~L~~~l~~~~~l~~l~l~~n~l~  303 (478)
T KOG4308|consen  247 DVGVEKLLPCLSVLSETLRVLDLSRNSITEK----GVRDLAEVLVSCRQLEELSLSNNPLT  303 (478)
T ss_pred             hHHHHHHHHHhcccchhhhhhhhhcCCcccc----chHHHHHHHhhhHHHHHhhcccCccc
Confidence            321 1   113444 5567777777777633    22234455556667777777777764

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

Probab=92.99  E-value=0.0018  Score=49.14  Aligned_cols=83  Identities=16%  Similarity=0.086  Sum_probs=43.5

Q ss_pred             hCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcc
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL  130 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l  130 (235)
                      ..+...+.||++.|..-.+...++.+..+..++++.|.+... ..++....+..++...|..+..|..++..+.+++++.
T Consensus        39 ~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~  118 (326)
T KOG0473|consen   39 ASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQ  118 (326)
T ss_pred             hccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcchhhh
Confidence            344555555555555544444455555555555555555444 4444444455555555555555555555555555555


Q ss_pred             cCCc
Q 042164          131 SNCW  134 (235)
Q Consensus       131 ~~~~  134 (235)
                      -.+.
T Consensus       119 k~~~  122 (326)
T KOG0473|consen  119 KKTE  122 (326)
T ss_pred             ccCc
Confidence            5544

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.61  E-value=0.041  Score=40.92  Aligned_cols=76  Identities=21%  Similarity=0.310  Sum_probs=31.4

Q ss_pred             CcEEeecCccCCCCC-hhhcCCccCcEEeccCcCC-CC--ccccC-CCCCCcEEEecCC-CCCCcc-hhhccCCCCcEEc
Q 042164           57 LKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQL-ED--VAAIG-QLKKLEILSFRGS-NIKQLP-LEIGQLTRLQLLD  129 (235)
Q Consensus        57 L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l-~~--~~~~~-~l~~L~~L~l~~~-~~~~~~-~~~~~l~~L~~L~  129 (235)
                      ++.+|-+++.|.... +.+..++.++.+.+.+|.. ..  +..++ -.++|+.|++++| +|++.. ..+..+++|+.|+
T Consensus       103 IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~  182 (221)
T KOG3864|consen  103 IEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLH  182 (221)
T ss_pred             EEEEecCCchHHHHHHHHHhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHH
Confidence            344444444443221 3344455555555555541 11  12221 2345555555544 344221 2244444555444


Q ss_pred             ccC
Q 042164          130 LSN  132 (235)
Q Consensus       130 l~~  132 (235)
                      +.+
T Consensus       183 l~~  185 (221)
T KOG3864|consen  183 LYD  185 (221)
T ss_pred             hcC
Confidence            443

>KOG4308 consensus LRR-containing protein [Function unknown]

Probab=90.52  E-value=0.0046  Score=52.64  Aligned_cols=154  Identities=23%  Similarity=0.204  Sum_probs=100.2

Q ss_pred             cCCCcEEecCCCCCCC-----CCCcC-CC-CCccEEEeccCCCCCcc----cchhhhhCCCCCcEEeecCccCCC-----
Q 042164            6 RKGPIAISLPQRDIQE-----LPERL-QC-PNLQLFLLFREGNGPMQ----ISDHFFEGTEELKVLDFTGIHFSS-----   69 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~-----i~~~~-~l-~~L~~L~l~~~~~~~~~----~~~~~~~~~~~L~~L~l~~~~~~~-----   69 (235)
                      ...+..|++++|.+..     +.+.. .. +.++.|.+ ..+.....    +.+.+ .....+++++++.|.+..     
T Consensus       114 ~~~L~~L~l~~n~l~~~g~~~l~~~l~~~~~~l~~L~l-~~c~l~~~g~~~l~~~L-~~~~~l~~l~l~~n~l~~~g~~~  191 (478)
T KOG4308|consen  114 LPTLGQLDLSGNNLGDEGARLLCEGLRLPQCLLQTLEL-VSCSLTSEGAAPLAAVL-EKNEHLTELDLSLNGLIELGLLV  191 (478)
T ss_pred             cccHhHhhcccCCCccHhHHHHHhhcccchHHHHHHHh-hcccccccchHHHHHHH-hcccchhHHHHHhcccchhhhHH
Confidence            4577889999998861     22222 33 56777777 45444332    22332 447888999999888741     


Q ss_pred             CChhhc----CCccCcEEeccCcCCCCc------cccCCCCC-CcEEEecCCCCC-----CcchhhccC-CCCcEEcccC
Q 042164           70 LPSSLG----RLINLQTLCLDWCQLEDV------AAIGQLKK-LEILSFRGSNIK-----QLPLEIGQL-TRLQLLDLSN  132 (235)
Q Consensus        70 ~~~~l~----~l~~L~~L~l~~~~l~~~------~~~~~l~~-L~~L~l~~~~~~-----~~~~~~~~l-~~L~~L~l~~  132 (235)
                      ++..+.    ...+++++.+.+|.+...      ..+...++ +..+++..|.+.     .+.+.+..+ +.+++++++.
T Consensus       192 l~~~l~~~~~~~~~le~L~L~~~~~t~~~c~~l~~~l~~~~~~~~el~l~~n~l~d~g~~~L~~~l~~~~~~l~~l~l~~  271 (478)
T KOG4308|consen  192 LSQALESAASPLSSLETLKLSRCGVTSSSCALLDEVLASGESLLRELDLASNKLGDVGVEKLLPCLSVLSETLRVLDLSR  271 (478)
T ss_pred             HhhhhhhhhcccccHHHHhhhhcCcChHHHHHHHHHHhccchhhHHHHHHhcCcchHHHHHHHHHhcccchhhhhhhhhc
Confidence            223333    477899999999987732      55555665 667888888776     233445566 6788999999


Q ss_pred             CcCCCCCc---hhhhcCCCCCcEEEecccccc
Q 042164          133 CWSLEVIP---PNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       133 ~~~~~~~~---~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      |.+...-.   .+.+..++.++++.++.|.+.
T Consensus       272 nsi~~~~~~~L~~~l~~~~~l~~l~l~~n~l~  303 (478)
T KOG4308|consen  272 NSITEKGVRDLAEVLVSCRQLEELSLSNNPLT  303 (478)
T ss_pred             CCccccchHHHHHHHhhhHHHHHhhcccCccc
Confidence            87433221   233667778888888888765

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=88.51  E-value=0.26  Score=23.60  Aligned_cols=18  Identities=28%  Similarity=0.440  Sum_probs=14.8

Q ss_pred             CCccceeeecCCCCCCCc
Q 042164          180 SKLTTLNIQVPDAQILPQ  197 (235)
Q Consensus       180 ~~L~~L~l~~n~~~~~p~  197 (235)
                      ++|+.|++++|.++++|.
T Consensus         2 ~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        2 PSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             cccceeecCCCccccCcc
Confidence            467888899998888886

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

Probab=86.99  E-value=0.017  Score=44.05  Aligned_cols=84  Identities=10%  Similarity=0.038  Sum_probs=64.9

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cccCCCCCCcEE
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEIL  105 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L  105 (235)
                      ...+.+.|++  ..+........ |+.+..+..|+++.|.+..+|..+.+...++.+....|..+.. .+++..++++++
T Consensus        40 ~~kr~tvld~--~s~r~vn~~~n-~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~  116 (326)
T KOG0473|consen   40 SFKRVTVLDL--SSNRLVNLGKN-FSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKN  116 (326)
T ss_pred             ccceeeeehh--hhhHHHhhccc-hHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcchh
Confidence            6777888888  44444445544 4777888888888888888888888888888888888887766 778888888888


Q ss_pred             EecCCCCC
Q 042164          106 SFRGSNIK  113 (235)
Q Consensus       106 ~l~~~~~~  113 (235)
                      +.-.+.+.
T Consensus       117 e~k~~~~~  124 (326)
T KOG0473|consen  117 EQKKTEFF  124 (326)
T ss_pred             hhccCcch
Confidence            88888755

>smart00365 LRR_SD22 Leucine-rich repeat, SDS22-like subfamily

Probab=82.98  E-value=1.2  Score=21.39  Aligned_cols=17  Identities=18%  Similarity=0.309  Sum_probs=12.8

Q ss_pred             CCCcEEecCCCCCCCCC
Q 042164            7 KGPIAISLPQRDIQELP   23 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~   23 (235)
                      .+|+.|++++|.|+.|.
T Consensus         2 ~~L~~L~L~~NkI~~IE   18 (26)
T smart00365        2 TNLEELDLSQNKIKKIE   18 (26)
T ss_pred             CccCEEECCCCccceec
Confidence            57788888888887554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	235
4fcg_A	328	Structure Of The Leucine-Rich Repeat Domain Of The		6e-05

>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii Effector Xcv3220 (Xopl) Length = 328

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 45/151 (29%), Positives = 68/151 (45%), Gaps = 26/151 (17%)
Query: 52  EGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGS 110
           E  E L   D +G H          L+NLQ+L L+W  +  + A+I  L+ L+ L  R S
Sbjct: 165 ELPEPLASTDASGEHQG--------LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNS 216
Query: 111 NIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPN----------VISKLSRLEELYMDIS-F 159
            +  L   I  L +L+ LDL  C +L   PP           ++   S L  L +DI   
Sbjct: 217 PLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRL 276
Query: 160 SQWDKVEGGSNASLAELKGLSKLTTLNIQVP 190
           +Q +K++      L     LS+L +L  Q+P
Sbjct: 277 TQLEKLD------LRGCVNLSRLPSLIAQLP 301

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	235
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	6e-19
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-16
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-17
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-15
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	9e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-15
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-15
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-13
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	7e-08
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	7e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-14
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-14
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-14
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-10
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	8e-09
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-08
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	8e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	4e-09
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-09
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-13
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-09
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-07
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-12
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-11
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	3e-11
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	6e-11
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-11
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	5e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-12
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-10
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-11
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-11
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-11
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-09
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-11
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-06
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-11
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	6e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-08
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	9e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-10
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-10
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-09
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-08
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-10
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-09
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	8e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-10
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	1e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	1e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	3e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	8e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	7e-08
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	8e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-06
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	6e-10
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-05
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-08
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-08
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-09
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-08
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-09
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	3e-09
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	5e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-09
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	5e-09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	8e-08
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	5e-07
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	7e-09
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	6e-08
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	7e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	9e-05
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-07
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-06
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-05
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	8e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-05
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-05
3m19_A	251	Variable lymphocyte receptor A diversity region; a	2e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	7e-06
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	5e-06
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	5e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	5e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	6e-06
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-05
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	8e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	3e-05
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	5e-05
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	6e-05
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	8e-05
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	9e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	3e-04
3e6j_A	229	Variable lymphocyte receptor diversity region; var	2e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	7e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	8e-04

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

 Score = 81.1 bits (201), Expect = 2e-18
 Identities = 29/103 (28%), Positives = 48/103 (46%), Gaps = 4/103 (3%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWC-QLEDV-AAIGQLKKLEILSFRGSN-IK 113
           LK L       S+L  ++  L  L+ L L  C  L +     G    L+ L  +  + + 
Sbjct: 208 LKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLL 267

Query: 114 QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
            LPL+I +LT+L+ LDL  C +L  +P   I++L     + + 
Sbjct: 268 TLPLDIHRLTQLEKLDLRGCVNLSRLPSL-IAQLPANCIILVP 309

>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 = 80.8 bits (200), Expect = 3e-18
 Identities = 38/144 (26%), Positives = 63/144 (43%), Gaps = 24/144 (16%)

Query: 57  LKVLDFTGI-HFSSLPSSLGR---------LINLQTLCLDWCQLEDV-AAIGQLKKLEIL 105
           L+ L        + LP  L           L+NLQ+L L+W  +  + A+I  L+ L+ L
Sbjct: 152 LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSL 211

Query: 106 SFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV 165
             R S +  L   I  L +L+ LDL  C +L   PP      + L+ L           +
Sbjct: 212 KIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPI-FGGRAPLKRLI----------L 260

Query: 166 EGGSN-ASL-AELKGLSKLTTLNI 187
           +  SN  +L  ++  L++L  L++
Sbjct: 261 KDCSNLLTLPLDIHRLTQLEKLDL 284

>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 = 78.8 bits (195), Expect = 2e-17
 Identities = 28/136 (20%), Positives = 54/136 (39%), Gaps = 8/136 (5%)

Query: 57  LKVLDFTGIHFSSLPSSLGRL--INLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIK 113
            ++   TG    +    L          L L    L        +L  L+ ++   + + 
Sbjct: 58  PQIETRTGRALKATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLM 117

Query: 114 QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV--EGGSNA 171
           +LP  + Q   L+ L L+    L  +P + I+ L+RL EL +  +  +  ++     S  
Sbjct: 118 ELPDTMQQFAGLETLTLARN-PLRALPAS-IASLNRLRELSIR-ACPELTELPEPLASTD 174

Query: 172 SLAELKGLSKLTTLNI 187
           +  E +GL  L +L +
Sbjct: 175 ASGEHQGLVNLQSLRL 190

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

 Score = 63.0 bits (154), Expect = 6e-12
 Identities = 24/88 (27%), Positives = 37/88 (42%), Gaps = 4/88 (4%)

Query: 57  LKVLDFTGI-HFSSLPSSLGRLINLQTLCLDWC-QLEDV-AAIGQLKKLEILSFRG-SNI 112
           L+ LD  G     + P   G    L+ L L  C  L  +   I +L +LE L  RG  N+
Sbjct: 231 LEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNL 290

Query: 113 KQLPLEIGQLTRLQLLDLSNCWSLEVIP 140
            +LP  I QL    ++ +      ++  
Sbjct: 291 SRLPSLIAQLPANCIILVPPHLQAQLDQ 318

>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 = 73.1 bits (180), Expect = 3e-15
 Identities = 35/179 (19%), Positives = 71/179 (39%), Gaps = 16/179 (8%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS---S 73
            + L +      P+L   L  +     +++     E  E L+ LD +     +       
Sbjct: 313 FENLCQISASNFPSLT-HLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQ 371

Query: 74  LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE--IGQLTRLQLLD 129
           L  L +LQ+L L + +   +   A  +  +LE+L    + +K    +     L  L++L+
Sbjct: 372 LRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLN 431

Query: 130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           LS+   L++    +   L  L+ L  ++  + + K       SL   + L +L  L + 
Sbjct: 432 LSHS-LLDISSEQLFDGLPALQHL--NLQGNHFPKGNIQKTNSL---QTLGRLEILVLS 484

>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 = 66.6 bits (163), Expect = 6e-13
 Identities = 24/146 (16%), Positives = 51/146 (34%), Gaps = 9/146 (6%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLG 75
           +  +      +  NL    L         I +  F+    L  L  T      +   +L 
Sbjct: 45  LPTIQNTTFSRLINLTFLDL--TRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALS 102

Query: 76  RLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSN 132
               L+ L      +  +    +   K LE L    ++I  + L +     +L++LD  N
Sbjct: 103 GPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQN 162

Query: 133 CWSLEVIPPNVISKLSRLEELYMDIS 158
             ++  +    +S L +   L ++++
Sbjct: 163 N-AIHYLSKEDMSSLQQATNLSLNLN 187

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

 Score = 63.1 bits (154), Expect = 9e-12
 Identities = 38/191 (19%), Positives = 67/191 (35%), Gaps = 38/191 (19%)

Query: 28  CPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW 87
              + +  +  + +    IS + F     L+ LD T  H S LPS L  L  L+ L L  
Sbjct: 251 LCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSA 310

Query: 88  CQLEDV---------------------------AAIGQLKKLEILSFRGSNIKQLPL--- 117
            + E++                             +  L+ L  L     +I+       
Sbjct: 311 NKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNL 370

Query: 118 EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELK 177
           ++  L+ LQ L+LS       +      +  +LE L  D++F++    +  S       +
Sbjct: 371 QLRNLSHLQSLNLSYN-EPLSLKTEAFKECPQLELL--DLAFTRLKVKDAQS-----PFQ 422

Query: 178 GLSKLTTLNIQ 188
            L  L  LN+ 
Sbjct: 423 NLHLLKVLNLS 433

>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 = 62.7 bits (153), Expect = 1e-11
 Identities = 27/139 (19%), Positives = 48/139 (34%), Gaps = 19/139 (13%)

Query: 57  LKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK 113
            + L+F+     ++  ++  RLINL  L L  CQ+  +         +L+ L    + + 
Sbjct: 35  TECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLI 94

Query: 114 QLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGS 169
            +          L+ L       +  I    +     LE LY+    I           S
Sbjct: 95  FMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGSNHI-----------S 142

Query: 170 NASLAELKGLSKLTTLNIQ 188
           +  L +     KL  L+ Q
Sbjct: 143 SIKLPKGFPTEKLKVLDFQ 161

>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 = 60.0 bits (146), Expect = 1e-10
 Identities = 34/166 (20%), Positives = 68/166 (40%), Gaps = 26/166 (15%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSL----PSSLGRLINLQTLCLDWCQLEDVA--AIGQL 99
            S+  F+G   L+ L+  G HF        +SL  L  L+ L L +C L  +   A   L
Sbjct: 440 SSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSL 499

Query: 100 KKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD--- 156
           K +  +    + +    +E     +   L+L++   + +I P+++  LS+   + +    
Sbjct: 500 KMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASN-HISIILPSLLPILSQQRTINLRQNP 558

Query: 157 -------ISFSQW-----DKVEGGSN---ASLAELKGLSKLTTLNI 187
                  I F +W      K+E   +    +   L+G+  L+ + +
Sbjct: 559 LDCTCSNIYFLEWYKENMQKLEDTEDTLCENPPLLRGVR-LSDVTL 603

>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 = 2e-08
 Identities = 32/180 (17%), Positives = 57/180 (31%), Gaps = 20/180 (11%)

Query: 19  IQELPERL--QCPNLQ-LFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSL 74
           I  +          L+ L+L     N    I       TE+LKVLDF       L    +
Sbjct: 117 ISSIDFIPLHNQKTLESLYL---GSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDM 173

Query: 75  GRLINLQ--TLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLP---LEIGQLTRLQLL 128
             L      +L L+   +  +          + L+F G+    +    L+   +  L L 
Sbjct: 174 SSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLG 233

Query: 129 DLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
              +    E I P V   L  +    +++    +  +   +          S L  L++ 
Sbjct: 234 TFEDM-DDEDISPAVFEGLCEMSVESINLQKHYFFNISSNT------FHCFSGLQELDLT 286

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

 Score = 73.0 bits (179), Expect = 4e-15
 Identities = 22/172 (12%), Positives = 53/172 (30%), Gaps = 6/172 (3%)

Query: 17  RDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGR 76
           +   +  +RL   +L L            I        ++ ++ + T    + +  ++ R
Sbjct: 389 KMFLDYDQRLNLSDL-LQDAINRNPEMKPIKKDSRISLKDTQIGNLTN-RITFISKAIQR 446

Query: 77  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSL 136
           L  LQ +               +   +  S      +   L    L  L  ++L NC ++
Sbjct: 447 LTKLQIIYFANSPFTYD--NIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNM 504

Query: 137 EVIPPNVISKLSRLEELYMDI-SFSQWDKVEGGSNASLAELKGLSKLTTLNI 187
             +P   +  L  L+ L +         +++        +     K+    +
Sbjct: 505 TQLPD-FLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYM 555

>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 = 2e-14
 Identities = 33/182 (18%), Positives = 76/182 (41%), Gaps = 18/182 (9%)

Query: 19  IQELPERL-QCPNLQ-LFL-------LFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS 69
           + +LP+ L   P LQ L +         +      +++D    G + +++      +   
Sbjct: 504 MTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPK-IQIFYMGYNNLEE 562

Query: 70  LPSS--LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTR-LQ 126
            P+S  L +++ L  L     ++  + A G   KL  L    + I+++P +    T  ++
Sbjct: 563 FPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVE 622

Query: 127 LLDLSNCWSLEVIPPNV-ISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTL 185
            L  S+   L+ IP       +  +  +  D S+++        + S+ + KG++  +T+
Sbjct: 623 GLGFSHN-KLKYIPNIFNAKSVYVMGSV--DFSYNKIGSEGRNISCSMDDYKGIN-ASTV 678

Query: 186 NI 187
            +
Sbjct: 679 TL 680

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

 Score = 63.0 bits (153), Expect = 1e-11
 Identities = 25/186 (13%), Positives = 56/186 (30%), Gaps = 35/186 (18%)

Query: 19  IQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           I  + + + +   LQ+       +     + +     +           + +   S   L
Sbjct: 437 ITFISKAIQRLTKLQIIYF--ANS---PFT-YDNIAVDWEDANSDYAKQYENEELSWSNL 490

Query: 78  INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRG----------SNIKQLPLEIGQLTRL 125
            +L  + L  C         +  L +L+ L+             ++  +L  +     ++
Sbjct: 491 KDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKI 550

Query: 126 QLLDLSNCWSLEVIPPNV-ISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKL 182
           Q+  +    +LE  P +  + K+ +L  L                N    L       KL
Sbjct: 551 QIFYMGYN-NLEEFPASASLQKMVKLGLLDC------------VHNKVRHLEAFGTNVKL 597

Query: 183 TTLNIQ 188
           T L + 
Sbjct: 598 TDLKLD 603

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

 Score = 61.0 bits (148), Expect = 4e-11
 Identities = 21/160 (13%), Positives = 47/160 (29%), Gaps = 18/160 (11%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           I    R+I    +  +  N     +    N   +     F     +  +  +    +S+P
Sbjct: 656 IGSEGRNISCSMDDYKGINAST--VTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIP 713

Query: 72  S--------SLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPLEIG 120
                    +      L T+ L + +L  +        L  L  +    +     P +  
Sbjct: 714 ENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPL 773

Query: 121 QLTRLQLLDLSNCWSLEV-----IPPNVISKLSRLEELYM 155
             ++L+   + +    E        P  I+    L +L +
Sbjct: 774 NSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQI 813

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

 Score = 51.8 bits (124), Expect = 7e-08
 Identities = 24/153 (15%), Positives = 55/153 (35%), Gaps = 14/153 (9%)

Query: 13  SLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGT-EELKVLDFTGIHFSSL 70
           S+P+  ++           L    L    N    +SD F   T   L  +D +   FSS 
Sbjct: 711 SIPENSLKPKDGNYKNTYLLTTIDL--RFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSF 768

Query: 71  PSSLGRLINLQTLCLDWCQLEDV--------AAIGQLKKLEILSFRGSNIKQLPLEIGQL 122
           P+       L+   +   +  +           I     L  L    ++I+++  ++   
Sbjct: 769 PTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL--T 826

Query: 123 TRLQLLDLSNCWSLEVIPPNVISKLSRLEELYM 155
            +L +LD+++  ++ +   +V   +     + +
Sbjct: 827 PQLYILDIADNPNISIDVTSVCPYIEAGMYVLL 859

>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 = 70.0 bits (172), Expect = 5e-15
 Identities = 29/136 (21%), Positives = 55/136 (40%), Gaps = 18/136 (13%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           L  +    I+ + L + +    N++ L ++     +   I  L  LE L   G ++    
Sbjct: 46  LTYITLANINVTDL-TGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDK 104

Query: 117 LE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNA---S 172
           +  +  LT L LLD+S+  + +      I+ L ++  + +              N     
Sbjct: 105 IPNLSGLTSLTLLDISHS-AHDDSILTKINTLPKVNSIDL------------SYNGAITD 151

Query: 173 LAELKGLSKLTTLNIQ 188
           +  LK L +L +LNIQ
Sbjct: 152 IMPLKTLPELKSLNIQ 167

>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 = 65.0 bits (159), Expect = 3e-13
 Identities = 31/147 (21%), Positives = 54/147 (36%), Gaps = 17/147 (11%)

Query: 45  QISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLED--VAAIGQLKK 101
            ++D    E    +K L    IH ++  + +  L NL+ L +    +    +  +  L  
Sbjct: 55  NVTDLTGIEYAHNIKDLTINNIHATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTS 113

Query: 102 LEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS 160
           L +L    S      L  I  L ++  +DLS   ++  I P  +  L  L+ L  +I F 
Sbjct: 114 LTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSL--NIQFD 169

Query: 161 QWDKVEGGSNASLAELKGLSKLTTLNI 187
                 G        ++   KL  L  
Sbjct: 170 GVHDYRG--------IEDFPKLNQLYA 188

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 50.0 bits (120), Expect = 7e-08
 Identities = 20/116 (17%), Positives = 41/116 (35%), Gaps = 7/116 (6%)

Query: 45  QISD-HFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLED--VAAIGQLK 100
             ++ +   G   L+ L   G   +S    +L  L +L  L +     +D  +  I  L 
Sbjct: 77  HATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLP 136

Query: 101 KLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           K+  +    +      + +  L  L+ L++     +       I    +L +LY  
Sbjct: 137 KVNSIDLSYNGAITDIMPLKTLPELKSLNIQFD-GVHDYRG--IEDFPKLNQLYAF 189

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 43.0 bits (102), Expect = 2e-05
 Identities = 12/94 (12%), Positives = 32/94 (34%), Gaps = 8/94 (8%)

Query: 45  QISDHFFEGTEELK-----VLDFTGIHFSSLPSSLGRLINLQTLCLDWC-QLEDVAAIGQ 98
            ++         L       +  +    S L + +  L  + ++ L +   + D+  +  
Sbjct: 99  DVTSDKIPNLSGLTSLTLLDISHSAHDDSIL-TKINTLPKVNSIDLSYNGAITDIMPLKT 157

Query: 99  LKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSN 132
           L +L+ L+ +   +      I    +L  L   +
Sbjct: 158 LPELKSLNIQFDGVHDYR-GIEDFPKLNQLYAFS 190

>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 = 38.4 bits (90), Expect = 7e-04
 Identities = 11/56 (19%), Positives = 20/56 (35%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNI 112
           +  +D +     +    L  L  L++L + +  + D   I    KL  L      I
Sbjct: 138 VNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDYRGIEDFPKLNQLYAFSQTI 193

>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 = 70.6 bits (174), Expect = 1e-14
 Identities = 32/179 (17%), Positives = 65/179 (36%), Gaps = 24/179 (13%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSL 70
           + +    +  +       NL+   L   GN   QI+D        +L  L       + +
Sbjct: 49  LVVAGEKVASIQGIEYLTNLEYLNL--NGN---QITDISPLSNLVKLTNLYIGTNKITDI 103

Query: 71  PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL 130
            + L  L NL+ L L+   + D++ +  L K+  L+   ++       +  +T L  L +
Sbjct: 104 SA-LQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTV 162

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKLTTLNI 187
           +    ++ + P  I+ L+ L  L +              N    ++ L  L+ L     
Sbjct: 163 TES-KVKDVTP--IANLTDLYSLSL------------NYNQIEDISPLASLTSLHYFTA 206

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

 Score = 68.7 bits (169), Expect = 8e-14
 Identities = 31/139 (22%), Positives = 52/139 (37%), Gaps = 17/139 (12%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 110
                 L  L       + L   L  L  L  L +   Q+ D+ A+  L KL++L+   +
Sbjct: 217 VANMTRLNSLKIGNNKITDLSP-LANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSN 275

Query: 111 NIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN 170
            I  +   +  L++L  L L+N   L      VI  L+ L  L++              N
Sbjct: 276 QISDIS-VLNNLSQLNSLFLNNN-QLGNEDMEVIGGLTNLTTLFLS------------QN 321

Query: 171 --ASLAELKGLSKLTTLNI 187
               +  L  LSK+ + + 
Sbjct: 322 HITDIRPLASLSKMDSADF 340

>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 = 67.6 bits (166), Expect = 2e-13
 Identities = 29/149 (19%), Positives = 56/149 (37%), Gaps = 22/149 (14%)

Query: 43  PMQISDHF-FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKK 101
           P  I+  F      E           + + +    L ++  L +   ++  +  I  L  
Sbjct: 9   PAPINQIFPDADLAEGIRAVLQKASVTDVVT-QEELESITKLVVAGEKVASIQGIEYLTN 67

Query: 102 LEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD---IS 158
           LE L+  G+ I  +   +  L +L  L +     +  I    +  L+ L ELY++   IS
Sbjct: 68  LEYLNLNGNQITDIS-PLSNLVKLTNLYIGTN-KITDISA--LQNLTNLRELYLNEDNIS 123

Query: 159 FSQWDKVEGGSNASLAELKGLSKLTTLNI 187
                         ++ L  L+K+ +LN+
Sbjct: 124 -------------DISPLANLTKMYSLNL 139

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

 Score = 64.5 bits (158), Expect = 2e-12
 Identities = 30/134 (22%), Positives = 57/134 (42%), Gaps = 19/134 (14%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           L  L  T      +   +  L +L +L L++ Q+ED++ +  L  L   +   + I  + 
Sbjct: 157 LNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDIT 215

Query: 117 LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNA--SLA 174
             +  +TRL  L + N   +  + P  ++ LS+L  L +             +N    + 
Sbjct: 216 -PVANMTRLNSLKIGNN-KITDLSP--LANLSQLTWLEIG------------TNQISDIN 259

Query: 175 ELKGLSKLTTLNIQ 188
            +K L+KL  LN+ 
Sbjct: 260 AVKDLTKLKMLNVG 273

>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 = 60.2 bits (147), Expect = 5e-11
 Identities = 29/140 (20%), Positives = 55/140 (39%), Gaps = 11/140 (7%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           I ++        L    +    N   +I+D        +L  L+      S + + +  L
Sbjct: 211 ITDITPVANMTRLNSLKI--GNN---KITDLSPLANLSQLTWLEIGTNQISDINA-VKDL 264

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSL 136
             L+ L +   Q+ D++ +  L +L  L    + +    +E IG LT L  L LS    +
Sbjct: 265 TKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-HI 323

Query: 137 EVIPPNVISKLSRLEELYMD 156
             I P  ++ LS+++     
Sbjct: 324 TDIRP--LASLSKMDSADFA 341

>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 = 48.7 bits (117), Expect = 5e-07
 Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 10/117 (8%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           I +L        L    +    N   QISD +  +   +LK+L+      S + S L  L
Sbjct: 233 ITDLSPLANLSQLTWLEI--GTN---QISDINAVKDLTKLKMLNVGSNQISDI-SVLNNL 286

Query: 78  INLQTLCLDWCQL--EDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSN 132
             L +L L+  QL  ED+  IG L  L  L    ++I  +   +  L+++   D +N
Sbjct: 287 SQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNHITDIR-PLASLSKMDSADFAN 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 = 46.4 bits (111), Expect = 2e-06
 Identities = 19/108 (17%), Positives = 37/108 (34%), Gaps = 14/108 (12%)

Query: 80  LQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVI 139
             TL      +  +     L +      + +++  +     +L  +  L ++    +  I
Sbjct: 2   AATLATLPAPINQIFPDADLAEGIRAVLQKASVTDVV-TQEELESITKLVVAGE-KVASI 59

Query: 140 PPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNI 187
               I  L+ LE L ++          G     ++ L  L KLT L I
Sbjct: 60  QG--IEYLTNLEYLNLN----------GNQITDISPLSNLVKLTNLYI 95

>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 = 39.4 bits (93), Expect = 5e-04
 Identities = 22/98 (22%), Positives = 36/98 (36%), Gaps = 7/98 (7%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSL-PSSLGR 76
           I ++        L++  +    N   QISD        +L  L        +     +G 
Sbjct: 255 ISDINAVKDLTKLKMLNV--GSN---QISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGG 309

Query: 77  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQ 114
           L NL TL L    + D+  +  L K++   F    IK+
Sbjct: 310 LTNLTTLFLSQNHITDIRPLASLSKMDSADFANQVIKK 347

>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 = 70.0 bits (172), Expect = 4e-14
 Identities = 36/176 (20%), Positives = 70/176 (39%), Gaps = 27/176 (15%)

Query: 28  CPNLQ-LFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL---PSSLGRLINLQTL 83
             N+  ++L     N  +Q++ + F     L+ L    +   ++   PS    L NL  L
Sbjct: 429 LENIFEIYL---SYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTIL 485

Query: 84  CLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQL---------PLEIGQLTRLQLLDLSN 132
            L    + ++    +  L+KLEIL  + +N+ +L            +  L+ L +L+L +
Sbjct: 486 DLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLES 545

Query: 133 CWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
               + IP  V   L  L+ +  D+  +  + +                L +LN+Q
Sbjct: 546 N-GFDEIPVEVFKDLFELKII--DLGLNNLNTLPASV------FNNQVSLKSLNLQ 592

>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 = 67.7 bits (166), Expect = 2e-13
 Identities = 28/118 (23%), Positives = 47/118 (39%), Gaps = 7/118 (5%)

Query: 45  QISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 101
           Q+SD  F     L  L         +  +   +  NL TL L    L         QL+ 
Sbjct: 87  QLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLEN 146

Query: 102 LEILSFRGSNIKQLP---LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           L+ L    + I+ L    L+I   + L+ L+LS+   ++   P     + RL  L+++
Sbjct: 147 LQELLLSNNKIQALKSEELDIFANSSLKKLELSSN-QIKEFSPGCFHAIGRLFGLFLN 203

>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 = 65.0 bits (159), Expect = 2e-12
 Identities = 22/104 (21%), Positives = 43/104 (41%), Gaps = 5/104 (4%)

Query: 57  LKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK 113
           + VL+ T      L  ++  R   L +L + +  +  +      +L  L++L+ + + + 
Sbjct: 27  ITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELS 86

Query: 114 QLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           QL  +     T L  L L +  S++ I  N   K   L  L + 
Sbjct: 87  QLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLS 129

>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 = 63.9 bits (156), Expect = 5e-12
 Identities = 32/168 (19%), Positives = 58/168 (34%), Gaps = 17/168 (10%)

Query: 27  QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCL 85
           +   L    +    N   ++     +    LKVL+      S L   +     NL  L L
Sbjct: 47  RYSQLTSLDV--GFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHL 104

Query: 86  DWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPN 142
               ++ +      + K L  L    + +    L    QL  LQ L LSN   ++ +   
Sbjct: 105 MSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNN-KIQALKSE 163

Query: 143 VIS--KLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
            +     S L++L  ++S +Q  +   G          + +L  L + 
Sbjct: 164 ELDIFANSSLKKL--ELSSNQIKEFSPGC------FHAIGRLFGLFLN 203

>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 = 62.7 bits (153), Expect = 1e-11
 Identities = 27/135 (20%), Positives = 52/135 (38%), Gaps = 14/135 (10%)

Query: 56  ELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK 113
             +V D + +  + +P  L    N+  L L   QL  +  A   +  +L  L    + I 
Sbjct: 5   SHEVADCSHLKLTQVPDDLPT--NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTIS 62

Query: 114 QL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNAS 172
           +L P    +L  L++L+L +   L  +     +  + L EL   +  +   K++      
Sbjct: 63  KLEPELCQKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTEL--HLMSNSIQKIKNNP--- 116

Query: 173 LAELKGLSKLTTLNI 187
                    L TL++
Sbjct: 117 ---FVKQKNLITLDL 128

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

 Score = 57.7 bits (140), Expect = 7e-10
 Identities = 30/142 (21%), Positives = 51/142 (35%), Gaps = 18/142 (12%)

Query: 56  ELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQL-----EDVAAIGQLKKLEILSFRG 109
            LK L+ +        P     +  L  L L+  QL     E +        +  LS   
Sbjct: 172 SLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSN 231

Query: 110 SNIKQLPLEIG---QLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVE 166
           S +           + T L +LDLS   +L V+  +  + L +LE     + ++    + 
Sbjct: 232 SQLSTTSNTTFLGLKWTNLTMLDLSYN-NLNVVGNDSFAWLPQLEYF--FLEYNNIQHLF 288

Query: 167 GGSNASLAELKGLSKLTTLNIQ 188
             S      L GL  +  LN++
Sbjct: 289 SHS------LHGLFNVRYLNLK 304

>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 = 2e-09
 Identities = 28/124 (22%), Positives = 49/124 (39%), Gaps = 14/124 (11%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSL---------PSSLGRLINLQTLCLDWCQLEDV--A 94
           I+D   EG E+L++LD    + + L            L  L +L  L L+    +++   
Sbjct: 495 INDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVE 554

Query: 95  AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISK-LSRLEE 152
               L +L+I+    +N+  LP  +      L+ L+L     +  +   V       L E
Sbjct: 555 VFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKN-LITSVEKKVFGPAFRNLTE 613

Query: 153 LYMD 156
           L M 
Sbjct: 614 LDMR 617

>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 = 54.2 bits (131), Expect = 8e-09
 Identities = 26/164 (15%), Positives = 56/164 (34%), Gaps = 16/164 (9%)

Query: 33  LFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLE 91
                       +I D  F+  + L+ L+        +  +    LINL+ L L      
Sbjct: 307 FTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTS 366

Query: 92  DVAAIGQ------LKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVI 144
                 +         L IL+   + I ++  +    L  L++LDL      + +     
Sbjct: 367 LRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEW 426

Query: 145 SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
             L  + E+   +S++++ ++   S         +  L  L ++
Sbjct: 427 RGLENIFEI--YLSYNKYLQLTRNS------FALVPSLQRLMLR 462

>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 = 53.9 bits (130), Expect = 1e-08
 Identities = 34/164 (20%), Positives = 62/164 (37%), Gaps = 20/164 (12%)

Query: 26  LQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLC 84
           L+  NL +  L    N    + +  F    +L+       +   L   SL  L N++ L 
Sbjct: 245 LKWTNLTMLDL--SYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLN 302

Query: 85  LDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVI 144
           L     +   ++  L K++  SF+             L  L+ L++ +   +  I  N+ 
Sbjct: 303 LKRSFTKQSISLASLPKIDDFSFQW------------LKCLEHLNMEDN-DIPGIKSNMF 349

Query: 145 SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           + L  L+ L +  SF+    +   +  SL      S L  LN+ 
Sbjct: 350 TGLINLKYLSLSNSFTSLRTLTNETFVSL----AHSPLHILNLT 389

>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 = 68.5 bits (168), Expect = 8e-14
 Identities = 31/148 (20%), Positives = 58/148 (39%), Gaps = 12/148 (8%)

Query: 45  QISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIG---QLKK 101
                   GT  LK LD +     ++ S+   L  L+ L      L+ ++       L+ 
Sbjct: 68  GCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRN 127

Query: 102 LEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS 160
           L  L    ++ +     I   L+ L++L ++     E   P++ ++L  L  L  D+S  
Sbjct: 128 LIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL--DLSQC 185

Query: 161 QWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           Q +++   +         LS L  LN+ 
Sbjct: 186 QLEQLSPTA------FNSLSSLQVLNMS 207

>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 = 54.6 bits (132), Expect = 4e-09
 Identities = 29/138 (21%), Positives = 43/138 (31%), Gaps = 13/138 (9%)

Query: 56  ELKVLDFTGIHFSSLPSS-LGRLINLQTLCLDWCQLEDVAAIGQ----LKKLEILSFRGS 110
               L+       SLP     +L  L  L L    L       Q       L+ L    +
Sbjct: 29  SATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN 88

Query: 111 NIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN 170
            +  +      L +L+ LD  +    ++   +V   L  L  L  DIS +       G  
Sbjct: 89  GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYL--DISHTHTRVAFNGI- 145

Query: 171 ASLAELKGLSKLTTLNIQ 188
                  GLS L  L + 
Sbjct: 146 -----FNGLSSLEVLKMA 158

>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 = 54.2 bits (131), Expect = 5e-09
 Identities = 37/145 (25%), Positives = 54/145 (37%), Gaps = 8/145 (5%)

Query: 19  IQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS--LPSSLG 75
           ++++ E     +L  L  L           +  F G   L+VL   G  F    LP    
Sbjct: 113 LKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFT 172

Query: 76  RLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSN 132
            L NL  L L  CQLE ++  A   L  L++L+   +N   L       L  LQ+LD S 
Sbjct: 173 ELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSL 232

Query: 133 CWSLEVIPPNVISKL-SRLEELYMD 156
              +       +    S L  L + 
Sbjct: 233 N-HIMTSKKQELQHFPSSLAFLNLT 256

>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 = 51.6 bits (124), Expect = 5e-08
 Identities = 25/146 (17%), Positives = 51/146 (34%), Gaps = 12/146 (8%)

Query: 19  IQELPERLQ-CPNLQ-LFLLFREGNGPMQISDH-FFEGTEELKVLDFTGIHFSSLPS-SL 74
           +  +         L+ L     + +   Q+S+   F     L  LD +  H     +   
Sbjct: 90  VITMSSNFLGLEQLEHLDF---QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF 146

Query: 75  GRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDL 130
             L +L+ L +     ++        +L+ L  L      ++QL       L+ LQ+L++
Sbjct: 147 NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 206

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMD 156
           S+      +       L+ L+ L   
Sbjct: 207 SHNN-FFSLDTFPYKCLNSLQVLDYS 231

>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 = 68.1 bits (167), Expect = 2e-13
 Identities = 26/146 (17%), Positives = 53/146 (36%), Gaps = 16/146 (10%)

Query: 43  PMQISDHF-FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKK 101
              I+  F      E         + +   S    L  + TL  D   ++ +  +  L  
Sbjct: 11  DTPINQIFTDTALAEKMKTVLGKTNVTDTVS-QTDLDQVTTLQADRLGIKSIDGVEYLNN 69

Query: 102 LEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ 161
           L  ++F  + +  +   +  LT+L  + ++N   +  I P  ++ L+ L  L   +  +Q
Sbjct: 70  LTQINFSNNQLTDIT-PLKNLTKLVDILMNNN-QIADITP--LANLTNLTGL--TLFNNQ 123

Query: 162 WDKVEGGSNASLAELKGLSKLTTLNI 187
                      +  LK L+ L  L +
Sbjct: 124 --------ITDIDPLKNLTNLNRLEL 141

>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 = 67.7 bits (166), Expect = 2e-13
 Identities = 30/140 (21%), Positives = 52/140 (37%), Gaps = 19/140 (13%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 110
               +++  L    +   S+   +  L NL  +     QL D+  +  L KL  +    +
Sbjct: 42  QTDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNN 100

Query: 111 NIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN 170
            I  +   +  LT L  L L N   +  I P  +  L+ L  L +             SN
Sbjct: 101 QIADIT-PLANLTNLTGLTLFNN-QITDIDP--LKNLTNLNRLEL------------SSN 144

Query: 171 --ASLAELKGLSKLTTLNIQ 188
             + ++ L GL+ L  L+  
Sbjct: 145 TISDISALSGLTSLQQLSFG 164

>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 = 65.4 bits (160), Expect = 1e-12
 Identities = 43/172 (25%), Positives = 75/172 (43%), Gaps = 24/172 (13%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLI 78
           I ++       +LQ       GN    +          L+ LD +    S +   L +L 
Sbjct: 146 ISDISALSGLTSLQQLSF---GNQVTDLKP--LANLTTLERLDISSNKVSDISV-LAKLT 199

Query: 79  NLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEV 138
           NL++L     Q+ D+  +G L  L+ LS  G+ +K +   +  LT L  LDL+N   +  
Sbjct: 200 NLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANN-QISN 257

Query: 139 IPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKLTTLNIQ 188
           + P  +S L++L EL +             +N  ++++ L GL+ LT L + 
Sbjct: 258 LAP--LSGLTKLTELKLG------------ANQISNISPLAGLTALTNLELN 295

>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 = 63.1 bits (154), Expect = 7e-12
 Identities = 41/173 (23%), Positives = 68/173 (39%), Gaps = 25/173 (14%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           ++++       NL    L    N   QIS+     G  +L  L       S++   L  L
Sbjct: 233 LKDIGTLASLTNLTDLDL--ANN---QISNLAPLSGLTKLTELKLGANQISNISP-LAGL 286

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLE 137
             L  L L+  QLED++ I  LK L  L+   +NI  +   +  LT+LQ L   N   + 
Sbjct: 287 TALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDIS-PVSSLTKLQRLFFYNN-KVS 344

Query: 138 VIPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKLTTLNIQ 188
            +    ++ L+ +  L                N  + L  L  L+++T L + 
Sbjct: 345 DVSS--LANLTNINWLSAG------------HNQISDLTPLANLTRITQLGLN 383

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 62.3 bits (152), Expect = 2e-11
 Identities = 33/134 (24%), Positives = 54/134 (40%), Gaps = 20/134 (14%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           L  L       + +   L  L NL  L L    + D++A+  L  L+ LSF   N     
Sbjct: 114 LTGLTLFNNQITDIDP-LKNLTNLNRLELSSNTISDISALSGLTSLQQLSF--GNQVTDL 170

Query: 117 LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLA 174
             +  LT L+ LD+S+   +  I    ++KL+ LE L               +N  + + 
Sbjct: 171 KPLANLTTLERLDISSN-KVSDISV--LAKLTNLESLIA------------TNNQISDIT 215

Query: 175 ELKGLSKLTTLNIQ 188
            L  L+ L  L++ 
Sbjct: 216 PLGILTNLDELSLN 229

>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 = 56.5 bits (137), Expect = 1e-09
 Identities = 26/137 (18%), Positives = 45/137 (32%), Gaps = 9/137 (6%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           ++++       NL    L    N    ISD        +L+ L F     S + S L  L
Sbjct: 299 LEDISPISNLKNLTYLTL--YFN---NISDISPVSSLTKLQRLFFYNNKVSDVSS-LANL 352

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLE 137
            N+  L     Q+ D+  +  L ++  L          P+       + + +     +  
Sbjct: 353 TNINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKAN--VSIPNTVKNVTGA 410

Query: 138 VIPPNVISKLSRLEELY 154
           +I P  IS      E  
Sbjct: 411 LIAPATISDGGSYTEPD 427

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

 Score = 66.3 bits (162), Expect = 6e-13
 Identities = 32/132 (24%), Positives = 53/132 (40%), Gaps = 8/132 (6%)

Query: 29  PNLQ-LFLLFREGNGPMQISDHFFEGTEELKVLDFTGI-HFSSLPS-SLGRLINLQTLCL 85
             L+ L+L     N    I  + F     L+ LD   +   S +   +   L NL+ L L
Sbjct: 136 SKLKELWL---RNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNL 192

Query: 86  DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVI 144
             C L ++  +  L KL+ L   G+++  +       L  LQ L +     ++VI  N  
Sbjct: 193 AMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAF 251

Query: 145 SKLSRLEELYMD 156
             L  L E+ + 
Sbjct: 252 DNLQSLVEINLA 263

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

 Score = 64.8 bits (158), Expect = 2e-12
 Identities = 41/183 (22%), Positives = 72/183 (39%), Gaps = 21/183 (11%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           +   +++++E+P+ +   N +L  L    N    I  + F+    L++L  +  H  ++ 
Sbjct: 48  VICVRKNLREVPDGIS-TNTRLLNL--HENQIQIIKVNSFKHLRHLEILQLSRNHIRTIE 104

Query: 72  S-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQL 127
             +   L NL TL L   +L  +   A   L KL+ L  R + I+ +P     ++  L+ 
Sbjct: 105 IGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRR 164

Query: 128 LDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKLTTL 185
           LDL     L  I       LS L  L +                   +  L  L KL  L
Sbjct: 165 LDLGELKRLSYISEGAFEGLSNLRYLNLA------------MCNLREIPNLTPLIKLDEL 212

Query: 186 NIQ 188
           ++ 
Sbjct: 213 DLS 215

>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 = 66.6 bits (163), Expect = 7e-13
 Identities = 16/135 (11%), Positives = 45/135 (33%), Gaps = 7/135 (5%)

Query: 56  ELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK 113
           +   +     + + +  ++ RL  L+   +              + +  E      +   
Sbjct: 184 KDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKT--- 240

Query: 114 QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASL 173
              L+   L  L  +++ NC +L  +P   +  L  ++ + +  +     +       +L
Sbjct: 241 -EDLKWDNLKDLTDVEVYNCPNLTKLPTF-LKALPEMQLINVACNRGISGEQLKDDWQAL 298

Query: 174 AELKGLSKLTTLNIQ 188
           A+     K+  + I 
Sbjct: 299 ADAPVGEKIQIIYIG 313

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 65.1 bits (159), Expect = 2e-12
 Identities = 21/144 (14%), Positives = 51/144 (35%), Gaps = 16/144 (11%)

Query: 57  LKVLDFTGIHFSSLPSSL-GRLINLQTLCLDWCQLE---DVAAIGQLKKLEIL------- 105
           L  L+      + +P++  G    ++ L     +L+   ++     +  +  +       
Sbjct: 355 LASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEI 414

Query: 106 -SFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK 164
            S  G N   L     +   +  ++LSN   +   P  + S  S L  +  ++  +   +
Sbjct: 415 GSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKFPKELFSTGSPLSSI--NLMGNMLTE 471

Query: 165 VEGGSNASL-AELKGLSKLTTLNI 187
           +   S        K    LT++++
Sbjct: 472 IPKNSLKDENENFKNTYLLTSIDL 495

>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 = 64.7 bits (158), Expect = 3e-12
 Identities = 20/150 (13%), Positives = 53/150 (35%), Gaps = 30/150 (20%)

Query: 56  ELKVLDFTGIHFSSLP---------SSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLE 103
           E+++++       S           +       +Q + + +  L+      ++ ++KKL 
Sbjct: 274 EMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLG 333

Query: 104 ILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD 163
           +L    + ++      G   +L  L+L+    +  IP N      ++E L          
Sbjct: 334 MLECLYNQLEGKLPAFGSEIKLASLNLAYN-QITEIPANFCGFTEQVENLSFA------- 385

Query: 164 KVEGGSN-----ASLAELKGLSKLTTLNIQ 188
                 N      ++ + K +S ++ ++  
Sbjct: 386 -----HNKLKYIPNIFDAKSVSVMSAIDFS 410

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 55.4 bits (134), Expect = 3e-09
 Identities = 24/162 (14%), Positives = 48/162 (29%), Gaps = 25/162 (15%)

Query: 13  SLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQIS---DHFFEGTEELKVLD-----FT 63
           S+  ++   L     +  N+    L    N   QIS      F     L  ++      T
Sbjct: 416 SVDGKNFDPLDPTPFKGINVSSINL--SNN---QISKFPKELFSTGSPLSSINLMGNMLT 470

Query: 64  GIH---FSSLPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPL 117
            I          +      L ++ L + +L  +        L  L  +    ++  + P 
Sbjct: 471 EIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPT 530

Query: 118 EIGQLTRLQLLDLSNCWSLEV-----IPPNVISKLSRLEELY 154
           +    + L+   + N    +        P  I+    L +L 
Sbjct: 531 QPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQ 572

>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 = 55.4 bits (134), Expect = 3e-09
 Identities = 24/171 (14%), Positives = 54/171 (31%), Gaps = 17/171 (9%)

Query: 13  SLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGT-EELKVLDFTGIHFSSL 70
            +P+  +++  E       L    L    N   ++SD F   T   L  +D +   FS  
Sbjct: 471 EIPKNSLKDENENFKNTYLLTSIDL--RFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKF 528

Query: 71  PSSLGRLINLQTLCLDWCQLEDV--------AAIGQLKKLEILSFRGSNIKQLPLEIGQL 122
           P+       L+   +   +              I     L  L    ++I+++  +I   
Sbjct: 529 PTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKI--T 586

Query: 123 TRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASL 173
             + +LD+ +      I  + +          +   + +   + G     +
Sbjct: 587 PNISVLDIKDN-PNISIDLSYVCPYIEAGMYML--FYDKTQDIRGCDALDI 634

>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 = 43.5 bits (103), Expect = 3e-05
 Identities = 18/149 (12%), Positives = 42/149 (28%), Gaps = 18/149 (12%)

Query: 42  GPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQL 99
           GP  IS +  +  ++   + +        P       +L   C++    +     +    
Sbjct: 125 GPKGISANMSDEQKQKMRMHYQKTFVDYDP--REDFSDLIKDCINSDPQQKSIKKSSRIT 182

Query: 100 KKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF 159
            K   +    +NI  +   + +LT+L+   + N             +    E      + 
Sbjct: 183 LKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNS-PFVAENICEAWENENSEYAQQYKTE 241

Query: 160 SQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
                          +   L  LT + + 
Sbjct: 242 D-------------LKWDNLKDLTDVEVY 257

>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 = 65.9 bits (161), Expect = 1e-12
 Identities = 36/174 (20%), Positives = 66/174 (37%), Gaps = 12/174 (6%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLI 78
                  +  P+L+   L R G            GT  LK LD +     ++ S+   L 
Sbjct: 337 GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLE 396

Query: 79  NLQTLCLDWCQLEDVAAIG---QLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCW 134
            L+ L      L+ ++       L+ L  L    ++ +     I   L+ L++L ++   
Sbjct: 397 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNS 456

Query: 135 SLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
             E   P++ ++L  L  L  D+S  Q +++   +         LS L  LN+ 
Sbjct: 457 FQENFLPDIFTELRNLTFL--DLSQCQLEQLSPTA------FNSLSSLQVLNMA 502

>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 = 63.6 bits (155), Expect = 6e-12
 Identities = 29/104 (27%), Positives = 41/104 (39%), Gaps = 5/104 (4%)

Query: 57  LKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK 113
            K LD +      L S S      LQ L L  C+++ +   A   L  L  L   G+ I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 114 QLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
            L L     L+ LQ L      +L  +    I  L  L+EL + 
Sbjct: 90  SLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVA 132

>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 = 62.0 bits (151), Expect = 2e-11
 Identities = 37/149 (24%), Positives = 58/149 (38%), Gaps = 10/149 (6%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLG 75
           ++ L        P LQ+  L         I D  ++    L  L  TG    SL   +  
Sbjct: 40  LRHLGSYSFFSFPELQVLDL--SRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFS 97

Query: 76  RLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPL--EIGQLTRLQLLDLS 131
            L +LQ L      L  +    IG LK L+ L+   + I+   L      LT L+ LDLS
Sbjct: 98  GLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLS 157

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFS 160
           +   ++ I    +  L ++  L + +  S
Sbjct: 158 SN-KIQSIYCTDLRVLHQMPLLNLSLDLS 185

>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 = 60.9 bits (148), Expect = 5e-11
 Identities = 35/180 (19%), Positives = 57/180 (31%), Gaps = 18/180 (10%)

Query: 13  SLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS 72
           SL    I+ + +       Q   L        +         + LK L FT     +  S
Sbjct: 288 SLVSVTIERVKDFSYNFGWQHLELVN-----CKFGQFPTLKLKSLKRLTFTSNKGGNAFS 342

Query: 73  SLGRLINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLL 128
            +  L +L+ L L    L        +      L+ L    + +  +      L +L+ L
Sbjct: 343 EVD-LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHL 401

Query: 129 DLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           D  +    ++   +V   L  L  L  DIS +       G         GLS L  L + 
Sbjct: 402 DFQHSNLKQMSEFSVFLSLRNLIYL--DISHTHTRVAFNGI------FNGLSSLEVLKMA 453

>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 = 55.1 bits (133), Expect = 5e-09
 Identities = 35/199 (17%), Positives = 68/199 (34%), Gaps = 14/199 (7%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG--IHFSSLPSSL 74
           IQ L         +LQ  +          + +      + LK L+     I    LP   
Sbjct: 88  IQSLALGAFSGLSSLQKLVAV--ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 75  GRLINLQTLCLDWCQLEDVA--AIGQLKKLEI----LSFRGSNIKQLPLEIGQLTRLQLL 128
             L NL+ L L   +++ +    +  L ++ +    L    + +  +     +  RL  L
Sbjct: 146 SNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKL 205

Query: 129 DLSNCWSLEVIPPNVISKLSRLEELYMDIS-FSQWDKVEGGSNASLAELKGLSKLTTLNI 187
            L N +    +    I  L+ LE   + +  F     +E    ++L  L  L+ +    +
Sbjct: 206 TLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLT-IEEFRL 264

Query: 188 QVPDAQILPQEWVFVELQS 206
              D  +     +F  L +
Sbjct: 265 AYLDYYLDDIIDLFNCLTN 283

>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 = 54.3 bits (131), Expect = 8e-09
 Identities = 21/112 (18%), Positives = 48/112 (42%), Gaps = 6/112 (5%)

Query: 50  FFEGTEELKVLDFTGIHFSSLPSS-LGRLINLQTLCLDWCQLEDV---AAIGQLKKLEIL 105
            F     L  LD +  H     +     L +L+ L +     ++        +L+ L  L
Sbjct: 416 VFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFL 475

Query: 106 SFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
                 ++QL       L+ LQ+L++++   L+ +P  +  +L+ L+++++ 
Sbjct: 476 DLSQCQLEQLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLH 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 = 50.9 bits (122), Expect = 1e-07
 Identities = 29/92 (31%), Positives = 41/92 (44%), Gaps = 5/92 (5%)

Query: 46  ISDHFFEGTEELKVLDFTG--IHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 101
             +  F G   L+VL   G     + LP     L NL  L L  CQLE +   A   L  
Sbjct: 436 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 495

Query: 102 LEILSFRGSNIKQLPLEI-GQLTRLQLLDLSN 132
           L++L+   + +K +P  I  +LT LQ + L  
Sbjct: 496 LQVLNMASNQLKSVPDGIFDRLTSLQKIWLHT 527

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

 Score = 40.5 bits (95), Expect = 3e-04
 Identities = 34/184 (18%), Positives = 58/184 (31%), Gaps = 17/184 (9%)

Query: 9   PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG---- 64
             ++++ +  IQ L   L+   L L     EGN          EG   L + +F      
Sbjct: 211 FDSLNVMKTCIQGLA-GLEVHRLVLGEFRNEGNLEK-FDKSALEGLCNLTIEEFRLAYLD 268

Query: 65  IHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTR 124
            +   +      L N+ +  L    +E V         + L        Q P    +L  
Sbjct: 269 YYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPT--LKLKS 326

Query: 125 LQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTT 184
           L+ L  ++          V   L  LE L +  S +        S +      G + L  
Sbjct: 327 LKRLTFTSN-KGGNAFSEV--DLPSLEFLDL--SRNGLSFKGCCSQS----DFGTTSLKY 377

Query: 185 LNIQ 188
           L++ 
Sbjct: 378 LDLS 381

>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 = 65.8 bits (161), Expect = 1e-12
 Identities = 28/103 (27%), Positives = 40/103 (38%), Gaps = 5/103 (4%)

Query: 57  LKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK 113
            K LD +      L   S      LQ L L  C+++ +   A   L  L  L   G+ I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 114 QLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYM 155
            L L     L+ LQ L      +L  +    I  L  L+EL +
Sbjct: 90  SLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNV 131

>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 = 64.3 bits (157), Expect = 3e-12
 Identities = 32/167 (19%), Positives = 58/167 (34%), Gaps = 18/167 (10%)

Query: 28  CPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW 87
            P+L+   L R G            GT  LK LD +     ++ S+   L  L+ L    
Sbjct: 346 LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH 405

Query: 88  CQLE---DVAAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNV 143
             L+   + +    L+ L  L    ++ +         L+ L++L ++     E   P++
Sbjct: 406 SNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI 465

Query: 144 ISKLSRLEELYMD---ISFSQWDKVEGGSNASLAELKGLSKLTTLNI 187
            ++L  L  L +    +                     LS L  LN+
Sbjct: 466 FTELRNLTFLDLSQCQLEQLSPT-----------AFNSLSSLQVLNM 501

>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 = 2e-09
 Identities = 33/117 (28%), Positives = 44/117 (37%), Gaps = 7/117 (5%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSS--LPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 101
             +  F G   L+VL   G  F    LP     L NL  L L  CQLE +   A   L  
Sbjct: 436 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 495

Query: 102 LEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKL-SRLEELYMD 156
           L++L+   +N   L       L  LQ+LD S    +       +    S L  L + 
Sbjct: 496 LQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLN-HIMTSKKQELQHFPSSLAFLNLT 551

>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 = 55.4 bits (134), Expect = 3e-09
 Identities = 35/175 (20%), Positives = 57/175 (32%), Gaps = 20/175 (11%)

Query: 19  IQELPERLQCPNLQ-LFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           I+ + +       Q L L+        Q      +    LK L FT     +  S +  L
Sbjct: 294 IERVKDFSYNFGWQHLELV---NCKFGQFPTLKLKS---LKRLTFTSNKGGNAFSEVD-L 346

Query: 78  INLQTLCLDWCQLEDV----AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNC 133
            +L+ L L    L        +      L+ L    + +  +      L +L+ LD  + 
Sbjct: 347 PSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS 406

Query: 134 WSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
              ++   +V   L  L  L  DIS +       G         GLS L  L + 
Sbjct: 407 NLKQMSEFSVFLSLRNLIYL--DISHTHTRVAFNGI------FNGLSSLEVLKMA 453

>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 = 53.9 bits (130), Expect = 1e-08
 Identities = 32/180 (17%), Positives = 60/180 (33%), Gaps = 14/180 (7%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG--IHFSSLPSSL 74
           IQ L         +LQ  +          + +      + LK L+     I    LP   
Sbjct: 88  IQSLALGAFSGLSSLQKLVAV--ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 75  GRLINLQTLCLDWCQLEDV--AAIGQLKKLEI----LSFRGSNIKQLPLEIGQLTRLQLL 128
             L NL+ L L   +++ +    +  L ++ +    L    + +  +     +  RL  L
Sbjct: 146 SNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKL 205

Query: 129 DLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
            L N +    +    I  L+ LE     +   ++           + L+GL  LT    +
Sbjct: 206 TLRNNFDSLNVMKTCIQGLAGLEVH--RLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFR 263

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

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 31/171 (18%), Positives = 51/171 (29%), Gaps = 27/171 (15%)

Query: 10  IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFT----GI 65
            ++++ +  IQ L   L+   L L     EGN   +      EG   L + +F       
Sbjct: 212 DSLNVMKTCIQGLA-GLEVHRLVLGEFRNEGNLE-KFDKSALEGLCNLTIEEFRLAYLDY 269

Query: 66  HFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP--------- 116
           +   +      L N+ +  L    +E V         + L        Q P         
Sbjct: 270 YLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKR 329

Query: 117 -----------LEIGQLTRLQLLDLS-NCWSLEVIPPNVISKLSRLEELYM 155
                           L  L+ LDLS N  S +          + L+ L +
Sbjct: 330 LTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDL 380

>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 = 65.1 bits (159), Expect = 2e-12
 Identities = 30/141 (21%), Positives = 54/141 (38%), Gaps = 7/141 (4%)

Query: 45  QISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 101
            I          L+VL       +++   +   L +L+ L L    L  +  +  G L  
Sbjct: 40  YIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSS 99

Query: 102 LEILSFRGSNIKQLPL--EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF 159
           L+ L+  G+  + L +      LT LQ L + N  +   I     + L+ L EL  +I  
Sbjct: 100 LKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNEL--EIKA 157

Query: 160 SQWDKVEGGSNASLAELKGLS 180
                 +  S  S+ ++  L+
Sbjct: 158 LSLRNYQSQSLKSIRDIHHLT 178

>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 = 60.1 bits (146), Expect = 8e-11
 Identities = 28/197 (14%), Positives = 65/197 (32%), Gaps = 26/197 (13%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
            +  + D+     +++   ++   +              +   E++K +         +P
Sbjct: 269 FNPSESDVVSELGKVETVTIRRLHI--PQFYLFYDLSTVYSLLEKVKRITVENSKVFLVP 326

Query: 72  SSLGR-LINLQTLCLDWCQLEDV-----AAIGQLKKLEILSFRGSNIKQLPLEIG---QL 122
            S  + L +L+ L L    + +      A  G    L+ L    ++++ +         L
Sbjct: 327 CSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTL 386

Query: 123 TRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELK----- 177
             L  LD+S   +   +P +      ++  L  ++S +    V+     +L  L      
Sbjct: 387 KNLTSLDISRN-TFHPMPDS-CQWPEKMRFL--NLSSTGIRVVKTCIPQTLEVLDVSNNN 442

Query: 178 ------GLSKLTTLNIQ 188
                  L +L  L I 
Sbjct: 443 LDSFSLFLPRLQELYIS 459

>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 = 55.1 bits (133), Expect = 5e-09
 Identities = 17/106 (16%), Positives = 48/106 (45%), Gaps = 6/106 (5%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 110
            +  E+++ L+ +      + + +     L+ L +    L+  +    L +L+ L    +
Sbjct: 406 CQWPEKMRFLNLSSTGIRVVKTCI--PQTLEVLDVSNNNLDSFSL--FLPRLQELYISRN 461

Query: 111 NIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
            +K LP +      L ++ +S    L+ +P  +  +L+ L+++++ 
Sbjct: 462 KLKTLP-DASLFPVLLVMKISRN-QLKSVPDGIFDRLTSLQKIWLH 505

>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 = 45.5 bits (108), Expect = 7e-06
 Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 4/77 (5%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           L+VLD +  +  S    L     LQ L +   +L+ +        L ++    + +K +P
Sbjct: 433 LEVLDVSNNNLDSFSLFLP---RLQELYISRNKLKTLPDASLFPVLLVMKISRNQLKSVP 489

Query: 117 LEI-GQLTRLQLLDLSN 132
             I  +LT LQ + L  
Sbjct: 490 DGIFDRLTSLQKIWLHT 506

>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-12
 Identities = 28/116 (24%), Positives = 41/116 (35%), Gaps = 6/116 (5%)

Query: 46  ISDHFFEGTEELKVLDFTG--IHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKK 101
             D  F G   L  L   G     ++L +      NL  L L  CQLE +       L +
Sbjct: 439 DFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHR 498

Query: 102 LEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           L++L+   +N+  L      QL  L  LD S    +E     +      L    + 
Sbjct: 499 LQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFN-RIETSKGILQHFPKSLAFFNLT 553

>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 = 63.1 bits (154), Expect = 1e-11
 Identities = 29/139 (20%), Positives = 47/139 (33%), Gaps = 18/139 (12%)

Query: 57  LKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK 113
            K +D +      L   S      LQ L L  C++E +   A   L  L  L   G+ I+
Sbjct: 34  TKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQ 93

Query: 114 QLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGS 169
                    LT L+ L       L  +    I +L  L++L +    I   +        
Sbjct: 94  SFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAHNFIHSCKLP------ 146

Query: 170 NASLAELKGLSKLTTLNIQ 188
               A    L+ L  +++ 
Sbjct: 147 ----AYFSNLTNLVHVDLS 161

>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 = 62.0 bits (151), Expect = 2e-11
 Identities = 36/179 (20%), Positives = 58/179 (32%), Gaps = 22/179 (12%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFE--GTEELKVLDFTGIHFSSLPSSLGR 76
                +++  P+L    L    N         +   GT  L+ LD +      + ++   
Sbjct: 340 GSISFKKVALPSLSYLDL--SRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMG 397

Query: 77  LINLQTLCLDWCQLEDVA---AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSN 132
           L  LQ L      L+ V    A   L+KL  L    +N K     I   LT L  L ++ 
Sbjct: 398 LEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAG 457

Query: 133 CWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
               +    NV +  + L  L +    +    W                L +L  LN+ 
Sbjct: 458 NSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWG-----------VFDTLHRLQLLNMS 505

>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 = 57.7 bits (140), Expect = 5e-10
 Identities = 24/116 (20%), Positives = 42/116 (36%), Gaps = 6/116 (5%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV---AAIGQLKK 101
                F   E+L  LD +  +           L +L TL +     +D            
Sbjct: 415 TEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTN 474

Query: 102 LEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           L  L      ++Q+   +   L RLQLL++S+  +L  +  +  ++L  L  L   
Sbjct: 475 LTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHN-NLLFLDSSHYNQLYSLSTLDCS 529

>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 = 6e-09
 Identities = 27/176 (15%), Positives = 56/176 (31%), Gaps = 13/176 (7%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG--IHFSSLPSSL 74
           IQ           +L+  +          +          LK L+     IH   LP+  
Sbjct: 92  IQSFSPGSFSGLTSLENLVAV--ETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYF 149

Query: 75  GRLINLQTLCLDWCQLEDV--AAIGQLKKL----EILSFRGSNIKQLPLEIGQLTRLQLL 128
             L NL  + L +  ++ +    +  L++       L    + I  +  +  Q  +L  L
Sbjct: 150 SNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHEL 209

Query: 129 DLSNCWSLEVIPPNVISKLSRLEELYMDI-SFSQWDKVEGGSNASLAELKGLSKLT 183
            L   ++   I    +  L+ L    + +  F     +E    + +  L  ++   
Sbjct: 210 TLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDE 265

>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 = 48.9 bits (117), Expect = 5e-07
 Identities = 32/163 (19%), Positives = 53/163 (32%), Gaps = 25/163 (15%)

Query: 46  ISDHFFEGTEELKVLDFTGIH---FSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 102
                 EG  ++ + +F   +   FS        L N+  + L    ++ +  + +  K 
Sbjct: 250 FEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKW 309

Query: 103 EILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD---ISF 159
           + LS     +KQ P     L  L+ L L+      +        L  L  L +    +SF
Sbjct: 310 QSLSIIRCQLKQFP--TLDLPFLKSLTLTMN-KGSISFKK--VALPSLSYLDLSRNALSF 364

Query: 160 SQWDKVEGGSNASLAEL--------------KGLSKLTTLNIQ 188
           S           SL  L               GL +L  L+ Q
Sbjct: 365 SGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQ 407

>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 = 64.0 bits (156), Expect = 4e-12
 Identities = 31/132 (23%), Positives = 53/132 (40%), Gaps = 8/132 (6%)

Query: 29  PNLQ-LFLLFREGNGPMQISDHFFEGTEELKVLDFTGI-HFSSLPS-SLGRLINLQTLCL 85
             L+ L+L     N    I  + F     L  LD   +     +   +   L NL+ L L
Sbjct: 147 SKLRELWL---RNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNL 203

Query: 86  DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVI 144
             C ++D+  +  L  LE L   G++  ++       L+ L+ L + N   + +I  N  
Sbjct: 204 GMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLIERNAF 262

Query: 145 SKLSRLEELYMD 156
             L+ L EL + 
Sbjct: 263 DGLASLVELNLA 274

>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 = 62.8 bits (153), Expect = 1e-11
 Identities = 39/183 (21%), Positives = 60/183 (32%), Gaps = 21/183 (11%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           +   +R + E+P+ +   N +   L    N    I    F     L+VL         + 
Sbjct: 59  VVCTRRGLSEVPQGIP-SNTRYLNL--MENNIQMIQADTFRHLHHLEVLQLGRNSIRQIE 115

Query: 72  S-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQL 127
             +   L +L TL L    L  +   A   L KL  L  R + I+ +P     ++  L  
Sbjct: 116 VGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMR 175

Query: 128 LDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKLTTL 185
           LDL     LE I       L  L+ L +                   +  L  L  L  L
Sbjct: 176 LDLGELKKLEYISEGAFEGLFNLKYLNLG------------MCNIKDMPNLTPLVGLEEL 223

Query: 186 NIQ 188
            + 
Sbjct: 224 EMS 226

>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 = 64.0 bits (156), Expect = 4e-12
 Identities = 35/174 (20%), Positives = 67/174 (38%), Gaps = 13/174 (7%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRL 77
           I  L + +      L  L    N  + IS   F G   L+ L     + +S+P+ +L  L
Sbjct: 116 IVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHL 175

Query: 78  INLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSN-IKQLPLEIGQLTRLQLLDLSNCW 134
             L  L L    +  +   +  +L +L++L       +  +         L  L +++C 
Sbjct: 176 HGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC- 234

Query: 135 SLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           +L  +P   +  L  L  L  ++S++    +EG        L  L +L  + + 
Sbjct: 235 NLTAVPYLAVRHLVYLRFL--NLSYNPISTIEGSM------LHELLRLQEIQLV 280

>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 = 61.7 bits (150), Expect = 3e-11
 Identities = 36/179 (20%), Positives = 59/179 (32%), Gaps = 23/179 (12%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLG 75
           I+ L +      P+L+   L    N    +    F     L+ L         +P     
Sbjct: 44  IKTLNQDEFASFPHLEELEL--NENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFT 101

Query: 76  RLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSN 132
            L NL  L +   ++  +       L  L+ L    +++  +       L  L+ L L  
Sbjct: 102 GLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEK 161

Query: 133 CWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           C +L  IP   +S L  L  L +    I+      +   S       K L +L  L I 
Sbjct: 162 C-NLTSIPTEALSHLHGLIVLRLRHLNIN-----AIRDYS------FKRLYRLKVLEIS 208

>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 = 60.5 bits (147), Expect = 6e-11
 Identities = 38/174 (21%), Positives = 67/174 (38%), Gaps = 13/174 (7%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHF-SSLPSSLGRL 77
           +  +P         L +L         I D+ F+    LKVL+ +   +  ++  +    
Sbjct: 164 LTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYG 223

Query: 78  INLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCW 134
           +NL +L +  C L  V   A+  L  L  L+   + I  +   +  +L RLQ + L    
Sbjct: 224 LNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGG- 282

Query: 135 SLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
            L V+ P     L+ L  L  ++S +Q   +E            +  L TL + 
Sbjct: 283 QLAVVEPYAFRGLNYLRVL--NVSGNQLTTLEESV------FHSVGNLETLILD 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 = 60.1 bits (146), Expect = 9e-11
 Identities = 39/175 (22%), Positives = 73/175 (41%), Gaps = 17/175 (9%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLG 75
           ++ +P  +     NL    +    N  + + D+ F+    LK L+        +   +  
Sbjct: 92  LKLIPLGVFTGLSNLTKLDI--SENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFS 149

Query: 76  RLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSN 132
            L +L+ L L+ C L  +   A+  L  L +L  R  NI  +      +L RL++L++S+
Sbjct: 150 GLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISH 209

Query: 133 CWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNI 187
              L+ + PN +  L+ L  L   I+      V   +      ++ L  L  LN+
Sbjct: 210 WPYLDTMTPNCLYGLN-LTSL--SITHCNLTAVPYLA------VRHLVYLRFLNL 255

>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 = 56.6 bits (137), Expect = 1e-09
 Identities = 35/179 (19%), Positives = 66/179 (36%), Gaps = 22/179 (12%)

Query: 17  RDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLG 75
           +    +PE +     +L  L    N    ++   F     L+ L+      S++   +  
Sbjct: 21  KRFVAVPEGIP-TETRLLDL--GKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFN 77

Query: 76  RLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSN 132
            L NL+TL L   +L+ +       L  L  L    + I  L   +   L  L+ L++ +
Sbjct: 78  NLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD 137

Query: 133 CWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
              L  I     S L+ LE+L ++   ++      +   +      L  L  L  L ++
Sbjct: 138 N-DLVYISHRAFSGLNSLEQLTLEKCNLT-----SIPTEA------LSHLHGLIVLRLR 184

>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 = 63.2 bits (154), Expect = 5e-12
 Identities = 39/181 (21%), Positives = 70/181 (38%), Gaps = 23/181 (12%)

Query: 10  IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS 69
           I I+  + ++ +   +     +        G G   I     +    L  L+      + 
Sbjct: 22  IKIAAGKSNVTDTVTQADLDGITTLSA--FGTGVTTIE--GVQYLNNLIGLELKDNQITD 77

Query: 70  LPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
           L + L  L  +  L L    L++V+AI  L+ ++ L    + I  +   +  L+ LQ+L 
Sbjct: 78  L-APLKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVT-PLAGLSNLQVLY 135

Query: 130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKLTTLNI 187
           L     +  I P  ++ L+ L+ L +            G+   + L  L  LSKLTTL  
Sbjct: 136 LDLN-QITNISP--LAGLTNLQYLSI------------GNAQVSDLTPLANLSKLTTLKA 180

Query: 188 Q 188
            
Sbjct: 181 D 181

>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 = 62.4 bits (152), Expect = 1e-11
 Identities = 35/171 (20%), Positives = 67/171 (39%), Gaps = 21/171 (12%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           I +L        +    L   GN    + +     G + +K LD T    + + + L  L
Sbjct: 75  ITDLAPLKNLTKITELEL--SGN---PLKNVSAIAGLQSIKTLDLTSTQITDV-TPLAGL 128

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLE 137
            NLQ L LD  Q+ +++ +  L  L+ LS   + +  L   +  L++L  L   +   + 
Sbjct: 129 SNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLT-PLANLSKLTTLKADDN-KIS 186

Query: 138 VIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
            I P  ++ L  L E+++               + ++ L   S L  + + 
Sbjct: 187 DISP--LASLPNLIEVHLK----------NNQISDVSPLANTSNLFIVTLT 225

>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 = 61.6 bits (150), Expect = 1e-11
 Identities = 27/149 (18%), Positives = 50/149 (33%), Gaps = 20/149 (13%)

Query: 43  PMQISDHF-FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKK 101
           P  I+  F          +     + +    +   L  + TL      +  +  +  L  
Sbjct: 6   PTAINVIFPDPALANAIKIAAGKSNVTDT-VTQADLDGITTLSAFGTGVTTIEGVQYLNN 64

Query: 102 LEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ 161
           L  L  + + I  L   +  LT++  L+LS    L+ +    I+ L  ++ L +      
Sbjct: 65  LIGLELKDNQITDLA-PLKNLTKITELELSGN-PLKNVSA--IAGLQSIKTLDL------ 114

Query: 162 WDKVEGGSNA--SLAELKGLSKLTTLNIQ 188
                  S     +  L GLS L  L + 
Sbjct: 115 ------TSTQITDVTPLAGLSNLQVLYLD 137

>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 = 43.1 bits (102), Expect = 3e-05
 Identities = 29/128 (22%), Positives = 44/128 (34%), Gaps = 9/128 (7%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           I  +       NLQ   +        Q+SD        +L  L       S + S L  L
Sbjct: 141 ITNISPLAGLTNLQYLSI--GNA---QVSDLTPLANLSKLTTLKADDNKISDI-SPLASL 194

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLE 137
            NL  + L   Q+ DV+ +     L I++     I   P+       L + ++    S  
Sbjct: 195 PNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQTITNQPVFY--NNNLVVPNVVKGPSGA 252

Query: 138 VIPPNVIS 145
            I P  IS
Sbjct: 253 PIAPATIS 260

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

 Score = 62.7 bits (153), Expect = 7e-12
 Identities = 22/146 (15%), Positives = 43/146 (29%), Gaps = 11/146 (7%)

Query: 45  QISDHFFEGTEELKVLDFTG--IHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 102
            + D        ++ LD     I   +          L+ L L +  + DV       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 103 EILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW 162
           + L    + +  +  E      +  + L N   L +I    +     LE    D+  + +
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLIEKA-LRFSQNLEHF--DLRGNGF 249

Query: 163 DKVEGGSNASLAELKGLSKLTTLNIQ 188
                             ++ T+  Q
Sbjct: 250 H-----CGTLRDFFSKNQRVQTVAKQ 270

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

 Score = 58.8 bits (143), Expect = 2e-10
 Identities = 29/188 (15%), Positives = 61/188 (32%), Gaps = 30/188 (15%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRL 77
           I E+ +       ++  +    +   Q      +    +K LD +G   S +  + L   
Sbjct: 2   IHEIKQNGN--RYKIEKV--TDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPF 57

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP-----------------LEIG 120
             L+ L L    L +   +  L  L  L    + +++L                  +   
Sbjct: 58  TKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCS 117

Query: 121 QLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLS 180
           +    + + L+N   + ++        SR++ L  D+  ++ D V               
Sbjct: 118 RGQGKKNIYLANN-KITMLRDLDEGCRSRVQYL--DLKLNEIDTVNFA-----ELAASSD 169

Query: 181 KLTTLNIQ 188
            L  LN+Q
Sbjct: 170 TLEHLNLQ 177

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

 Score = 48.8 bits (117), Expect = 3e-07
 Identities = 20/123 (16%), Positives = 42/123 (34%), Gaps = 19/123 (15%)

Query: 69  SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRL 125
           ++          +   +    L+    +       ++ L   G+ + Q+    +   T+L
Sbjct: 1   AIHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKL 60

Query: 126 QLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTL 185
           +LL+LS+   L       +  LS L  L +             +N  + EL     + TL
Sbjct: 61  ELLNLSSN-VLYETLD--LESLSTLRTLDL-------------NNNYVQELLVGPSIETL 104

Query: 186 NIQ 188
           +  
Sbjct: 105 HAA 107

>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 = 1e-11
 Identities = 26/101 (25%), Positives = 41/101 (40%), Gaps = 2/101 (1%)

Query: 57  LKVLDFTGIHFSSLPSS-LGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQL 115
             +L  +     +   + L     L  L LD  +L  +   G L  L  L    + ++ L
Sbjct: 33  TTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSL 92

Query: 116 PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           PL    L  L +LD+S    L  +P   +  L  L+ELY+ 
Sbjct: 93  PLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLK 132

>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 = 61.3 bits (149), Expect = 2e-11
 Identities = 30/142 (21%), Positives = 58/142 (40%), Gaps = 8/142 (5%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRL 77
           +         P  +L  L  +     +++          L  LD +     SLP     L
Sbjct: 43  LYTFSLATLMPYTRLTQLNLDRA---ELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTL 99

Query: 78  INLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCW 134
             L  L + + +L  +   A+  L +L+ L  +G+ +K LP  +     +L+ L L+N  
Sbjct: 100 PALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN- 158

Query: 135 SLEVIPPNVISKLSRLEELYMD 156
           +L  +P  +++ L  L+ L + 
Sbjct: 159 NLTELPAGLLNGLENLDTLLLQ 180

>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 = 61.6 bits (150), Expect = 2e-11
 Identities = 44/181 (24%), Positives = 72/181 (39%), Gaps = 27/181 (14%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSL 70
           I     DI+ +      PN+    L   GN   +++D       + L  L         L
Sbjct: 51  IIANNSDIKSVQGIQYLPNVTKLFL--NGN---KLTDIKPLANLKNLGWLFLDENKVKDL 105

Query: 71  PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL 130
            SSL  L  L++L L+   + D+  +  L +LE L    + I  +   + +LT+L  L L
Sbjct: 106 -SSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSL 163

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGSNASLAELKGLSKLTTLNI 187
            +   +  I P  ++ L++L+ LY+    IS              L  L GL  L  L +
Sbjct: 164 EDN-QISDIVP--LAGLTKLQNLYLSKNHIS-------------DLRALAGLKNLDVLEL 207

Query: 188 Q 188
            
Sbjct: 208 F 208

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 54.7 bits (132), Expect = 3e-09
 Identities = 25/119 (21%), Positives = 43/119 (36%), Gaps = 18/119 (15%)

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
            S           L    + D     +L  ++ +    S+IK +   I  L  +  L L+
Sbjct: 18  FSDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLN 76

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN--ASLAELKGLSKLTTLNIQ 188
               L  I P  ++ L  L  L++              N    L+ LK L KL +L+++
Sbjct: 77  GN-KLTDIKP--LANLKNLGWLFL------------DENKVKDLSSLKDLKKLKSLSLE 120

>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 = 43.5 bits (103), Expect = 2e-05
 Identities = 23/111 (20%), Positives = 40/111 (36%), Gaps = 6/111 (5%)

Query: 45  QISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 103
           +I+D        +L  L       S +   L  L  LQ L L    + D+ A+  LK L+
Sbjct: 145 KITDITVLSRLTKLDTLSLEDNQISDI-VPLAGLTKLQNLYLSKNHISDLRALAGLKNLD 203

Query: 104 ILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEEL 153
           +L          P+     L     +  ++     ++ P +IS     E+ 
Sbjct: 204 VLELFSQECLNKPINHQSNLVVPNTVKNTDG---SLVTPEIISDDGDYEKP 251

>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 = 60.8 bits (148), Expect = 3e-11
 Identities = 27/115 (23%), Positives = 36/115 (31%), Gaps = 5/115 (4%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKL 102
           +    F G   L  L         L       L  LQ L L    L+ +       L  L
Sbjct: 96  VDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNL 155

Query: 103 EILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
             L   G+ I  +P      L  L  L L     +  + P+    L RL  LY+ 
Sbjct: 156 THLFLHGNRISSVPERAFRGLHSLDRLLLHQN-RVAHVHPHAFRDLGRLMTLYLF 209

>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 = 45.4 bits (108), Expect = 5e-06
 Identities = 27/129 (20%), Positives = 50/129 (38%), Gaps = 19/129 (14%)

Query: 66  HFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEI-GQL 122
              ++P  +      Q + L   ++  V  A+    + L IL    + + ++       L
Sbjct: 22  GLQAVPVGI--PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGL 79

Query: 123 TRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGSNASLAELKGL 179
             L+ LDLS+   L  + P     L RL  L++D   +      ++  G        +GL
Sbjct: 80  ALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQ-----ELGPGL------FRGL 128

Query: 180 SKLTTLNIQ 188
           + L  L +Q
Sbjct: 129 AALQYLYLQ 137

>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 = 61.3 bits (148), Expect = 3e-11
 Identities = 22/117 (18%), Positives = 42/117 (35%), Gaps = 14/117 (11%)

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
                        L    + D     +L  ++ +    S+IK +   I  L  +  L L+
Sbjct: 15  FPDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLN 73

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
               L  I P  ++ L  L  L+  +  ++   +          LK L KL +L+++
Sbjct: 74  GN-KLTDIKP--LTNLKNLGWLF--LDENKIKDLSS--------LKDLKKLKSLSLE 117

>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 = 59.7 bits (144), Expect = 1e-10
 Identities = 32/152 (21%), Positives = 63/152 (41%), Gaps = 11/152 (7%)

Query: 45  QISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 103
           +I D    +  ++LK L       S + + L  L  L++L L   ++ D+  + +L KL+
Sbjct: 98  KIKDLSSLKDLKKLKSLSLEHNGISDI-NGLVHLPQLESLYLGNNKITDITVLSRLTKLD 156

Query: 104 ILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD 163
            LS   + I  +   +  LT+LQ L LS    +  +    ++ L  L+ L +        
Sbjct: 157 TLSLEDNQISDIV-PLAGLTKLQNLYLSKN-HISDLRA--LAGLKNLDVLELFSQECLNK 212

Query: 164 KVEGGSNASLAELKGLSKLTTLNIQVPDAQIL 195
            +   SN     L   + +   +  +   +I+
Sbjct: 213 PINHQSN-----LVVPNTVKNTDGSLVTPEII 239

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

 Score = 61.2 bits (149), Expect = 4e-11
 Identities = 36/155 (23%), Positives = 57/155 (36%), Gaps = 20/155 (12%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLD-----FTGIHFSSLPS- 72
           +  LP  +     +L  L    N   +I D  F+ T  L+ L       T +  S +PS 
Sbjct: 129 LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSL 188

Query: 73  -----------SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQ 121
                      +L   I ++ L      +  V       +L IL  + +N+      +  
Sbjct: 189 FHANVSYNLLSTLAIPIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTA-WLLN 246

Query: 122 LTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
              L  +DLS    LE I  +   K+ RLE LY+ 
Sbjct: 247 YPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYIS 280

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

 Score = 58.5 bits (142), Expect = 2e-10
 Identities = 31/135 (22%), Positives = 56/135 (41%), Gaps = 9/135 (6%)

Query: 30  NLQLFLLFREGNGPMQISDHFFEGTE----ELKVLDFTGIHFSSLPSS-LGRLINLQTLC 84
           NLQ   +F + +  MQ  D +F   +      K++ F       LP++ L     ++ L 
Sbjct: 16  NLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLN 75

Query: 85  LDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEIGQ-LTRLQLLDLSNCWSLEVIPP 141
           L+  Q+E++   A      ++ L    + I+ LP  + Q +  L +L L     L  +P 
Sbjct: 76  LNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPR 134

Query: 142 NVISKLSRLEELYMD 156
            +     +L  L M 
Sbjct: 135 GIFHNTPKLTTLSMS 149

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

 Score = 57.4 bits (139), Expect = 6e-10
 Identities = 15/102 (14%), Positives = 36/102 (35%), Gaps = 3/102 (2%)

Query: 51  FEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFR 108
                 L  +D +      +      ++  L+ L +   +L  +      +  L++L   
Sbjct: 244 LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLS 303

Query: 109 GSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRL 150
            +++  +     Q  RL+ L L +  S+  +  +    L  L
Sbjct: 304 HNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLSTHHTLKNL 344

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

 Score = 53.9 bits (130), Expect = 1e-08
 Identities = 33/174 (18%), Positives = 61/174 (35%), Gaps = 21/174 (12%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGR-L 77
           +++LP  L     Q+ LL        +I  + F     ++ L         LP  + + +
Sbjct: 57  MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNV 116

Query: 78  INLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEIGQ-LTRLQLLDLSNCW 134
             L  L L+   L  +         KL  LS   +N++++  +  Q  T LQ L LS+  
Sbjct: 117 PLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSN- 175

Query: 135 SLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
            L  +  ++   +  L    +             S   L+ L     +  L+  
Sbjct: 176 RLTHVDLSL---IPSLFHANV-------------SYNLLSTLAIPIAVEELDAS 213

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

 Score = 53.1 bits (128), Expect = 2e-08
 Identities = 36/185 (19%), Positives = 59/185 (31%), Gaps = 26/185 (14%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSL-GRL 77
           I+E+          +  L+   N    +  H F+    L VL       SSLP  +    
Sbjct: 81  IEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNT 140

Query: 78  INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWS 135
             L TL +    LE +          L+ L    + +  + L    +  L   ++S    
Sbjct: 141 PKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDL--SLIPSLFHANVSYN-L 197

Query: 136 LEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELK-------------GLSKL 182
           L  +          +EEL  D S +  + V G  N  L  LK                 L
Sbjct: 198 LSTLAI-----PIAVEEL--DASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGL 250

Query: 183 TTLNI 187
             +++
Sbjct: 251 VEVDL 255

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

 Score = 48.1 bits (115), Expect = 7e-07
 Identities = 24/126 (19%), Positives = 56/126 (44%), Gaps = 14/126 (11%)

Query: 67  FSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQ---LKKLEILSFRGSNIKQLPLEI-GQL 122
           +  + S+L        + +D  Q +DV    +   L   +I++F+ S +++LP  +    
Sbjct: 10  YKCIDSNLQYDCVFYDVHID-MQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSF 68

Query: 123 TRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKL 182
            +++LL+L++   +E I     +    +++LYM   F+    +           + +  L
Sbjct: 69  RQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYM--GFNAIRYLPPHV------FQNVPLL 119

Query: 183 TTLNIQ 188
           T L ++
Sbjct: 120 TVLVLE 125

>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 = 60.7 bits (148), Expect = 6e-11
 Identities = 28/126 (22%), Positives = 49/126 (38%), Gaps = 11/126 (8%)

Query: 67  FSSLPSSLGRLINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRGSNIK-QLP--LEIGQL 122
           FS++ SSL  L  L++L L    +   V+       L  L    +++   +     +G  
Sbjct: 66  FSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSC 125

Query: 123 TRLQLLDLSNCWSLEVIPPNVISKLSRLEELYM-DISFSQWDKVEGGSNASLAELKGLSK 181
           + L+ L++S+         +   KL+ LE L +   S S      G +        G  +
Sbjct: 126 SGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSIS------GANVVGWVLSDGCGE 179

Query: 182 LTTLNI 187
           L  L I
Sbjct: 180 LKHLAI 185

>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 = 2e-10
 Identities = 23/127 (18%), Positives = 43/127 (33%), Gaps = 29/127 (22%)

Query: 57  LKVLDFTGIHFS-SLPSSLGRLINLQTLCLDWCQLE--------------DVAA------ 95
           L+ LD +G   S     ++     L+ L +   Q                 +A       
Sbjct: 225 LQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGE 284

Query: 96  -----IGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLE-VIPPNVISKLS 148
                 G    L  L   G++    +P   G  + L+ L LS+  +    +P + + K+ 
Sbjct: 285 IPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN-NFSGELPMDTLLKMR 343

Query: 149 RLEELYM 155
            L+ L +
Sbjct: 344 GLKVLDL 350

>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 = 57.6 bits (140), Expect = 6e-10
 Identities = 29/120 (24%), Positives = 44/120 (36%), Gaps = 13/120 (10%)

Query: 21  ELPERL-QCPNLQLFLLFR---EGNGPMQISDHFFEGTEELKVLDFTGIHFS-SLPSSLG 75
            +P  L     L+   L+    EG     I          L+ L       +  +PS L 
Sbjct: 433 TIPSSLGSLSKLRDLKLWLNMLEGE----IPQELMYVKT-LETLILDFNDLTGEIPSGLS 487

Query: 76  RLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSN 132
              NL  + L   +L       IG+L+ L IL    ++    +P E+G    L  LDL+ 
Sbjct: 488 NCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNT 547

>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 = 57.2 bits (139), Expect = 9e-10
 Identities = 32/141 (22%), Positives = 56/141 (39%), Gaps = 15/141 (10%)

Query: 21  ELPERLQCPNLQLFLLFREGN---GPMQISDHFFEGTEELKVLDFTGIHFS-SLPSSLGR 76
           ++   L+  +L++  L    N   G   +     +G  ELK L  +G   S  +   + R
Sbjct: 143 KVSGGLKLNSLEVLDLS--ANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD--VSR 198

Query: 77  LINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCW 134
            +NL+ L +        +  +G    L+ L   G+ +       I   T L+LL++S+  
Sbjct: 199 CVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSN- 257

Query: 135 SLE-VIPPNVISKLSRLEELY 154
                IPP     L  L+ L 
Sbjct: 258 QFVGPIPP---LPLKSLQYLS 275

>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 = 46.8 bits (112), Expect = 3e-06
 Identities = 36/140 (25%), Positives = 53/140 (37%), Gaps = 17/140 (12%)

Query: 27  QCPNLQLFLLFREGN---GPMQISDHFFEGTEELKVLDFTGIHFS-SLPSSLGRL-INLQ 81
            C  L+   L    N   G   +          LKVLD +   FS  LP SL  L  +L 
Sbjct: 316 SCSLLESLALS--SNNFSGE--LPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLL 371

Query: 82  TLCLDWCQLEDV--AAIGQ--LKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSL 136
           TL L            + Q     L+ L  + +    ++P  +   + L  L LS    L
Sbjct: 372 TLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFN-YL 430

Query: 137 E-VIPPNVISKLSRLEELYM 155
              IP + +  LS+L +L +
Sbjct: 431 SGTIPSS-LGSLSKLRDLKL 449

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

 Score = 44.1 bits (105), Expect = 2e-05
 Identities = 24/127 (18%), Positives = 40/127 (31%), Gaps = 16/127 (12%)

Query: 40  GNGPMQISDHFFEGTEELK--VLDFTGIHFSSLPSSLGRLINLQTLCLDWCQL--EDVAA 95
           G   + I +   +        +L+F G         L RL       +            
Sbjct: 572 GKRYVYIKNDGMKKECHGAGNLLEFQG----IRSEQLNRLSTRNPCNITSRVYGGHTSPT 627

Query: 96  IGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLS-NCWSLE-VIPPNVISKLSRLEE 152
                 +  L    + +   +P EIG +  L +L+L  N   +   IP   +  L  L  
Sbjct: 628 FDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHN--DISGSIPDE-VGDLRGLNI 684

Query: 153 LYMDISF 159
           L  D+S 
Sbjct: 685 L--DLSS 689

>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 = 59.9 bits (145), Expect = 1e-10
 Identities = 31/137 (22%), Positives = 56/137 (40%), Gaps = 9/137 (6%)

Query: 28  CPNLQLFLLFREGNGPMQISDHFFEGTE----ELKVLDFTGIHFSSLPSS-LGRLINLQT 82
             NLQ   +F + +  MQ  D +F   +      K++ F       LP++ L     ++ 
Sbjct: 20  DSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVEL 79

Query: 83  LCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEIGQ-LTRLQLLDLSNCWSLEVI 139
           L L+  Q+E++   A      ++ L    + I+ LP  + Q +  L +L L     L  +
Sbjct: 80  LNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERN-DLSSL 138

Query: 140 PPNVISKLSRLEELYMD 156
           P  +     +L  L M 
Sbjct: 139 PRGIFHNTPKLTTLSMS 155

>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 = 59.6 bits (144), Expect = 1e-10
 Identities = 36/155 (23%), Positives = 57/155 (36%), Gaps = 20/155 (12%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLD-----FTGIHFSSLPS- 72
           +  LP  +     +L  L    N   +I D  F+ T  L+ L       T +  S +PS 
Sbjct: 135 LSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSL 194

Query: 73  -----------SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQ 121
                      +L   I ++ L      +  V       +L IL  + +N+      +  
Sbjct: 195 FHANVSYNLLSTLAIPIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTA-WLLN 252

Query: 122 LTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
              L  +DLS    LE I  +   K+ RLE LY+ 
Sbjct: 253 YPGLVEVDLSYN-ELEKIMYHPFVKMQRLERLYIS 286

>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 = 56.5 bits (136), Expect = 2e-09
 Identities = 15/102 (14%), Positives = 36/102 (35%), Gaps = 3/102 (2%)

Query: 51  FEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFR 108
                 L  +D +      +      ++  L+ L +   +L  +      +  L++L   
Sbjct: 250 LLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLS 309

Query: 109 GSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRL 150
            +++  +     Q  RL+ L L +  S+  +  +    L  L
Sbjct: 310 HNHLLHVERNQPQFDRLENLYLDHN-SIVTLKLSTHHTLKNL 350

>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 = 53.0 bits (127), Expect = 2e-08
 Identities = 33/174 (18%), Positives = 61/174 (35%), Gaps = 21/174 (12%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGR-L 77
           +++LP  L     Q+ LL        +I  + F     ++ L         LP  + + +
Sbjct: 63  MRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNV 122

Query: 78  INLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEIGQ-LTRLQLLDLSNCW 134
             L  L L+   L  +         KL  LS   +N++++  +  Q  T LQ L LS+  
Sbjct: 123 PLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSN- 181

Query: 135 SLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
            L  +  ++   +  L    +             S   L+ L     +  L+  
Sbjct: 182 RLTHVDLSL---IPSLFHANV-------------SYNLLSTLAIPIAVEELDAS 219

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 46.8 bits (111), Expect = 2e-06
 Identities = 18/91 (19%), Positives = 43/91 (47%), Gaps = 10/91 (10%)

Query: 99  LKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI 157
           L   +I++F+ S +++LP  +     +++LL+L++   +E I     +    +++LYM  
Sbjct: 50  LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYM-- 106

Query: 158 SFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
            F+    +           + +  LT L ++
Sbjct: 107 GFNAIRYLPPHV------FQNVPLLTVLVLE 131

>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 = 59.5 bits (144), Expect = 1e-10
 Identities = 24/163 (14%), Positives = 50/163 (30%), Gaps = 14/163 (8%)

Query: 45  QISDHFFEGTEELKVLDFTG--IHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 102
            + D        ++ LD     I   +          L+ L L +  + DV       KL
Sbjct: 134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKL 193

Query: 103 EILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD------ 156
           + L    + +  +  E      +  + L N   L +I    +     LE   +       
Sbjct: 194 KTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLIEKA-LRFSQNLEHFDLRGNGFHC 251

Query: 157 ----ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQIL 195
                 FS+  +V+  +  ++ +L G ++       +      
Sbjct: 252 GTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAY 294

>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 = 56.0 bits (135), Expect = 2e-09
 Identities = 29/190 (15%), Positives = 61/190 (32%), Gaps = 33/190 (17%)

Query: 17  RDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLG 75
            +I++   R +   +         +   Q      +    +K LD +G   S +  + L 
Sbjct: 3   HEIKQNGNRYKIEKVT-------DSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLA 55

Query: 76  RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP-----------------LE 118
               L+ L L    L +   +  L  L  L    + +++L                  + 
Sbjct: 56  PFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS 115

Query: 119 IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKG 178
             +    + + L+N   + ++        SR++ L  D+  ++ D V             
Sbjct: 116 CSRGQGKKNIYLANN-KITMLRDLDEGCRSRVQYL--DLKLNEIDTVNFA-----ELAAS 167

Query: 179 LSKLTTLNIQ 188
              L  LN+Q
Sbjct: 168 SDTLEHLNLQ 177

>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 = 39.1 bits (91), Expect = 8e-04
 Identities = 28/184 (15%), Positives = 54/184 (29%), Gaps = 29/184 (15%)

Query: 25  RLQCPNLQLFLLFRE------GNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS-LGRL 77
              C  L+ F    +           +++    E      +  +       LP+    RL
Sbjct: 248 GFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRL 307

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLE 137
           I L+                  K+  +LS +GS  ++L  E     R + +D        
Sbjct: 308 IALK-----------------RKEHALLSGQGSETERLECERENQARQREIDALKE-QYR 349

Query: 138 VIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKG--LSKLTTLNIQVPDAQIL 195
            +   V  +      L  +      D+       + AEL G     +  + +Q    +  
Sbjct: 350 TVIDQVTLRKQAKITL--EQKKKALDEQVSNGRRAHAELDGTLQQAVGQIELQHATEEQS 407

Query: 196 PQEW 199
           P + 
Sbjct: 408 PLQL 411

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 58.5 bits (142), Expect = 2e-10
 Identities = 41/149 (27%), Positives = 66/149 (44%), Gaps = 7/149 (4%)

Query: 36  LFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSL-GRLINLQTLCLDWCQLEDVA 94
           L  + N    +    F    +L++L        +LP+ +   L NL+TL +   +L+ + 
Sbjct: 42  LDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALP 101

Query: 95  A--IGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE 151
                QL  L  L    + +K LP  +   LT+L  L L     L+ +P  V  KL+ L+
Sbjct: 102 IGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN-ELQSLPKGVFDKLTSLK 160

Query: 152 ELYMDISFSQWDKVEGGSNASLAELKGLS 180
           EL +    +Q  +V  G+   L ELK L 
Sbjct: 161 ELRLY--NNQLKRVPEGAFDKLTELKTLK 187

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 50.0 bits (120), Expect = 1e-07
 Identities = 42/133 (31%), Positives = 66/133 (49%), Gaps = 7/133 (5%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSL-GRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF 107
           F+  + L+ L  T     +LP  +  +L+NL  L LD  QL+ +       L KL  LS 
Sbjct: 81  FKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSL 140

Query: 108 RGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVE 166
             + ++ LP  +  +LT L+ L L N   L+ +P     KL+ L+ L +D   +Q  +V 
Sbjct: 141 GYNELQSLPKGVFDKLTSLKELRLYNN-QLKRVPEGAFDKLTELKTLKLDN--NQLKRVP 197

Query: 167 GGSNASLAELKGL 179
            G+  SL +LK L
Sbjct: 198 EGAFDSLEKLKML 210

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 44.2 bits (105), Expect = 1e-05
 Identities = 29/114 (25%), Positives = 51/114 (44%), Gaps = 10/114 (8%)

Query: 79  NLQTLCLDWCQLE--DVAAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWS 135
           + + L L   +L      A  +L KL +L    + ++ LP  I  +L  L+ L +++   
Sbjct: 38  DTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN-K 96

Query: 136 LEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLS----KLTTL 185
           L+ +P  V  +L  L EL +    +Q   +      SL +L  LS    +L +L
Sbjct: 97  LQALPIGVFDQLVNLAELRL--DRNQLKSLPPRVFDSLTKLTYLSLGYNELQSL 148

>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 = 58.6 bits (141), Expect = 3e-10
 Identities = 23/101 (22%), Positives = 40/101 (39%), Gaps = 4/101 (3%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           +  LD +     +LP +L  L  L+ L      LE+V  +  L +L+ L    + ++Q  
Sbjct: 465 VTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSA 524

Query: 117 --LEIGQLTRLQLLDLSN--CWSLEVIPPNVISKLSRLEEL 153
               +    RL LL+L        E I   +   L  +  +
Sbjct: 525 AIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSI 565

>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 = 57.1 bits (137), Expect = 8e-10
 Identities = 28/143 (19%), Positives = 56/143 (39%), Gaps = 19/143 (13%)

Query: 55  EELKVLDFTGIHFSSLPSS---------LGRLINLQTLCLDWCQLEDVAAIGQLKKLEIL 105
             LK +D     +     S              +++ L L    L  +  + QL  +  L
Sbjct: 409 STLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHL 468

Query: 106 SFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV 165
               + ++ LP  +  L  L++L  S+  +LE +    ++ L RL+EL   +  ++  + 
Sbjct: 469 DLSHNRLRALPPALAALRCLEVLQASDN-ALENVDG--VANLPRLQEL--LLCNNRLQQS 523

Query: 166 EGGSNASLAELKGLSKLTTLNIQ 188
                 ++  L    +L  LN+Q
Sbjct: 524 A-----AIQPLVSCPRLVLLNLQ 541

>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 = 58.2 bits (141), Expect = 3e-10
 Identities = 38/167 (22%), Positives = 65/167 (38%), Gaps = 14/167 (8%)

Query: 45  QISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKK 101
            IS+   +    L+ L  T    +++   S   L +L+ L L +  L ++  +    L  
Sbjct: 66  YISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSS 125

Query: 102 LEILSFRGSNIKQLPLEI--GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF 159
           L  L+  G+  K L        LT+LQ+L + N  +   I     + L+ LEEL +    
Sbjct: 126 LTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEI--DA 183

Query: 160 SQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQS 206
           S     E  S      LK +  ++ L + +    +L  E       S
Sbjct: 184 SDLQSYEPKS------LKSIQNVSHLILHMKQHILLL-EIFVDVTSS 223

>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 = 51.3 bits (123), Expect = 7e-08
 Identities = 15/151 (9%), Positives = 51/151 (33%), Gaps = 16/151 (10%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLG 75
             ++  +       L+   +  + +          +  + +  L         L    + 
Sbjct: 162 FTKIQRKDFAGLTFLEELEI--DASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVD 219

Query: 76  RLINLQTLCLDWCQLEDV----------AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRL 125
              +++ L L    L+             ++ +      +     ++ Q+   + Q++ L
Sbjct: 220 VTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGL 279

Query: 126 QLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
             L+ S    L+ +P  +  +L+ L+++++ 
Sbjct: 280 LELEFSRN-QLKSVPDGIFDRLTSLQKIWLH 309

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 57.3 bits (139), Expect = 4e-10
 Identities = 28/130 (21%), Positives = 53/130 (40%), Gaps = 19/130 (14%)

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
                L N     L    + D+ +  +L  ++  +   SNI+ L   +   T L+ L LS
Sbjct: 13  FPDPGLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLS 71

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL-------------KG 178
           +   +  + P  +  L++LEEL   ++ ++   + G  +A L+ L               
Sbjct: 72  HN-QISDLSP--LKDLTKLEEL--SVNRNRLKNLNGIPSACLSRLFLDNNELRDTDSLIH 126

Query: 179 LSKLTTLNIQ 188
           L  L  L+I+
Sbjct: 127 LKNLEILSIR 136

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 56.2 bits (136), Expect = 8e-10
 Identities = 30/159 (18%), Positives = 55/159 (34%), Gaps = 23/159 (14%)

Query: 45  QISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 103
            ++D    +    ++  +    +  SL + +    NL+ L L   Q+ D++ +  L KLE
Sbjct: 30  SVTDLVSQKELSGVQNFNGDNSNIQSL-AGMQFFTNLKELHLSHNQISDLSPLKDLTKLE 88

Query: 104 ILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD 163
            LS   + +K   L       L  L L N   L       +  L  LE L   I  ++  
Sbjct: 89  ELSVNRNRLKN--LNGIPSACLSRLFLDNN-ELRDTDS--LIHLKNLEILS--IRNNKLK 141

Query: 164 KVEGGSN--------------ASLAELKGLSKLTTLNIQ 188
            +                    +   L  L K+  +++ 
Sbjct: 142 SIVMLGFLSKLEVLDLHGNEITNTGGLTRLKKVNWIDLT 180

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 46.9 bits (112), Expect = 1e-06
 Identities = 24/126 (19%), Positives = 45/126 (35%), Gaps = 7/126 (5%)

Query: 30  NLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWC 88
           +  L  LF + N   ++ D       + L++L        S+   LG L  L+ L L   
Sbjct: 105 SACLSRLFLDNN---ELRDTDSLIHLKNLEILSIRNNKLKSI-VMLGFLSKLEVLDLHGN 160

Query: 89  QLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLS 148
           ++ +   + +LKK+  +   G      P++      L + +         I P  IS   
Sbjct: 161 EITNTGGLTRLKKVNWIDLTGQKCVNEPVKY--QPELYITNTVKDPDGRWISPYYISNGG 218

Query: 149 RLEELY 154
              +  
Sbjct: 219 SYVDGC 224

>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 = 56.9 bits (138), Expect = 6e-10
 Identities = 32/121 (26%), Positives = 49/121 (40%), Gaps = 6/121 (4%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSLPSSL-GRLINLQTLCLDWCQLEDVA--AIGQLKKL 102
           I D  ++    L  L  TG    SL       L +LQ L      L  +    IG LK L
Sbjct: 67  IEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTL 126

Query: 103 EILSFRGSNIKQLPLE--IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS 160
           + L+   + I+   L      LT L+ LDLS+   ++ I    +  L ++  L + +  S
Sbjct: 127 KELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNLSLDLS 185

Query: 161 Q 161
            
Sbjct: 186 L 186

>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 = 53.1 bits (128), Expect = 1e-08
 Identities = 29/104 (27%), Positives = 41/104 (39%), Gaps = 5/104 (4%)

Query: 57  LKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIK 113
            K LD +      L S S      LQ L L  C+++ +   A   L  L  L   G+ I+
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQ 89

Query: 114 QLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
            L L     L+ LQ L      +L  +    I  L  L+EL + 
Sbjct: 90  SLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVA 132

>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 = 43.8 bits (104), Expect = 2e-05
 Identities = 24/148 (16%), Positives = 55/148 (37%), Gaps = 13/148 (8%)

Query: 19  IQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS--L 74
           IQ L         +LQ  +          + +      + LK L+       S       
Sbjct: 88  IQSLALGAFSGLSSLQKLVA--VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 145

Query: 75  GRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFR----GSNIKQLPLEIGQLTRLQLL 128
             L NL+ L L   +++ +    +  L ++ +L+       + +  +     +  RL+ L
Sbjct: 146 SNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKEL 205

Query: 129 DLSNCWSLEVIPPNVISKLSRLEELYMD 156
            L     L+ +P  +  +L+ L+++++ 
Sbjct: 206 ALDTN-QLKSVPDGIFDRLTSLQKIWLH 232

>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 = 56.7 bits (137), Expect = 1e-09
 Identities = 26/136 (19%), Positives = 50/136 (36%), Gaps = 16/136 (11%)

Query: 32  QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP--SSLGRLINLQTLCLDWCQ 89
            +  +F  GN  + +            ++  +     +L     L R+ +LQ L L+  +
Sbjct: 382 SIPDIFLSGNKLVTLPKINLTAN----LIHLSENRLENLDILYFLLRVPHLQILILNQNR 437

Query: 90  LEDV---AAIGQLKKLEILSFRGSNIKQLPLE------IGQLTRLQLLDLSNCWSLEVIP 140
                      +   LE L    + ++              L+ LQ+L L++   L  +P
Sbjct: 438 FSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHN-YLNSLP 496

Query: 141 PNVISKLSRLEELYMD 156
           P V S L+ L  L ++
Sbjct: 497 PGVFSHLTALRGLSLN 512

>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 = 55.2 bits (133), Expect = 4e-09
 Identities = 32/179 (17%), Positives = 64/179 (35%), Gaps = 17/179 (9%)

Query: 17  RDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG--IHFSSLPSSL 74
            ++ ++P+ L     +  LL    N    ++   F   E+L++L+        +    + 
Sbjct: 14  CNLTQVPQVL--NTTERLLL--SFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAF 69

Query: 75  GRLINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLE---IGQLTRLQLLD 129
             L NL+ L L   ++  +   A   L  L  L      +    L+      L  L  LD
Sbjct: 70  RNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLD 129

Query: 130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           LS      +       KL+ L+ +         +++       L  L+G + L+  ++ 
Sbjct: 130 LSKNQIRSLYLHPSFGKLNSLKSIDF-----SSNQIFLVCEHELEPLQGKT-LSFFSLA 182

>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 = 52.9 bits (127), Expect = 3e-08
 Identities = 42/206 (20%), Positives = 77/206 (37%), Gaps = 21/206 (10%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKL 102
           ++   FE  ++LKVL+      + +   +   L NLQ L L +  L ++  +    L K+
Sbjct: 281 LNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKV 340

Query: 103 EILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIP--PNVIS------KLSRLEEL 153
             +  + ++I  +  +    L +LQ LDL +  +L  I   P++        KL  L ++
Sbjct: 341 AYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDN-ALTTIHFIPSIPDIFLSGNKLVTLPKI 399

Query: 154 YMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRIC--- 210
            +  +     +    +   L  L  +  L  L +          +    E  S       
Sbjct: 400 NLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLG 459

Query: 211 ---IGNKWWSS--WSVKSGLSRLMKL 231
              +   W +   W V  GLS L  L
Sbjct: 460 ENMLQLAWETELCWDVFEGLSHLQVL 485

>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 = 51.3 bits (123), Expect = 8e-08
 Identities = 30/193 (15%), Positives = 66/193 (34%), Gaps = 29/193 (15%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRL 77
           I ++ +        L +L    N   ++    F G  ++  +D    H + +   +   L
Sbjct: 302 INKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFL 361

Query: 78  INLQTLCLDWCQLEDVAAIGQLKKL-----------------EILSFRGSNIKQLPLE-- 118
             LQTL L    L  +  I  +  +                  ++    + ++ L +   
Sbjct: 362 EKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYF 421

Query: 119 IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD---ISFSQWDKVEGGSNASLAE 175
           + ++  LQ+L L+             S+   LE+L++    +  +   ++          
Sbjct: 422 LLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDV------ 475

Query: 176 LKGLSKLTTLNIQ 188
            +GLS L  L + 
Sbjct: 476 FEGLSHLQVLYLN 488

>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 = 56.2 bits (136), Expect = 2e-09
 Identities = 38/190 (20%), Positives = 74/190 (38%), Gaps = 24/190 (12%)

Query: 17  RDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLG 75
             ++++P+ L  P+  L  L  + N   +I D  F+  + L  L       S + P +  
Sbjct: 41  LGLEKVPKDLP-PDTALLDL--QNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFA 97

Query: 76  RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLS-NC 133
            L+ L+ L L   QL+++      K L+ L    + I ++   +   L ++ +++L  N 
Sbjct: 98  PLVKLERLYLSKNQLKELPE-KMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNP 156

Query: 134 WSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL---------------KG 178
                I       + +L  + +  + +    +  G   SL EL               KG
Sbjct: 157 LKSSGIENGAFQGMKKLSYIRI--ADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKG 214

Query: 179 LSKLTTLNIQ 188
           L+ L  L + 
Sbjct: 215 LNNLAKLGLS 224

>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 = 52.3 bits (126), Expect = 2e-08
 Identities = 23/171 (13%), Positives = 55/171 (32%), Gaps = 23/171 (13%)

Query: 28  CPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLD 86
              L    +         I          L  L   G   + + + SL  L NL  L L 
Sbjct: 170 MKKLSYIRI--ADTNITTIPQGLPPS---LTELHLDGNKITKVDAASLKGLNNLAKLGLS 224

Query: 87  WCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS-NCWSLEVIPPNV 143
           +  +  V   ++     L  L    + + ++P  +     +Q++ L  N  ++  I  N 
Sbjct: 225 FNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNN--NISAIGSND 282

Query: 144 I------SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
                  +K +    + +  +  Q+ +++  +       + +     + + 
Sbjct: 283 FCPPGYNTKKASYSGVSLFSNPVQYWEIQPST------FRCVYVRAAVQLG 327

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 16/128 (12%), Positives = 36/128 (28%), Gaps = 17/128 (13%)

Query: 19  IQELPERL--QCPNLQ-LFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLG 75
           I ++         NL  L L     N    + +     T  L+ L         +P  L 
Sbjct: 204 ITKVDAASLKGLNNLAKLGL---SFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLA 260

Query: 76  RLINLQTLCLDWCQLEDVAA--------IGQLKKLEILSFRGSNIKQLPLEIG---QLTR 124
               +Q + L    +  + +          +      +S   + ++   ++      +  
Sbjct: 261 DHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYV 320

Query: 125 LQLLDLSN 132
              + L N
Sbjct: 321 RAAVQLGN 328

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 56.0 bits (135), Expect = 2e-09
 Identities = 27/139 (19%), Positives = 53/139 (38%), Gaps = 6/139 (4%)

Query: 47  SDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLE 103
           ++        L  L  +  H + + S +   + NL+ L L    L  +       L+ LE
Sbjct: 56  AEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALE 115

Query: 104 ILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEEL-YMDISFSQ 161
           +L    ++I  +       + +LQ L LS    +   P  +I   ++L +L  +D+S ++
Sbjct: 116 VLLLYNNHIVVVDRNAFEDMAQLQKLYLSQN-QISRFPVELIKDGNKLPKLMLLDLSSNK 174

Query: 162 WDKVEGGSNASLAELKGLS 180
             K+       L       
Sbjct: 175 LKKLPLTDLQKLPAWVKNG 193

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 55.2 bits (133), Expect = 3e-09
 Identities = 35/153 (22%), Positives = 59/153 (38%), Gaps = 9/153 (5%)

Query: 19  IQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGR 76
           +  L        L  L  L    N    IS   F     L+ LD +  H  +L       
Sbjct: 51  LSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSD 110

Query: 77  LINLQTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI----GQLTRLQLLDL 130
           L  L+ L L    +  V   A   + +L+ L    + I + P+E+     +L +L LLDL
Sbjct: 111 LQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDL 170

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMDISFSQWD 163
           S+   L+ +P   + KL    +  + +  +  +
Sbjct: 171 SSN-KLKKLPLTDLQKLPAWVKNGLYLHNNPLE 202

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 48.7 bits (116), Expect = 5e-07
 Identities = 26/135 (19%), Positives = 48/135 (35%), Gaps = 32/135 (23%)

Query: 56  ELKVLDFTGIHFSSLPS--SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIK 113
              +LD +  + S L +  +  RL NL +L L    L           +   +F      
Sbjct: 40  YTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLN---------FISSEAFVP---- 86

Query: 114 QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASL 173
                   +  L+ LDLS+   L  +   + S L  LE L +    +    V+  +    
Sbjct: 87  --------VPNLRYLDLSSN-HLHTLDEFLFSDLQALEVLLL--YNNHIVVVDRNA---- 131

Query: 174 AELKGLSKLTTLNIQ 188
              + +++L  L + 
Sbjct: 132 --FEDMAQLQKLYLS 144

>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 = 4e-09
 Identities = 19/107 (17%), Positives = 36/107 (33%), Gaps = 8/107 (7%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQL 115
           LK L  +G   +SLP        L+ L +   +L  +      L  L   S   + + +L
Sbjct: 223 LKELIVSGNRLTSLPVLPS---ELKELMVSGNRLTSLPMLPSGLLSL---SVYRNQLTRL 276

Query: 116 PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW 162
           P  +  L+    ++L     L       + +++        I     
Sbjct: 277 PESLIHLSSETTVNLEGN-PLSERTLQALREITSAPGYSGPIIRFDM 322

>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 = 51.8 bits (124), Expect = 5e-08
 Identities = 34/177 (19%), Positives = 58/177 (32%), Gaps = 34/177 (19%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP 71
           +++ +  +  LP+ L   ++    L    N    +         EL+ L+ +G   +SLP
Sbjct: 45  LNVGESGLTTLPDCL-PAHITT--LVIPDNNLTSLPALP----PELRTLEVSGNQLTSLP 97

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS 131
                L+ L         L  +        L  L   G+ +  LP+    L  L + D  
Sbjct: 98  VLPPGLLELSIFSNPLTHLPAL-----PSGLCKLWIFGNQLTSLPVLPPGLQELSVSDN- 151

Query: 132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL-KGLSKLTTLNI 187
               L  +P       S L +L+               N  L  L    S L  L++
Sbjct: 152 ---QLASLPAL----PSELCKLWA-------------YNNQLTSLPMLPSGLQELSV 188

>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 = 48.7 bits (116), Expect = 5e-07
 Identities = 27/133 (20%), Positives = 45/133 (33%), Gaps = 29/133 (21%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQL 115
           L+ L  +    +SLP+       L  L     QL  +      L++L +     + +  L
Sbjct: 143 LQELSVSDNQLASLPALPS---ELCKLWAYNNQLTSLPMLPSGLQELSV---SDNQLASL 196

Query: 116 PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAE 175
           P    +L +L   +      L  +P       S L+EL +             S   L  
Sbjct: 197 PTLPSELYKLWAYNN----RLTSLPAL----PSGLKELIV-------------SGNRLTS 235

Query: 176 L-KGLSKLTTLNI 187
           L    S+L  L +
Sbjct: 236 LPVLPSELKELMV 248

>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 = 40.6 bits (95), Expect = 3e-04
 Identities = 16/97 (16%), Positives = 27/97 (27%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           L  L       + LP SL  L +  T+ L+   L +       +      + G  I+   
Sbjct: 263 LLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIRFDM 322

Query: 117 LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEEL 153
                    + L L+    L        +   R    
Sbjct: 323 AGASAPRETRALHLAAADWLVPAREGEPAPADRWHMF 359

>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 = 55.0 bits (133), Expect = 4e-09
 Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 12/102 (11%)

Query: 55  EELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQ 114
           + L V +      S LP        L+ L +   QLE +  +     L+I+    +++K+
Sbjct: 114 KSLLVDNNNLKALSDLPP------LLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKK 167

Query: 115 LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           LP     L     +   N   LE +P   +  L  L  +Y D
Sbjct: 168 LPDLPPSLEF---IAAGNN-QLEELPE--LQNLPFLTAIYAD 203

>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 = 54.6 bits (132), Expect = 5e-09
 Identities = 19/102 (18%), Positives = 35/102 (34%), Gaps = 8/102 (7%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           L  +         LP       +L+++      LE++  +  L  L  +    + +K LP
Sbjct: 197 LTAIYADNNSLKKLPDLPL---SLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLP 253

Query: 117 LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS 158
                L  L + D      L  + P +   L+ L+      S
Sbjct: 254 DLPPSLEALNVRDN----YLTDL-PELPQSLTFLDVSENIFS 290

>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 = 45.4 bits (108), Expect = 7e-06
 Identities = 28/155 (18%), Positives = 51/155 (32%), Gaps = 33/155 (21%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLI 78
           ++ELPE    P L       + N    +     +    L+ L+    + + LP     L 
Sbjct: 227 LEELPELQNLPFLTTIYA--DNN---LLK-TLPDLPPSLEALNVRDNYLTDLPELPQSLT 280

Query: 79  -----------------NLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQ 121
                            NL  L     ++  +        LE L+   + + +LP    +
Sbjct: 281 FLDVSENIFSGLSELPPNLYYLNASSNEIRSL--CDLPPSLEELNVSNNKLIELPALPPR 338

Query: 122 LTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           L R   L  S    L  +P         L++L+++
Sbjct: 339 LER---LIASFN-HLAEVPEL----PQNLKQLHVE 365

>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 = 45.4 bits (108), Expect = 7e-06
 Identities = 14/117 (11%), Positives = 37/117 (31%), Gaps = 24/117 (20%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLK--------------- 100
           L+ L  +  H + +P       NL+ L +++  L +       ++               
Sbjct: 339 LERLIASFNHLAEVPELPQ---NLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPELP 395

Query: 101 -KLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
             L+ L    + +++ P     +  L++        +            +LE+   +
Sbjct: 396 QNLKQLHVETNPLREFPDIPESVEDLRMNSE----RVVDPYEFAHETTDKLEDDVFE 448

>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 = 42.7 bits (101), Expect = 5e-05
 Identities = 24/153 (15%), Positives = 43/153 (28%), Gaps = 27/153 (17%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQL---------------KK 101
           L+       + + +P     + +       W + E  A  G                 ++
Sbjct: 13  LQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQ 72

Query: 102 LEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI-SFS 160
              L      +  LP     L  L      +C SL  +P      L  L     ++ + S
Sbjct: 73  AHELELNNLGLSSLPELPPHLESLVA----SCNSLTELPEL-PQSLKSLLVDNNNLKALS 127

Query: 161 QWDK------VEGGSNASLAELKGLSKLTTLNI 187
                     V       L EL+  S L  +++
Sbjct: 128 DLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDV 160

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 54.5 bits (132), Expect = 5e-09
 Identities = 25/108 (23%), Positives = 40/108 (37%), Gaps = 9/108 (8%)

Query: 57  LKVLDFTGI-HFS-SLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNI 112
           L  L   GI +    +P ++ +L  L  L +    +       + Q+K L  L F  + +
Sbjct: 78  LNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNAL 137

Query: 113 K-QLPLEIGQLTRLQLLDLSNCWSLE-VIPPNVISKLSRLEELYMDIS 158
              LP  I  L  L  +       +   IP +     S+L    M IS
Sbjct: 138 SGTLPPSISSLPNLVGITFDGN-RISGAIPDS-YGSFSKLFT-SMTIS 182

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 51.0 bits (123), Expect = 8e-08
 Identities = 21/100 (21%), Positives = 41/100 (41%), Gaps = 13/100 (13%)

Query: 62  FTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV----AAIGQLKKLEILSFRGSN--IKQL 115
           + G+    L  +  +   +  L L    L       +++  L  L  L   G N  +  +
Sbjct: 38  WLGV----LCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPI 93

Query: 116 PLEIGQLTRLQLLDLSNCWSLE-VIPPNVISKLSRLEELY 154
           P  I +LT+L  L +++  ++   IP   +S++  L  L 
Sbjct: 94  PPAIAKLTQLHYLYITHT-NVSGAIPDF-LSQIKTLVTLD 131

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 48.3 bits (116), Expect = 5e-07
 Identities = 21/79 (26%), Positives = 30/79 (37%), Gaps = 3/79 (3%)

Query: 57  LKVLDFTGIHFS-SLPSSLGRLINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRGSNIK- 113
           L  +D +            G   N Q + L    L  D+  +G  K L  L  R + I  
Sbjct: 199 LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYG 258

Query: 114 QLPLEIGQLTRLQLLDLSN 132
            LP  + QL  L  L++S 
Sbjct: 259 TLPQGLTQLKFLHSLNVSF 277

>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 = 54.4 bits (131), Expect = 7e-09
 Identities = 27/139 (19%), Positives = 51/139 (36%), Gaps = 7/139 (5%)

Query: 24  ERLQCPNLQLFLLFREGNGPMQISDHFFEGTE--ELKVLDFTGIHFSSLPSSL-GRLINL 80
           + L   N                 +  F+G E   +K  D +     +L  S+     +L
Sbjct: 242 QSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDL 301

Query: 81  QTLCLDWCQLEDVA--AIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLE 137
           + L L   ++  +   A   L  L  L+   + +  +   +   L +L++LDLS    + 
Sbjct: 302 EQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYN-HIR 360

Query: 138 VIPPNVISKLSRLEELYMD 156
            +       L  L+EL +D
Sbjct: 361 ALGDQSFLGLPNLKELALD 379

>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 = 51.7 bits (124), Expect = 6e-08
 Identities = 42/203 (20%), Positives = 67/203 (33%), Gaps = 13/203 (6%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQ-ISDHFFEGTEELKVLDFTGIHFSSLPSS-LGR 76
           I EL E        L  L  E   P   I ++ F G   L +L      F  L +     
Sbjct: 42  IAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNG 101

Query: 77  LINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRGSNIKQLPLEI--GQLTRLQLLDL 130
           L NL+ L L  C L+           L  LE+L  R +NIK++        + R  +LDL
Sbjct: 102 LANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDL 161

Query: 131 S-NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAE--LKGLSKLTTLNI 187
           + N      I    +          + +S      +                + +TTL++
Sbjct: 162 TFNKVK--SICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDL 219

Query: 188 QVPDAQILPQEWVFVELQSYRIC 210
                +    +  F  +   +I 
Sbjct: 220 SGNGFKESMAKRFFDAIAGTKIQ 242

>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 = 40.9 bits (96), Expect = 2e-04
 Identities = 25/133 (18%), Positives = 43/133 (32%), Gaps = 28/133 (21%)

Query: 57  LKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQL 115
           +  +D +    + L   S  RL +LQ L ++      V            +FRG      
Sbjct: 32  VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNN--------TFRG------ 77

Query: 116 PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAE 175
                 L+ L +L L        +     + L+ LE L +         + G        
Sbjct: 78  ------LSSLIILKLDYN-QFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNF------ 124

Query: 176 LKGLSKLTTLNIQ 188
            K L+ L  L ++
Sbjct: 125 FKPLTSLEMLVLR 137

>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 = 53.2 bits (128), Expect = 2e-08
 Identities = 23/155 (14%), Positives = 50/155 (32%), Gaps = 22/155 (14%)

Query: 45  QISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEI 104
           +++         L  L+      + +   +     L  L     +      +    +L  
Sbjct: 117 KLTKLDVSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTT 174

Query: 105 LSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK 164
           L    + I +L   + Q   L  L+     ++  +    +++  +L  L  D S ++  +
Sbjct: 175 LDCSFNKITELD--VSQNKLLNRLNCDTN-NITKLD---LNQNIQLTFL--DCSSNKLTE 226

Query: 165 VEGGSNASLAEL------------KGLSKLTTLNI 187
           ++      L                 LSKLTTL+ 
Sbjct: 227 IDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHC 261

>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 = 52.4 bits (126), Expect = 4e-08
 Identities = 27/173 (15%), Positives = 56/173 (32%), Gaps = 27/173 (15%)

Query: 27  QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLD 86
           Q  NL       + N   ++++       +L  L+      + L   + +   L  L   
Sbjct: 83  QNTNLTYLAC--DSN---KLTNLDVTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLNCA 135

Query: 87  WCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISK 146
              L ++  +    +L  L    +       ++   T+L  LD S    +  +    +S+
Sbjct: 136 RNTLTEI-DVSHNTQLTELDCHLNKKITKL-DVTPQTQLTTLDCSFN-KITELD---VSQ 189

Query: 147 LSRLEELYMDISFSQWDKVEGGSNASLAEL------------KGLSKLTTLNI 187
              L  L  +   +   K++   N  L  L              L++LT  + 
Sbjct: 190 NKLLNRL--NCDTNNITKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDC 240

>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 = 52.0 bits (125), Expect = 4e-08
 Identities = 27/118 (22%), Positives = 48/118 (40%), Gaps = 9/118 (7%)

Query: 71  PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL 130
             S  +L  L +L      + D+  I +L  L  L    +NI  L L   Q T L  L  
Sbjct: 35  TISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLDL--SQNTNLTYLAC 92

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELK-GLSKLTTLNI 187
            +   L  +    ++ L++L  L  +   ++  K++   N  L  L    + LT +++
Sbjct: 93  DSN-KLTNLD---VTPLTKLTYL--NCDTNKLTKLDVSQNPLLTYLNCARNTLTEIDV 144

>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 = 45.4 bits (108), Expect = 7e-06
 Identities = 23/130 (17%), Positives = 44/130 (33%), Gaps = 21/130 (16%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLP 116
           L  L         +   L     L     + C+      +    +L +L  + + I +L 
Sbjct: 256 LTTLHCIQTDLLEID--LTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELD 313

Query: 117 LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL 176
             + Q  +L  L L+N   L  +    +S  ++L+ L                NA + + 
Sbjct: 314 --LSQNPKLVYLYLNNT-ELTELD---VSHNTKLKSLSC-------------VNAHIQDF 354

Query: 177 KGLSKLTTLN 186
             + K+  LN
Sbjct: 355 SSVGKIPALN 364

>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 = 42.0 bits (99), Expect = 9e-05
 Identities = 14/106 (13%), Positives = 32/106 (30%), Gaps = 7/106 (6%)

Query: 27  QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLD 86
               L L     +      I++       +L  L       + L   +     L++L   
Sbjct: 295 HNTQLYLLDC--QAA---GITELDLSQNPKLVYLYLNNTELTELD--VSHNTKLKSLSCV 347

Query: 87  WCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSN 132
              ++D +++G++  L            +P E      L +    +
Sbjct: 348 NAHIQDFSSVGKIPALNNNFEAEGQTITMPKETLTNNSLTIAVSPD 393

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 51.6 bits (124), Expect = 2e-08
 Identities = 28/139 (20%), Positives = 54/139 (38%), Gaps = 18/139 (12%)

Query: 54  TEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIK 113
             E   L         + ++L  L   + L L    +E ++++  ++ L ILS   + IK
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIK 83

Query: 114 QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELY----MDISFSQWDKVEGGS 169
           ++         L+ L +S          N I+ LS +E+L     + +S ++        
Sbjct: 84  KIENLDAVADTLEELWISY---------NQIASLSGIEKLVNLRVLYMSNNKITNWG--- 131

Query: 170 NASLAELKGLSKLTTLNIQ 188
              + +L  L KL  L + 
Sbjct: 132 --EIDKLAALDKLEDLLLA 148

>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 = 52.1 bits (125), Expect = 4e-08
 Identities = 34/143 (23%), Positives = 54/143 (37%), Gaps = 11/143 (7%)

Query: 19  IQELPERLQCPNLQLFLLFREGNGPMQ-ISDHFFEG-TEELKVLDFTGIHFSSLPSSLGR 76
           I+ LP+  +  +LQ  LL  + N  +  I  + F G + E  +L         + +S   
Sbjct: 116 IKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFN 175

Query: 77  LINLQTLCL-DWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSN 132
              L  L L D   LE++            IL    + I  LP      L +L+     N
Sbjct: 176 GTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYN 235

Query: 133 CWSLEVIPPNVISKLSRLEELYM 155
              L+ +P   + KL  L E  +
Sbjct: 236 ---LKKLPT--LEKLVALMEASL 253

>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 = 51.8 bits (124), Expect = 4e-08
 Identities = 34/174 (19%), Positives = 66/174 (37%), Gaps = 10/174 (5%)

Query: 29  PNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDW 87
           P L   +   + N  + I+   F+    L+ L  +      LP       +    L +  
Sbjct: 79  PKLH-EIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQD 137

Query: 88  -CQLEDVAA---IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNV 143
              +  +     +G   +  IL    + I+++       T+L  L+LS+  +LE +P +V
Sbjct: 138 NINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV 197

Query: 144 ISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQ 197
               S    L  DIS ++   +      +L +L+  S  T    ++P  + L  
Sbjct: 198 FHGASGPVIL--DISRTRIHSLPSYGLENLKKLRARS--TYNLKKLPTLEKLVA 247

>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 = 46.0 bits (109), Expect = 4e-06
 Identities = 24/125 (19%), Positives = 44/125 (35%), Gaps = 13/125 (10%)

Query: 13  SLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS 72
           ++ +     L        L         NG  +I +  F GT+  ++      +   LP+
Sbjct: 143 TIERNSFVGLSFESVILWLN-------KNGIQEIHNSAFNGTQLDELNLSDNNNLEELPN 195

Query: 73  -SLGRLINLQTLCLDWCQLEDVAAIG--QLKKLEILSFRGSNIKQLPLEIGQLTRLQLLD 129
                      L +   ++  + + G   LKKL   S    N+K+LP  + +L  L    
Sbjct: 196 DVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARST--YNLKKLPT-LEKLVALMEAS 252

Query: 130 LSNCW 134
           L+   
Sbjct: 253 LTYPS 257

>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 = 40.2 bits (94), Expect = 3e-04
 Identities = 19/93 (20%), Positives = 36/93 (38%), Gaps = 18/93 (19%)

Query: 102 LEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS 160
              L F  + ++ +          L+ +++S    LEVI  +V S L +L E+ ++    
Sbjct: 32  AIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE---- 87

Query: 161 QWDKVEGGSNASLAEL-----KGLSKLTTLNIQ 188
                   +N +L  +     + L  L  L I 
Sbjct: 88  -------KAN-NLLYINPEAFQNLPNLQYLLIS 112

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 50.7 bits (121), Expect = 1e-07
 Identities = 19/104 (18%), Positives = 35/104 (33%), Gaps = 9/104 (8%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLE----ILSFRGSN 111
           L+VL       + LP       +L+ L +    LE + A   +    E        R + 
Sbjct: 162 LEVLSVRNNQLTFLPELPE---SLEALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENR 218

Query: 112 IKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYM 155
           I  +P  I  L     + L +   L       +S+ +   + + 
Sbjct: 219 ITHIPENILSLDPTCTIILEDN-PLSSRIRESLSQQTAQPDYHG 261

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 43.0 bits (101), Expect = 4e-05
 Identities = 19/119 (15%), Positives = 38/119 (31%), Gaps = 13/119 (10%)

Query: 41  NGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSL--GRLINLQTLCLDWCQLEDV-AAIG 97
           N        +F   ++ +     G + +   S L    +     L L+   L  +   + 
Sbjct: 20  NTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSLPDNLP 79

Query: 98  QLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
              ++ +L    + +  LP     L  L   D      L  +P       + L+ L +D
Sbjct: 80  P--QITVLEITQNALISLPELPASLEYLDACDN----RLSTLPEL----PASLKHLDVD 128

>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 = 50.2 bits (120), Expect = 2e-07
 Identities = 28/149 (18%), Positives = 51/149 (34%), Gaps = 17/149 (11%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSLPSSLG---RLINLQTLCLDWCQLEDVAAIG---QL 99
                     EL+ L         L        ++ +LQ L +    +      G     
Sbjct: 339 TVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWT 398

Query: 100 KKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISF 159
           K L  L+   + +           R+++LDL +   ++ IP  V+ KL  L+EL +  + 
Sbjct: 399 KSLLSLNMSSNILTDTIFRCL-PPRIKVLDLHSN-KIKSIPKQVV-KLEALQELNV--AS 453

Query: 160 SQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           +Q   V  G          L+ L  + + 
Sbjct: 454 NQLKSVPDGI------FDRLTSLQKIWLH 476

>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 = 47.2 bits (112), Expect = 2e-06
 Identities = 20/105 (19%), Positives = 48/105 (45%), Gaps = 7/105 (6%)

Query: 56  ELKVLDFTGIHFSSLPSS-LGRLINLQTLCLDWCQLE--DVAAIGQLKKLEILSFRGSNI 112
           +  +L+ +  + S L +S +  L  L+ L +   +++  D++     ++LE L    + +
Sbjct: 22  KTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKL 81

Query: 113 KQLPLEIGQLTRLQLLDLSNCWSLEVIPPN-VISKLSRLEELYMD 156
            ++         L+ LDLS   + + +P       +S+L+ L + 
Sbjct: 82  VKIS--CHPTVNLKHLDLSFN-AFDALPICKEFGNMSQLKFLGLS 123

>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 = 2e-05
 Identities = 31/195 (15%), Positives = 70/195 (35%), Gaps = 21/195 (10%)

Query: 19  IQELPER--LQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGR 76
           I EL     L    L++ ++    N    +    F+  +EL+ LD +      +      
Sbjct: 33  ISELWTSDILSLSKLRILII--SHNRIQYLDISVFKFNQELEYLDLSHNKLVKISC--HP 88

Query: 77  LINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSN 132
            +NL+ L L +   + +      G + +L+ L    +++++  +  I  L   ++L +  
Sbjct: 89  TVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLG 148

Query: 133 CWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDA 192
               E   P     L       + I F         +N     +  +S  T  N+++ + 
Sbjct: 149 ETYGEKEDP---EGLQDFNTESLHIVFP--------TNKEFHFILDVSVKTVANLELSNI 197

Query: 193 QILPQEWVFVELQSY 207
           + + ++       S 
Sbjct: 198 KCVLEDNKCSYFLSI 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 = 47.3 bits (113), Expect = 8e-07
 Identities = 20/105 (19%), Positives = 41/105 (39%), Gaps = 7/105 (6%)

Query: 56  ELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSN-I 112
           + +    T      +PS      + QTL L    L  +   A   L  +  +       +
Sbjct: 12  QEEDFRVTCKDIQRIPSLPP---STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTL 68

Query: 113 KQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           +QL       L+++  +++ N  +L  I P+ + +L  L+ L + 
Sbjct: 69  QQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIF 113

>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 = 43.5 bits (103), Expect = 2e-05
 Identities = 23/148 (15%), Positives = 42/148 (28%), Gaps = 15/148 (10%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSLP--SSLGRLINLQTLCL-DWCQLEDVAA---IGQL 99
           I     +    LK L          P  + +        L + D   +  +      G  
Sbjct: 96  IDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLC 155

Query: 100 KKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKL-SRLEELYMDIS 158
            +   L    +    +       T+L  + L+    L VI  +    + S    L  D+S
Sbjct: 156 NETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLL--DVS 213

Query: 159 FSQWDKVEGGSNASLAELKGLSKLTTLN 186
            +    +          L+ L +L   N
Sbjct: 214 QTSVTALPSKG------LEHLKELIARN 235

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 47.7 bits (114), Expect = 1e-06
 Identities = 26/136 (19%), Positives = 47/136 (34%), Gaps = 15/136 (11%)

Query: 57  LKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNI 112
           L  L         +P      L N+  + +    LE+           KL  L    + +
Sbjct: 125 LVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKL 184

Query: 113 KQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNAS 172
             +P ++     L  L L +   ++ I    + + S+L  L +    +Q   +E GS   
Sbjct: 185 TGIPKDL--PETLNELHLDHN-KIQAIELEDLLRYSKLYRLGL--GHNQIRMIENGS--- 236

Query: 173 LAELKGLSKLTTLNIQ 188
              L  L  L  L++ 
Sbjct: 237 ---LSFLPTLRELHLD 249

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 21/142 (14%), Positives = 37/142 (26%), Gaps = 22/142 (15%)

Query: 19  IQELPERL--QCPNLQ-LFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLG 75
           IQ +      +   L  L L     N    I +        L+ L       S +P+ L 
Sbjct: 205 IQAIELEDLLRYSKLYRLGL---GHNQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLP 261

Query: 76  RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS-NCW 134
            L  LQ + L    +          K+ +  F             +      + L  N  
Sbjct: 262 DLKLLQVVYLHTNNIT---------KVGVNDFCPVGFG------VKRAYYNGISLFNNPV 306

Query: 135 SLEVIPPNVISKLSRLEELYMD 156
               + P     ++    +   
Sbjct: 307 PYWEVQPATFRCVTDRLAIQFG 328

>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 = 46.2 bits (110), Expect = 2e-06
 Identities = 35/125 (28%), Positives = 56/125 (44%), Gaps = 5/125 (4%)

Query: 36  LFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSL-GRLINLQTLCLDWCQLEDVA 94
           L  +  G   +SD  F G  +L  L+       +L + +   L  L TL L   QL  + 
Sbjct: 40  LDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLP 99

Query: 95  A--IGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE 151
                 L +L+ L   G+ +K LP  +  +LT+L+ L L+    L+ IP     KL+ L+
Sbjct: 100 LGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ-LQSIPAGAFDKLTNLQ 158

Query: 152 ELYMD 156
            L + 
Sbjct: 159 TLSLS 163

>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 = 44.7 bits (106), Expect = 7e-06
 Identities = 29/103 (28%), Positives = 50/103 (48%), Gaps = 5/103 (4%)

Query: 58  KVLDFTGIHFSSLPSS-LGRLINLQTLCLDWCQLEDVAA--IGQLKKLEILSFRGSNIKQ 114
           + LD      ++L  +    L  L  L LD+ QL+ ++A     L +L  L    + +  
Sbjct: 38  EKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLAS 97

Query: 115 LPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           LPL +   LT+L  L L     L+ +P  V  +L++L+EL ++
Sbjct: 98  LPLGVFDHLTQLDKLYLGGN-QLKSLPSGVFDRLTKLKELRLN 139

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 45.4 bits (108), Expect = 5e-06
 Identities = 32/110 (29%), Positives = 54/110 (49%), Gaps = 5/110 (4%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSL-GRLINLQTLCLDWCQLEDVAA--IGQLKKLEILSF 107
            +    L  L  TG    SLP+ +  +L NL+ L L   QL+ +      +L  L  L+ 
Sbjct: 81  LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNL 140

Query: 108 RGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
             + ++ LP  +  +LT L  LDL +   L+ +P  V  KL++L++L + 
Sbjct: 141 AHNQLQSLPKGVFDKLTNLTELDL-SYNQLQSLPEGVFDKLTQLKDLRLY 189

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 42.3 bits (100), Expect = 5e-05
 Identities = 26/107 (24%), Positives = 47/107 (43%), Gaps = 3/107 (2%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 110
                 +  +        S+   +  L N++ L L   +L D++A+ +L  L  L   G+
Sbjct: 37  QNELNSIDQIIANNSDIKSVQG-IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGN 95

Query: 111 NIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
            ++ LP  +  +LT L+ L L     L+ +P  V  KL+ L  L + 
Sbjct: 96  QLQSLPNGVFDKLTNLKELVLVEN-QLQSLPDGVFDKLTNLTYLNLA 141

>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 = 45.7 bits (108), Expect = 5e-06
 Identities = 25/170 (14%), Positives = 45/170 (26%), Gaps = 21/170 (12%)

Query: 28  CPNLQLFLLFREGNGPMQISD----HFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL 83
             +L++   +       +IS             L  +         L        NL+  
Sbjct: 191 NTSLEVLNFYMTEFA--KISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEF 248

Query: 84  CLDWCQLED-----VAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEV 138
           C      +         +   +KL  L        ++P+      +++ LDL        
Sbjct: 249 CGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETE 308

Query: 139 IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL-KGLSKLTTLNI 187
               +I K   LE L                +  L  L +   +L  L I
Sbjct: 309 DHCTLIQKCPNLEVLETRNVI---------GDRGLEVLAQYCKQLKRLRI 349

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 41.1 bits (96), Expect = 2e-04
 Identities = 25/177 (14%), Positives = 51/177 (28%), Gaps = 26/177 (14%)

Query: 27  QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLD 86
                    L  +   P +  +       +L  L  + +  + +P        ++ L L 
Sbjct: 244 NLEEFCGGSLNEDIGMPEKYMN--LVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLL 301

Query: 87  WCQLED---VAAIGQLKKLEILSFRGS-NIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPN 142
           +  LE       I +   LE+L  R     + L +      +L+ L +      + +   
Sbjct: 302 YALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDE 361

Query: 143 -----------VISKLSRLEELYMDISFSQWDKVEGGSNASLAEL-KGLSKLTTLNI 187
                      +      LE +   +  S        +N SL  +   L  L    +
Sbjct: 362 EGLVSQRGLIALAQGCQELEYM--AVYVSD------ITNESLESIGTYLKNLCDFRL 410

>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 = 44.6 bits (106), Expect = 6e-06
 Identities = 27/125 (21%), Positives = 52/125 (41%), Gaps = 5/125 (4%)

Query: 36  LFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVA 94
           +  E N    I    F   ++L+ +D +    S L   +   L +L +L L   ++ ++ 
Sbjct: 37  IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELP 96

Query: 95  A--IGQLKKLEILSFRGSNIKQLPLEIGQ-LTRLQLLDLSNCWSLEVIPPNVISKLSRLE 151
                 L  L++L    + I  L ++  Q L  L LL L +   L+ I     S L  ++
Sbjct: 97  KSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDN-KLQTIAKGTFSPLRAIQ 155

Query: 152 ELYMD 156
            +++ 
Sbjct: 156 TMHLA 160

>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 = 39.2 bits (92), Expect = 5e-04
 Identities = 19/109 (17%), Positives = 42/109 (38%), Gaps = 11/109 (10%)

Query: 99  LKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI 157
            KKL  +    + I +L  +    L  L  L L     +  +P ++   L  L+ L +  
Sbjct: 55  YKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN-KITELPKSLFEGLFSLQLLLL-- 111

Query: 158 SFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQS 206
           + ++ + +   +       + L  L  L++     Q + +   F  L++
Sbjct: 112 NANKINCLRVDA------FQDLHNLNLLSLYDNKLQTIAKG-TFSPLRA 153

>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 = 44.9 bits (106), Expect = 1e-05
 Identities = 24/129 (18%), Positives = 51/129 (39%), Gaps = 7/129 (5%)

Query: 32  QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSL-----GRLINLQTLCLD 86
           +L  L  + NG              +  L+   +  +SL S           ++  L L 
Sbjct: 378 RLQTLILQRNGLKNFFKVALMTKN-MSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLS 436

Query: 87  WCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISK 146
              L          K+++L    + I  +P ++  L  LQ L++++   L+ +P  V  +
Sbjct: 437 SNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASN-QLKSVPDGVFDR 495

Query: 147 LSRLEELYM 155
           L+ L+ +++
Sbjct: 496 LTSLQYIWL 504

>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 = 44.5 bits (105), Expect = 2e-05
 Identities = 23/105 (21%), Positives = 40/105 (38%), Gaps = 9/105 (8%)

Query: 57  LKVLDFTGIHFSSLPSS-LGRLINLQTLCLDWCQLE--DVAAIGQLKKLEILSFRGSNIK 113
            K L  +    S L    +  L  L+ L L   ++   D       + LE L    + ++
Sbjct: 54  TKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQ 113

Query: 114 QLPLEIGQLTRLQLLDLS-NCWSLEVIPPN-VISKLSRLEELYMD 156
            +      +  L+ LDLS N +   V+P       L++L  L + 
Sbjct: 114 NIS--CCPMASLRHLDLSFNDFD--VLPVCKEFGNLTKLTFLGLS 154

>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 = 42.2 bits (99), Expect = 8e-05
 Identities = 21/115 (18%), Positives = 39/115 (33%), Gaps = 15/115 (13%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 110
               + L+ L        +         N+ +L      L  + +       +       
Sbjct: 373 CSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHA----YDRTCAWAE 428

Query: 111 NIKQLPLEIGQLT---------RLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           +I  L L    LT         ++++LDL N   +  IP +V + L  L+EL + 
Sbjct: 429 SILVLNLSSNMLTGSVFRCLPPKVKVLDLHNN-RIMSIPKDV-THLQALQELNVA 481

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 43.7 bits (103), Expect = 3e-05
 Identities = 30/181 (16%), Positives = 57/181 (31%), Gaps = 29/181 (16%)

Query: 27  QCPNLQLFLLFREGNGPMQISDH----FFEGTEELKVLD-FTGIHFSSLPSSLGRLINLQ 81
           + P L+                        G +EL+ L  F     + LP+       L 
Sbjct: 233 RAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLT 292

Query: 82  TLCLDWCQLED---VAAIGQLKKLEILSFRGSNIKQLPLE--IGQLTRLQLLDLSNCWSL 136
           TL L +  ++    V  + Q  KL+ L      I+   LE        L+ L +      
Sbjct: 293 TLNLSYATVQSYDLVKLLCQCPKLQRLWVL-DYIEDAGLEVLASTCKDLRELRVFPSEPF 351

Query: 137 EVIPPNVIS---------KLSRLEELYMDISFSQWDKVEGGSNASLAEL-KGLSKLTTLN 186
            + P   ++            +LE +          ++   +NA+L  + +    +T   
Sbjct: 352 VMEPNVALTEQGLVSVSMGCPKLESV-----LYFCRQM---TNAALITIARNRPNMTRFR 403

Query: 187 I 187
           +
Sbjct: 404 L 404

>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 = 42.9 bits (101), Expect = 3e-05
 Identities = 33/176 (18%), Positives = 63/176 (35%), Gaps = 16/176 (9%)

Query: 22  LPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG--IHFSSLPSSLGRLIN 79
            P+       Q  + FR     M            ++ +D +   I  S+L   L +   
Sbjct: 60  HPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSK 119

Query: 80  LQTLCLDWCQLEDVA--AIGQLKKLEILSFRG-SNIKQLPLE--IGQLTRLQLLDLSNCW 134
           LQ L L+  +L D     + +   L  L+  G S   +  L+  +   +RL  L+LS C+
Sbjct: 120 LQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCF 179

Query: 135 SL--EVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL-KGLSKLTTLNI 187
               + +   V      + +L +          +    + L+ L +    L  L++
Sbjct: 180 DFTEKHVQVAVAHVSETITQLNL------SGYRKNLQKSDLSTLVRRCPNLVHLDL 229

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 41.6 bits (98), Expect = 5e-05
 Identities = 25/108 (23%), Positives = 42/108 (38%), Gaps = 6/108 (5%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 110
                EL VLD    +   +       +NL+ L L    L  V+ + +L KL+ L    +
Sbjct: 23  PAAVREL-VLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSEN 81

Query: 111 NIKQL-PLEIGQLTRLQLLDLSNCW--SLEVIPPNVISKLSRLEELYM 155
            I     +   +L  L  L+LS      +  +    + KL  L+ L +
Sbjct: 82  RIFGGLDMLAEKLPNLTHLNLSGNKLKDISTL--EPLKKLECLKSLDL 127

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.8 bits (96), Expect = 6e-05
 Identities = 24/108 (22%), Positives = 40/108 (37%), Gaps = 6/108 (5%)

Query: 51  FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGS 110
               +EL VLD +  +   L         L+ L      L  +A + +L KL+ L    +
Sbjct: 16  PSDVKEL-VLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDN 74

Query: 111 NIKQL-PLEIGQLTRLQLLDLSNC--WSLEVIPPNVISKLSRLEELYM 155
            +     +   +   L  L+LS      L  I    + KL  L+ L +
Sbjct: 75  RVSGGLEVLAEKCPNLTHLNLSGNKIKDLSTI--EPLKKLENLKSLDL 120

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 22/117 (18%), Positives = 47/117 (40%), Gaps = 22/117 (18%)

Query: 79  NLQTLCLDWCQLEDVAAIG---QLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWS 135
           +++ L LD  +  +    G   + ++LE LS     +  +   + +L +L+ L+LS+   
Sbjct: 18  DVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIA-NLPKLNKLKKLELSDN-R 75

Query: 136 LEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN-----ASLAELKGLSKLTTLNI 187
           +      +  K   L  L +              N     +++  LK L  L +L++
Sbjct: 76  VSGGLEVLAEKCPNLTHLNL------------SGNKIKDLSTIEPLKKLENLKSLDL 120

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 41.8 bits (98), Expect = 8e-05
 Identities = 34/192 (17%), Positives = 63/192 (32%), Gaps = 28/192 (14%)

Query: 23  PERLQCPNLQLFLL--FREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLIN 79
                 P+L +  L           +++        LKVL     H  +     +     
Sbjct: 115 LLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPA 174

Query: 80  LQTLCLDWCQLEDVAAI------GQLKKLEILSFRGSNIKQLPLEIGQL----TRLQLLD 129
           L TL L          +       +   L++L+ R + ++        L     +LQ LD
Sbjct: 175 LSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLD 234

Query: 130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL------------- 176
           LS+    +          S+L  L  ++SF+   +V  G  A L+ L             
Sbjct: 235 LSHNSLRDAAGAPSCDWPSQLNSL--NLSFTGLKQVPKGLPAKLSVLDLSYNRLDRNPSP 292

Query: 177 KGLSKLTTLNIQ 188
             L ++  L+++
Sbjct: 293 DELPQVGNLSLK 304

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 41.2 bits (97), Expect = 9e-05
 Identities = 27/103 (26%), Positives = 49/103 (47%), Gaps = 5/103 (4%)

Query: 58  KVLDFTGIHFSSLPSS-LGRLINLQTLCLDWCQLEDVAA--IGQLKKLEILSFRGSNIKQ 114
             LD       SLP+     L +L  L L   +L+ +      +L  L  L+   + ++ 
Sbjct: 31  TYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQS 90

Query: 115 LPLEI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD 156
           LP  +  +LT+L+ L L+    L+ +P  V  KL++L++L + 
Sbjct: 91  LPNGVFDKLTQLKELALNTN-QLQSLPDGVFDKLTQLKDLRLY 132

>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 = 41.6 bits (97), Expect = 1e-04
 Identities = 20/122 (16%), Positives = 35/122 (28%), Gaps = 17/122 (13%)

Query: 116 PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAE 175
              +     L  L + N   L+ +    +  L  L  L   I  S    V   +      
Sbjct: 24  LHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNL--TIVKSGLRFVAPDA------ 75

Query: 176 LKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICI-GNKW-------WSSWSVKSGLSR 227
                +L+ LN+     + L  +     L    + + GN         W     + GL  
Sbjct: 76  FHFTPRLSRLNLSFNALESLSWK-TVQGLSLQELVLSGNPLHCSCALRWLQRWEEEGLGG 134

Query: 228 LM 229
           + 
Sbjct: 135 VP 136

>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 = 40.1 bits (93), Expect = 3e-04
 Identities = 24/88 (27%), Positives = 32/88 (36%), Gaps = 4/88 (4%)

Query: 49  HFFEGTEELKVLDFTG-IHFSSLPS-SLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEI 104
           H   G E L  L      H   L    L  L  L+ L +    L  VA  A     +L  
Sbjct: 25  HHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSR 84

Query: 105 LSFRGSNIKQLPLEIGQLTRLQLLDLSN 132
           L+   + ++ L  +  Q   LQ L LS 
Sbjct: 85  LNLSFNALESLSWKTVQGLSLQELVLSG 112

>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 = 41.8 bits (97), Expect = 1e-04
 Identities = 31/159 (19%), Positives = 49/159 (30%), Gaps = 49/159 (30%)

Query: 65  IHFSSLPSSLGRLINLQTLCL----DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEI- 119
           ++  +  S    L  LQ L      +W    D                 SNIK     I 
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD---------------HSSNIKLRIHSIQ 231

Query: 120 GQLTRLQ--------LLDLSNCWSLEVIPP-NVISKL---SRLEELYMDISFSQWDKVEG 167
            +L RL         LL L N  + +     N+  K+   +R          + +     
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR------FKQVTDFLSAAT 285

Query: 168 GSNASLAEL-KGLSK-------LTTLNIQVPDAQILPQE 198
            ++ SL      L+        L  L+ +  D   LP+E
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD---LPRE 321

>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 = 40.2 bits (93), Expect = 4e-04
 Identities = 36/228 (15%), Positives = 68/228 (29%), Gaps = 60/228 (26%)

Query: 2   EETIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLD 61
            E +   P  +S+    I++        N +  +   +    ++ S         L VL+
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWD--NWK-HVNCDKLTTIIESS---------LNVLE 367

Query: 62  FTGI--HFSSL---PSSLGRLINLQTLCLDWCQL--EDVAAIGQLKKLEILS--FRGSN- 111
                  F  L   P S    I    L L W  +   DV  +  + KL   S   +    
Sbjct: 368 PAEYRKMFDRLSVFPPSA--HIPTILLSLIWFDVIKSDVMVV--VNKLHKYSLVEKQPKE 423

Query: 112 -----------IKQLPLEIGQLTRLQLLD---LSNCWSLEVIPPNVIS------------ 145
                      +K        L R  ++D   +   +  + + P  +             
Sbjct: 424 STISIPSIYLELKVKLENEYALHR-SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482

Query: 146 ------KLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNI 187
                 +++    +++D  F +  K+   S A  A    L+ L  L  
Sbjct: 483 NIEHPERMTLFRMVFLDFRFLE-QKIRHDSTAWNASGSILNTLQQLKF 529

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 25/122 (20%), Positives = 45/122 (36%), Gaps = 20/122 (16%)

Query: 72  SSLGRLINLQTLCLDWCQLEDVAAIG-QLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL 130
           +     +  + L L   ++  +  +G  L + + + F  + I++L      L RL+ L +
Sbjct: 13  AQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLV 71

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN-----ASLAELKGLSKLTTL 185
           +N   +  I   +   L  L EL +             +N       L  L  L  LT L
Sbjct: 72  NNN-RICRIGEGLDQALPDLTELIL------------TNNSLVELGDLDPLASLKSLTYL 118

Query: 186 NI 187
            I
Sbjct: 119 CI 120

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 39.3 bits (92), Expect = 3e-04
 Identities = 18/104 (17%), Positives = 38/104 (36%), Gaps = 5/104 (4%)

Query: 55  EELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQ 114
              + LD  G     + +    L     +     ++  +     L++L+ L    + I +
Sbjct: 19  VRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICR 78

Query: 115 LPLEIGQ-LTRLQLLDLSNCW--SLEVIPPNVISKLSRLEELYM 155
           +   + Q L  L  L L+N     L  +  + ++ L  L  L +
Sbjct: 79  IGEGLDQALPDLTELILTNNSLVELGDL--DPLASLKSLTYLCI 120

>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 = 40.4 bits (95), Expect = 2e-04
 Identities = 34/131 (25%), Positives = 52/131 (39%), Gaps = 6/131 (4%)

Query: 36  LFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSL-GRLINLQTLCLDWCQLEDVA 94
           L+   N   ++    F+    LK L        +LP  +   L  L  L L   QL  + 
Sbjct: 45  LYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLP 104

Query: 95  A--IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEE 152
           +    +L  L+ L    + + +LP  I +LT L  L L     L+ IP     +LS L  
Sbjct: 105 SAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQN-QLKSIPHGAFDRLSSLTH 163

Query: 153 LYMDISFSQWD 163
            Y+    + WD
Sbjct: 164 AYLFG--NPWD 172

>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 = 38.5 bits (90), Expect = 7e-04
 Identities = 25/123 (20%), Positives = 45/123 (36%), Gaps = 6/123 (4%)

Query: 18  DIQELPERLQCPNL-QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSL-G 75
           +   L        L QL  +    N    I +  FEG   +  +  T     ++   +  
Sbjct: 43  EFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFK 102

Query: 76  RLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDL-S 131
            L +L+TL L   ++  V   +   L  + +LS   + I  +       L  L  L+L +
Sbjct: 103 GLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLLA 162

Query: 132 NCW 134
           N +
Sbjct: 163 NPF 165

>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 = 38.5 bits (90), Expect = 8e-04
 Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 4/70 (5%)

Query: 89  QLEDVAAIGQLKKLEILSFRGSNIKQLPLEI-GQLTRLQLLDLS-NCWSLEVIPPNVISK 146
            LE      +L +L  ++F  + I  +        + +  + L+ N   LE +   +   
Sbjct: 46  VLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSN--RLENVQHKMFKG 103

Query: 147 LSRLEELYMD 156
           L  L+ L + 
Sbjct: 104 LESLKTLMLR 113

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.95
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.93
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.93
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.93
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.93
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.93
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.92
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.92
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.92
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.92
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.92
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.92
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.92
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.91
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.91
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.91
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.91
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.91
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.91
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.91
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.91
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.91
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.91
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.91
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.91
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.91
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.9
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.9
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.9
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.9
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.9
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.9
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.9
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.9
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.9
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.9
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.9
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.89
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.89
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.89
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.89
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.89
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.89
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.89
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.89
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.89
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.88
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.88
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.88
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.88
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.88
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.88
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.88
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.88
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.87
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.87
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.87
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.87
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.87
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.87
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.87
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.87
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.87
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.86
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.86
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.86
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.86
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.86
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.86
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.85
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.85
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.85
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.85
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.85
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.85
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.85
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.84
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.84
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.84
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.84
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.84
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.83
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.83
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.83
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.82
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.82
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.81
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.81
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.81
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.81
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.8
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.8
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.8
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.8
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.8
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.8
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.8
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.79
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.79
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.78
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.78
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.78
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.78
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.78
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.77
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.77
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.77
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.77
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.76
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.75
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.74
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	99.72
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.72
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.7
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.7
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.69
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.68
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.67
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.66
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.66
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.64
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.64
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.64
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.63
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.62
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.62
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.62
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.6
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	99.57
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.55
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.55
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.54
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	99.51
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.48
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.47
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.46
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	99.46
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.42
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.42
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.4
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	99.4
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.37
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	99.31
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.22
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.14
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.9
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.8
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.75
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.72
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.61
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.52
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	98.49
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.41
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.32
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	98.31
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.18
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.14
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.06
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	98.0
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.74
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	97.68
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	97.15
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	97.0

>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=99.95  E-value=4.5e-27  Score=189.03  Aligned_cols=214  Identities=21%  Similarity=0.306  Sum_probs=178.5

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            5 IRKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      ...+++.|++++|.++.+|+.+ .+++|+.|++ +.+. +..+|.. +..+++|++|++++|.++.+|..+..+++|++|
T Consensus        79 ~~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L-~~n~-l~~lp~~-~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L  155 (328)
T 4fcg_A           79 TQPGRVALELRSVPLPQFPDQAFRLSHLQHMTI-DAAG-LMELPDT-MQQFAGLETLTLARNPLRALPASIASLNRLREL  155 (328)
T ss_dssp             TSTTCCEEEEESSCCSSCCSCGGGGTTCSEEEE-ESSC-CCCCCSC-GGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEE
T ss_pred             cccceeEEEccCCCchhcChhhhhCCCCCEEEC-CCCC-ccchhHH-HhccCCCCEEECCCCccccCcHHHhcCcCCCEE
Confidence            3578999999999999999877 8999999999 5444 4477776 489999999999999999999999999999999


Q ss_pred             eccCcCCC-Cc-cc---------cCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcE
Q 042164           84 CLDWCQLE-DV-AA---------IGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEE  152 (235)
Q Consensus        84 ~l~~~~l~-~~-~~---------~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~  152 (235)
                      ++++|... .+ ..         ++.+++|++|++++|.++.+|..++.+++|++|++++|. +..++.. ++.+++|++
T Consensus       156 ~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~-l~~l~~~-l~~l~~L~~  233 (328)
T 4fcg_A          156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGPA-IHHLPKLEE  233 (328)
T ss_dssp             EEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSC-CCCCCGG-GGGCTTCCE
T ss_pred             ECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCC-CCcCchh-hccCCCCCE
Confidence            99997654 33 33         345899999999999999999999999999999999998 5567776 889999999


Q ss_pred             EEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccc-cccccceeEEEecccccccchhhhhhhhhcc
Q 042164          153 LYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMK  230 (235)
Q Consensus       153 L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~  230 (235)
                      |++++|.+.+.        .+..++.+++|+.|++++|.+. .+|..+ .+++|+.|+++ ++...+.  .|.++.++++
T Consensus       234 L~Ls~n~~~~~--------~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~-~n~~~~~--iP~~l~~L~~  302 (328)
T 4fcg_A          234 LDLRGCTALRN--------YPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLR-GCVNLSR--LPSLIAQLPA  302 (328)
T ss_dssp             EECTTCTTCCB--------CCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECT-TCTTCCC--CCGGGGGSCT
T ss_pred             EECcCCcchhh--------hHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCC-CCCchhh--ccHHHhhccC
Confidence            99999988744        5667888999999999998765 788777 88999999995 4444333  3477888888


Q ss_pred             ccCC
Q 042164          231 LQGL  234 (235)
Q Consensus       231 L~~L  234 (235)
                      |+.+
T Consensus       303 L~~l  306 (328)
T 4fcg_A          303 NCII  306 (328)
T ss_dssp             TCEE
T ss_pred             ceEE
Confidence            7654

>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=99.93  E-value=5.5e-25  Score=173.44  Aligned_cols=200  Identities=26%  Similarity=0.386  Sum_probs=165.5

Q ss_pred             cccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCcc-CCCC-ChhhcCCcc
Q 042164            4 TIRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH-FSSL-PSSLGRLIN   79 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~~~~-~~~l~~l~~   79 (235)
                      ..++++++|++++|.++.++.. + .+++|+.|++  .++.+..++...|..+++|++|++++|. ++.+ +..+..+++
T Consensus        29 ~~~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l--~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~  106 (285)
T 1ozn_A           29 GIPAASQRIFLHGNRISHVPAASFRACRNLTILWL--HSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR  106 (285)
T ss_dssp             TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEEC--CSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTT
T ss_pred             CCCCCceEEEeeCCcCCccCHHHcccCCCCCEEEC--CCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcC
Confidence            3467899999999999877754 3 8999999999  4455555655557889999999999997 7776 567889999


Q ss_pred             CcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEec
Q 042164           80 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD  156 (235)
Q Consensus        80 L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~  156 (235)
                      |++|++++|.+.++  ..++.+++|++|++++|.++.++.. +..+++|++|++++|. +..++...+..+++|++|+++
T Consensus       107 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~  185 (285)
T 1ozn_A          107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPERAFRGLHSLDRLLLH  185 (285)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCc-ccccCHHHhcCccccCEEECC
Confidence            99999999998877  6688899999999999999977654 7889999999999998 666776668889999999999


Q ss_pred             cccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEecccc
Q 042164          157 ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKW  215 (235)
Q Consensus       157 ~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~  215 (235)
                      +|.+++.        .+..+..+++|+.|++++|.+..+|...  .+++|+.|++. ++.+
T Consensus       186 ~n~l~~~--------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~-~N~~  237 (285)
T 1ozn_A          186 QNRVAHV--------HPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN-DNPW  237 (285)
T ss_dssp             SSCCCEE--------CTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECC-SSCE
T ss_pred             CCccccc--------CHhHccCcccccEeeCCCCcCCcCCHHHcccCcccCEEecc-CCCc
Confidence            9988744        4667788899999999999999888653  78899999994 5555

>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=99.93  E-value=5.1e-25  Score=177.03  Aligned_cols=194  Identities=22%  Similarity=0.310  Sum_probs=169.2

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCC-CCChhhcC------
Q 042164            5 IRKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFS-SLPSSLGR------   76 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~-~~~~~l~~------   76 (235)
                      .+++|++|++++|.+..+|..+ .+++|+.|++ +.+ .+..+|.. +..+++|++|++++|.+. .+|..+..      
T Consensus       102 ~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~L-s~n-~l~~lp~~-l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~  178 (328)
T 4fcg_A          102 RLSHLQHMTIDAAGLMELPDTMQQFAGLETLTL-ARN-PLRALPAS-IASLNRLRELSIRACPELTELPEPLASTDASGE  178 (328)
T ss_dssp             GGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEE-ESC-CCCCCCGG-GGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCC
T ss_pred             hCCCCCEEECCCCCccchhHHHhccCCCCEEEC-CCC-ccccCcHH-HhcCcCCCEEECCCCCCccccChhHhhccchhh
Confidence            3679999999999999999877 8999999999 544 45578876 589999999999997655 47766554      


Q ss_pred             ---CccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcE
Q 042164           77 ---LINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEE  152 (235)
Q Consensus        77 ---l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~  152 (235)
                         +++|++|++++|.+..+ ..++.+++|++|++++|.++.+|..+..+++|++|++++|.+.+.+|.. ++.+++|++
T Consensus       179 ~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~-~~~l~~L~~  257 (328)
T 4fcg_A          179 HQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPI-FGGRAPLKR  257 (328)
T ss_dssp             EEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCCBCCCC-TTCCCCCCE
T ss_pred             hccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCcchhhhHHH-hcCCCCCCE
Confidence               99999999999999988 7799999999999999999999989999999999999999878888876 899999999


Q ss_pred             EEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccc-cccccceeEEE
Q 042164          153 LYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW-VFVELQSYRIC  210 (235)
Q Consensus       153 L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~-~~~~L~~l~l~  210 (235)
                      |++++|.+.+.        .+..+..+++|+.|++++|.+. .+|..+ .+++++.+++.
T Consensus       258 L~L~~n~~~~~--------~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~  309 (328)
T 4fcg_A          258 LILKDCSNLLT--------LPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVP  309 (328)
T ss_dssp             EECTTCTTCCB--------CCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECC
T ss_pred             EECCCCCchhh--------cchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCC
Confidence            99999987743        5667889999999999998865 899887 88888888773

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

Probab=99.93  E-value=3.9e-24  Score=167.35  Aligned_cols=197  Identities=21%  Similarity=0.344  Sum_probs=167.1

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh-hcCCccCcEEe
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS-LGRLINLQTLC   84 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~l~~L~~L~   84 (235)
                      ..+.+.++++++.++.+|..+ .++++.|++  .++.+..++...|..+++|++|++++|.++.++.. +..+++|++|+
T Consensus        15 ~~~~~~l~~~~~~l~~ip~~~-~~~l~~L~l--~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~   91 (270)
T 2o6q_A           15 NNNKNSVDCSSKKLTAIPSNI-PADTKKLDL--QSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLW   91 (270)
T ss_dssp             ETTTTEEECTTSCCSSCCSCC-CTTCSEEEC--CSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEE
T ss_pred             CCCCCEEEccCCCCCccCCCC-CCCCCEEEC--cCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEE
Confidence            456789999999999998876 478999999  55566667766678999999999999999988754 57899999999


Q ss_pred             ccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           85 LDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        85 l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      +++|.+..+  ..+..+++|++|++++|.++.++.. +..+++|++|++++|. +..++...+..+++|++|++++|.++
T Consensus        92 l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n~l~  170 (270)
T 2o6q_A           92 VTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRLYNNQLK  170 (270)
T ss_dssp             CCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCS
T ss_pred             CCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCc-CCccCHhHccCCcccceeEecCCcCc
Confidence            999999977  5678899999999999999977654 7899999999999998 66777766889999999999999988


Q ss_pred             ccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEecccc
Q 042164          162 WDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKW  215 (235)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~  215 (235)
                      ..        ....+..+++|+.|++++|.++.+|...  .+++|+.|++ .++.|
T Consensus       171 ~~--------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l-~~N~~  217 (270)
T 2o6q_A          171 RV--------PEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQL-QENPW  217 (270)
T ss_dssp             CC--------CTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEEC-CSSCB
T ss_pred             Ee--------ChhHhccCCCcCEEECCCCcCCcCCHHHhccccCCCEEEe-cCCCe
Confidence            43        3345778899999999999999888764  7889999999 46655

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

Probab=99.93  E-value=1.8e-25  Score=178.62  Aligned_cols=209  Identities=20%  Similarity=0.250  Sum_probs=136.3

Q ss_pred             CCCcEEecCCCCCC---CCCCcC-CCCCccEEEeccC-CCCCcccchhhhhCCCCCcEEeecCccCC-CCChhhcCCccC
Q 042164            7 KGPIAISLPQRDIQ---ELPERL-QCPNLQLFLLFRE-GNGPMQISDHFFEGTEELKVLDFTGIHFS-SLPSSLGRLINL   80 (235)
Q Consensus         7 ~~l~~L~l~~~~l~---~i~~~~-~l~~L~~L~l~~~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~~-~~~~~l~~l~~L   80 (235)
                      .+++.|+++++.+.   .+|..+ .+++|+.|++ +. +.....+|.. |..+++|++|++++|.++ .+|..+..+++|
T Consensus        50 ~~l~~L~L~~~~l~~~~~~~~~l~~l~~L~~L~L-~~~n~l~~~~p~~-l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L  127 (313)
T 1ogq_A           50 YRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYI-GGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDFLSQIKTL  127 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEE-EEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGGGGGCTTC
T ss_pred             ceEEEEECCCCCccCCcccChhHhCCCCCCeeeC-CCCCcccccCChh-HhcCCCCCEEECcCCeeCCcCCHHHhCCCCC
Confidence            46778888888876   366666 7888888888 43 4555556655 477888888888888877 467777788888


Q ss_pred             cEEeccCcCCCC-c-cccCCCCCCcEEEecCCCCC-CcchhhccCC-CCcEEcccCCcCCCCCchhhhcCCCCCcEEEec
Q 042164           81 QTLCLDWCQLED-V-AAIGQLKKLEILSFRGSNIK-QLPLEIGQLT-RLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD  156 (235)
Q Consensus        81 ~~L~l~~~~l~~-~-~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~-~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~  156 (235)
                      ++|++++|.+.+ + ..++.+++|++|++++|.++ .+|..+..++ +|++|++++|.+.+.+|.. +..+. |++|+++
T Consensus       128 ~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~-~~~l~-L~~L~Ls  205 (313)
T 1ogq_A          128 VTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT-FANLN-LAFVDLS  205 (313)
T ss_dssp             CEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGG-GGGCC-CSEEECC
T ss_pred             CEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChH-HhCCc-ccEEECc
Confidence            888888887773 3 66777778888888888777 6677777776 7777777777644445444 44444 6666666


Q ss_pred             cccccccccCC---------------CCCccchhcccCCCccceeeecCCCC-CCCccc-cccccceeEEEecccccccc
Q 042164          157 ISFSQWDKVEG---------------GSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW-VFVELQSYRICIGNKWWSSW  219 (235)
Q Consensus       157 ~n~~~~~~~~~---------------~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~-~~~~L~~l~l~~~~~~~~~~  219 (235)
                      +|.+++.....               ........+..+++|++|++++|.+. .+|..+ .+++|+.|+++ ++...+..
T Consensus       206 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls-~N~l~~~i  284 (313)
T 1ogq_A          206 RNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVS-FNNLCGEI  284 (313)
T ss_dssp             SSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECC-SSEEEEEC
T ss_pred             CCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECc-CCcccccC
Confidence            65554321100               00012333556677777777777776 666655 66777777773 44454343


Q ss_pred             h
Q 042164          220 S  220 (235)
Q Consensus       220 ~  220 (235)
                      +
T Consensus       285 p  285 (313)
T 1ogq_A          285 P  285 (313)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.93  E-value=2.6e-24  Score=169.99  Aligned_cols=198  Identities=24%  Similarity=0.277  Sum_probs=171.4

Q ss_pred             cccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            4 TIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      ..++++++++++++.++.+|..+ .++++.|++  .++.+..++...|..+++|++|++++|.++.++.. ..+++|++|
T Consensus         7 ~~l~~l~~l~~~~~~l~~ip~~~-~~~l~~L~L--~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L   82 (290)
T 1p9a_G            7 SKVASHLEVNCDKRNLTALPPDL-PKDTTILHL--SENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD-GTLPVLGTL   82 (290)
T ss_dssp             ECSTTCCEEECTTSCCSSCCSCC-CTTCCEEEC--TTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECC-SCCTTCCEE
T ss_pred             cccCCccEEECCCCCCCcCCCCC-CCCCCEEEc--CCCcCCccCHHHhhcCCCCCEEECCCCccCcccCC-CCCCcCCEE
Confidence            34678999999999999999877 479999999  55556666656679999999999999999987654 789999999


Q ss_pred             eccCcCCCCc-cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           84 CLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        84 ~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      ++++|.+..+ ..+..+++|++|++++|.++.++. .+..+++|++|++++|. +..++..++..+++|+.|++++|.++
T Consensus        83 ~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~  161 (290)
T 1p9a_G           83 DLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANNNLT  161 (290)
T ss_dssp             ECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCCS
T ss_pred             ECCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECCCCC-CCccChhhcccccCCCEEECCCCcCC
Confidence            9999999988 678899999999999999998874 58999999999999998 66777777889999999999999998


Q ss_pred             ccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEEecccc
Q 042164          162 WDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKW  215 (235)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~  215 (235)
                      ..        ....+..+++|+.|++++|.++.+|..+ ...+|+.+++ .+|.|
T Consensus       162 ~l--------~~~~~~~l~~L~~L~L~~N~l~~ip~~~~~~~~L~~l~L-~~Np~  207 (290)
T 1p9a_G          162 EL--------PAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFL-HGNPW  207 (290)
T ss_dssp             CC--------CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEEC-CSCCB
T ss_pred             cc--------CHHHhcCcCCCCEEECCCCcCCccChhhcccccCCeEEe-CCCCc
Confidence            43        3345678999999999999999999988 7788999999 56666

>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=99.92  E-value=2.5e-24  Score=169.64  Aligned_cols=210  Identities=22%  Similarity=0.285  Sum_probs=174.9

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEeccCc
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWC   88 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~~   88 (235)
                      +.++++++.++.+|... .++++.|++  .++.+..++...|..+++|++|++++|.++.+ +..+..+++|++|++++|
T Consensus        14 ~~~~c~~~~l~~ip~~~-~~~l~~L~l--~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n   90 (285)
T 1ozn_A           14 VTTSCPQQGLQAVPVGI-PAASQRIFL--HGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (285)
T ss_dssp             CEEECCSSCCSSCCTTC-CTTCSEEEC--TTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             eEEEcCcCCcccCCcCC-CCCceEEEe--eCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCC
Confidence            67999999999998765 689999999  66666667766679999999999999999985 678899999999999999


Q ss_pred             C-CCCc--cccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           89 Q-LEDV--AAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        89 ~-l~~~--~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      . +..+  ..+..+++|++|++++|.++.+ +..+..+++|++|++++|. +..++...++.+++|++|++++|.++.. 
T Consensus        91 ~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~-  168 (285)
T 1ozn_A           91 AQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRISSV-  168 (285)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCEE-
T ss_pred             CCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCc-ccccCHhHhccCCCccEEECCCCccccc-
Confidence            7 8776  6788999999999999999976 4558899999999999998 6667766688999999999999998843 


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCCC-Cccc-cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQIL-PQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~-p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                             ....+..+++|+.|++++|.+..+ |..+ .+++|+.|+++ ++...+  ..+..+..+++|+.|
T Consensus       169 -------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~-~n~l~~--~~~~~~~~l~~L~~L  230 (285)
T 1ozn_A          169 -------PERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLF-ANNLSA--LPTEALAPLRALQYL  230 (285)
T ss_dssp             -------CTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC-SSCCSC--CCHHHHTTCTTCCEE
T ss_pred             -------CHHHhcCccccCEEECCCCcccccCHhHccCcccccEeeCC-CCcCCc--CCHHHcccCcccCEE
Confidence                   234578899999999999999866 5555 88999999995 555532  233567778777765

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

Probab=99.92  E-value=1.6e-24  Score=180.75  Aligned_cols=205  Identities=20%  Similarity=0.313  Sum_probs=124.3

Q ss_pred             ccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~   81 (235)
                      ..++++.|++++|.++.++.. + .+++|+.|++  .++.+..++...|..+++|++|++++|.++.++. .+..+++|+
T Consensus        62 ~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L--s~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  139 (440)
T 3zyj_A           62 ISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQL--SRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLK  139 (440)
T ss_dssp             CCTTCSEEECCSCCCCEECTTTTSSCSSCCEEEC--CSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCC
T ss_pred             CCCCCcEEEccCCcCCeeCHHHhhCCCCCCEEEC--CCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCc
Confidence            346778888888888766533 3 7888888888  4455555665556778888888888888877654 467778888


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCC-CCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecc
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGS-NIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI  157 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~-~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  157 (235)
                      +|++++|.+..+  ..+..+++|++|++++| .+..++. .+..+++|++|++++|. +..+|.  +..+++|++|++++
T Consensus       140 ~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~Ls~  216 (440)
T 3zyj_A          140 ELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN-LREIPN--LTPLIKLDELDLSG  216 (440)
T ss_dssp             EEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSC-CSSCCC--CTTCSSCCEEECTT
T ss_pred             eeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCc-Cccccc--cCCCcccCEEECCC
Confidence            888888777655  34555566666666553 3333333 24455555555555554 333432  34444444444444


Q ss_pred             ccccccccCC----------------CCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEecccc
Q 042164          158 SFSQWDKVEG----------------GSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKW  215 (235)
Q Consensus       158 n~~~~~~~~~----------------~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~  215 (235)
                      |.+++.....                ........+..+++|+.|+|++|.++.+|...  .+++|+.|++ .+|.|
T Consensus       217 N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L-~~Np~  291 (440)
T 3zyj_A          217 NHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHL-HHNPW  291 (440)
T ss_dssp             SCCCEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTTSCCCCCCTTTTSSCTTCCEEEC-CSSCE
T ss_pred             CccCccChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCCCCCCccChhHhccccCCCEEEc-CCCCc
Confidence            4444221000                00012345666777777777777777766654  5677777777 35554

>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=99.92  E-value=1.8e-24  Score=181.05  Aligned_cols=200  Identities=23%  Similarity=0.317  Sum_probs=119.7

Q ss_pred             ccCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~   81 (235)
                      ..++++.|++++|.++.+++ .+ .+++|+.|++  .++.+..++...|..+++|++|++++|.++.+++ .+..+++|+
T Consensus        73 ~~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L--s~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  150 (452)
T 3zyi_A           73 IPSNTRYLNLMENNIQMIQADTFRHLHHLEVLQL--GRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLR  150 (452)
T ss_dssp             CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEEC--CSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCC
T ss_pred             CCCCccEEECcCCcCceECHHHcCCCCCCCEEEC--CCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCC
Confidence            34577888888888876543 33 7788888888  4445555555556777888888888887777654 366777788


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCC-CCCCcch-hhccCCCCcEEcccCCcC---------------------C
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGS-NIKQLPL-EIGQLTRLQLLDLSNCWS---------------------L  136 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~-~~~~~~~-~~~~l~~L~~L~l~~~~~---------------------~  136 (235)
                      +|++++|.+..+  ..+..+++|++|+++++ .+..++. .+..+++|++|++++|.+                     +
T Consensus       151 ~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l  230 (452)
T 3zyi_A          151 ELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHF  230 (452)
T ss_dssp             EEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTCTTCCEEECTTSCC
T ss_pred             EEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccccccccccccEEECcCCcC
Confidence            887777777655  34555555555555552 3333332 244444444444444441                     2


Q ss_pred             CCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEeccc
Q 042164          137 EVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNK  214 (235)
Q Consensus       137 ~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~  214 (235)
                      ..+++..+..+++|++|++++|.++..        ....+..+++|+.|++++|.++.+|...  .+++|+.|++. +|.
T Consensus       231 ~~~~~~~~~~l~~L~~L~L~~n~l~~~--------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~-~Np  301 (452)
T 3zyi_A          231 PEIRPGSFHGLSSLKKLWVMNSQVSLI--------ERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLH-HNP  301 (452)
T ss_dssp             SEECGGGGTTCTTCCEEECTTSCCCEE--------CTTTTTTCTTCCEEECCSSCCSCCCTTSSTTCTTCCEEECC-SSC
T ss_pred             cccCcccccCccCCCEEEeCCCcCceE--------CHHHhcCCCCCCEEECCCCcCCccChHHhccccCCCEEEcc-CCC
Confidence            223222345555555555555555422        2345666777777777777777666554  56677777773 444


Q ss_pred             c
Q 042164          215 W  215 (235)
Q Consensus       215 ~  215 (235)
                      |
T Consensus       302 ~  302 (452)
T 3zyi_A          302 W  302 (452)
T ss_dssp             E
T ss_pred             c
Confidence            4

>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=99.92  E-value=6.5e-25  Score=174.69  Aligned_cols=199  Identities=22%  Similarity=0.238  Sum_probs=113.3

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCccc---chhhhhCCCCCcEEeecCccCCCCChhhcCCcc
Q 042164            5 IRKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQI---SDHFFEGTEELKVLDFTGIHFSSLPSSLGRLIN   79 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~---~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~   79 (235)
                      .++++++|++++|.++.+|...  .+++|+.|++ +. +.+...   +.. +..+++|++|++++|.++.+|..+..+++
T Consensus        26 ~~~~l~~L~L~~n~l~~i~~~~~~~l~~L~~L~L-~~-n~l~~~~~~~~~-~~~~~~L~~L~Ls~n~i~~l~~~~~~l~~  102 (306)
T 2z66_A           26 IPSSATRLELESNKLQSLPHGVFDKLTQLTKLSL-SS-NGLSFKGCCSQS-DFGTTSLKYLDLSFNGVITMSSNFLGLEQ  102 (306)
T ss_dssp             CCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC-CS-SCCCEEEEEEHH-HHSCSCCCEEECCSCSEEEEEEEEETCTT
T ss_pred             CCCCCCEEECCCCccCccCHhHhhccccCCEEEC-CC-CccCcccCcccc-cccccccCEEECCCCccccChhhcCCCCC
Confidence            4568899999999998888754  7889999998 44 443322   333 34567777777777766665555566666


Q ss_pred             CcEEeccCcCCCCc---cccCCCCCCcEEEecCCCCCC-cchhhccCCCCcEEcccCCcC--------------------
Q 042164           80 LQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQ-LPLEIGQLTRLQLLDLSNCWS--------------------  135 (235)
Q Consensus        80 L~~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~-~~~~~~~l~~L~~L~l~~~~~--------------------  135 (235)
                      |++|++++|.+.++   ..+..+++|++|++++|.+.. .+..+..+++|++|++++|.+                    
T Consensus       103 L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~L  182 (306)
T 2z66_A          103 LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDL  182 (306)
T ss_dssp             CCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEEC
T ss_pred             CCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEEC
Confidence            66666666655543   244555555555555555542 223344445555555555542                    


Q ss_pred             ----CCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCC-ccc-cc-cccceeE
Q 042164          136 ----LEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILP-QEW-VF-VELQSYR  208 (235)
Q Consensus       136 ----~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p-~~~-~~-~~L~~l~  208 (235)
                          +..+++..+..+++|++|++++|.+++.        ....+..+++|+.|++++|.+...+ ..+ .+ ++|+.|+
T Consensus       183 s~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~  254 (306)
T 2z66_A          183 SQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSL--------DTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLN  254 (306)
T ss_dssp             TTSCCCEECTTTTTTCTTCCEEECTTSCCSBC--------CSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEEE
T ss_pred             CCCCcCCcCHHHhcCCCCCCEEECCCCccCcc--------ChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEEE
Confidence                2222222244444455555554444422        2224556677777777777766433 333 44 3677777


Q ss_pred             EEecccc
Q 042164          209 ICIGNKW  215 (235)
Q Consensus       209 l~~~~~~  215 (235)
                      + .++.+
T Consensus       255 L-~~N~~  260 (306)
T 2z66_A          255 L-TQNDF  260 (306)
T ss_dssp             C-TTCCE
T ss_pred             c-cCCCe
Confidence            7 34444

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

Probab=99.92  E-value=1.1e-24  Score=174.03  Aligned_cols=199  Identities=18%  Similarity=0.201  Sum_probs=130.4

Q ss_pred             ccCCCcEEecCC-CCCC-CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCC-CCChhhcCCccC
Q 042164            5 IRKGPIAISLPQ-RDIQ-ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFS-SLPSSLGRLINL   80 (235)
Q Consensus         5 ~~~~l~~L~l~~-~~l~-~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~-~~~~~l~~l~~L   80 (235)
                      .+++|++|++++ |.+. .+|..+ .+++|+.|++ +.+.....+|.. |..+++|++|++++|.++ .+|..+..+++|
T Consensus        74 ~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~L-s~n~l~~~~p~~-~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L  151 (313)
T 1ogq_A           74 NLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYI-THTNVSGAIPDF-LSQIKTLVTLDFSYNALSGTLPPSISSLPNL  151 (313)
T ss_dssp             GCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEE-EEECCEEECCGG-GGGCTTCCEEECCSSEEESCCCGGGGGCTTC
T ss_pred             CCCCCCeeeCCCCCcccccCChhHhcCCCCCEEEC-cCCeeCCcCCHH-HhCCCCCCEEeCCCCccCCcCChHHhcCCCC
Confidence            356777888874 6665 566655 7778888887 544444455554 467777777777777777 466677777777


Q ss_pred             cEEeccCcCCC-Cc-cccCCCC-CCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCCCCCchh--------------
Q 042164           81 QTLCLDWCQLE-DV-AAIGQLK-KLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLEVIPPN--------------  142 (235)
Q Consensus        81 ~~L~l~~~~l~-~~-~~~~~l~-~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~--------------  142 (235)
                      ++|++++|.+. .+ ..++.+. +|++|++++|.++ .+|..+..+. |++|++++|.+.+..+..              
T Consensus       152 ~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~  230 (313)
T 1ogq_A          152 VGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAK  230 (313)
T ss_dssp             CEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCS
T ss_pred             CeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCC
Confidence            77777777776 33 5566665 6777777776665 4444444444 555555555422222222              


Q ss_pred             --------hhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccccccccceeEEEecc
Q 042164          143 --------VISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEWVFVELQSYRICIGN  213 (235)
Q Consensus       143 --------~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~~~~~L~~l~l~~~~  213 (235)
                              .+..+++|++|++++|.+++        ..+..+..+++|+.|++++|.+. .+|....+++|+.+++. +|
T Consensus       231 N~l~~~~~~~~~l~~L~~L~Ls~N~l~~--------~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~~~l~~L~~l~l~-~N  301 (313)
T 1ogq_A          231 NSLAFDLGKVGLSKNLNGLDLRNNRIYG--------TLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYA-NN  301 (313)
T ss_dssp             SEECCBGGGCCCCTTCCEEECCSSCCEE--------CCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTC-SS
T ss_pred             CceeeecCcccccCCCCEEECcCCcccC--------cCChHHhcCcCCCEEECcCCcccccCCCCccccccChHHhc-CC
Confidence                    03444555555555555542        35677889999999999999998 77776688999999994 55


Q ss_pred             cc
Q 042164          214 KW  215 (235)
Q Consensus       214 ~~  215 (235)
                      .+
T Consensus       302 ~~  303 (313)
T 1ogq_A          302 KC  303 (313)
T ss_dssp             SE
T ss_pred             CC
Confidence            43

>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=99.92  E-value=3.3e-24  Score=190.17  Aligned_cols=151  Identities=21%  Similarity=0.291  Sum_probs=65.8

Q ss_pred             CCCcEEecCCCCCC-CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccCcEE
Q 042164            7 KGPIAISLPQRDIQ-ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINLQTL   83 (235)
Q Consensus         7 ~~l~~L~l~~~~l~-~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L~~L   83 (235)
                      +++++|++++|.+. .+|..+ .+++|+.|++ +.+...+..|.. +..+++|++|++++|.++. +|..+..+++|++|
T Consensus       394 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L-s~N~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L  471 (768)
T 3rgz_A          394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHL-SFNYLSGTIPSS-LGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETL  471 (768)
T ss_dssp             CCCCEEECCSSEEEEECCGGGGGCTTCCEEEC-CSSEEESCCCGG-GGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEE
T ss_pred             CCccEEECCCCccccccCHHHhcCCCCCEEEC-cCCcccCcccHH-HhcCCCCCEEECCCCcccCcCCHHHcCCCCceEE
Confidence            34555555555544 333333 4455555555 222222223322 2444444444444444442 34444444444444


Q ss_pred             eccCcCCCCc--cccCCCCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccc
Q 042164           84 CLDWCQLEDV--AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS  160 (235)
Q Consensus        84 ~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~  160 (235)
                      ++++|.+.+.  ..++.+++|++|++++|.++ .+|..++.+++|++|++++|.+.+.+|.. ++.+++|+.|++++|.+
T Consensus       472 ~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~-l~~l~~L~~L~Ls~N~l  550 (768)
T 3rgz_A          472 ILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAE-LGDCRSLIWLDLNTNLF  550 (768)
T ss_dssp             ECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGGCTTCCEEECCSSEE
T ss_pred             EecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHH-HcCCCCCCEEECCCCcc
Confidence            4444444422  33444444444444444444 33444444444444444444433334333 44444444444444433

>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=99.92  E-value=5.6e-24  Score=166.90  Aligned_cols=201  Identities=23%  Similarity=0.269  Sum_probs=162.9

Q ss_pred             ccCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~   81 (235)
                      ..+++++|++++|.++.++. .+ .+++|+.|++  .++.+..++...|..+++|++|++++|.++.++ ..+..+++|+
T Consensus        26 l~~~l~~L~ls~n~l~~~~~~~~~~l~~L~~L~l--~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  103 (276)
T 2z62_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDL--SRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ  103 (276)
T ss_dssp             SCTTCCEEECTTCCCCEECTTTTTTCTTCSEEEC--TTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCC
T ss_pred             CCCCccEEECCCCcccccCHhHhccccCCcEEEC--CCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCcccc
Confidence            45679999999999997775 33 8999999999  555666677666789999999999999998755 6688999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCC--cchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCc----EE
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ--LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE----EL  153 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~----~L  153 (235)
                      +|++++|.+..+  ..++.+++|++|++++|.++.  +|..+..+++|++|++++|. +..++...+..+++|+    .+
T Consensus       104 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~l~l~L  182 (276)
T 2z62_A          104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSL  182 (276)
T ss_dssp             EEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC-CCEECGGGGHHHHTCTTCCEEE
T ss_pred             EEECCCCCccccCchhcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCC-CCcCCHHHhhhhhhccccceee
Confidence            999999999877  468899999999999999985  67889999999999999998 5555544465556665    89


Q ss_pred             EeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEeccccccc
Q 042164          154 YMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKWWSS  218 (235)
Q Consensus       154 ~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~~~~  218 (235)
                      ++++|.++..         ........+|+.|++++|.++.+|...  .+++|+.|++ .+|.+.+.
T Consensus       183 ~ls~n~l~~~---------~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l-~~N~~~c~  239 (276)
T 2z62_A          183 DLSLNPMNFI---------QPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWL-HTNPWDCS  239 (276)
T ss_dssp             ECCSSCCCEE---------CTTSSCSCCEEEEECCSSCCSCCCTTTTTTCCSCCEEEC-CSSCBCCC
T ss_pred             ecCCCccccc---------CccccCCCcccEEECCCCceeecCHhHhcccccccEEEc-cCCccccc
Confidence            9999998843         233333458999999999999888865  7899999999 46666433

>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=99.91  E-value=3.2e-23  Score=165.12  Aligned_cols=188  Identities=19%  Similarity=0.217  Sum_probs=162.8

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .++++++|++++|.+..++....+++|+.|++  .++.+..++.  +..+++|++|++++|.++.++ .+..+++|++|+
T Consensus        39 ~l~~L~~L~l~~~~i~~l~~~~~l~~L~~L~L--~~n~i~~~~~--~~~l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~  113 (308)
T 1h6u_A           39 DLDGITTLSAFGTGVTTIEGVQYLNNLIGLEL--KDNQITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLD  113 (308)
T ss_dssp             HHHTCCEEECTTSCCCCCTTGGGCTTCCEEEC--CSSCCCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEE
T ss_pred             HcCCcCEEEeeCCCccCchhhhccCCCCEEEc--cCCcCCCChh--HccCCCCCEEEccCCcCCCch-hhcCCCCCCEEE
Confidence            35789999999999998886558999999999  5555666665  689999999999999999876 588999999999


Q ss_pred             ccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           85 LDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        85 l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      +++|.+.++..++.+++|++|++++|.++.++. +..+++|++|++++|. +..++.  +..+++|++|++++|.+++. 
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~~~-  188 (308)
T 1h6u_A          114 LTSTQITDVTPLAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGNAQ-VSDLTP--LANLSKLTTLKADDNKISDI-  188 (308)
T ss_dssp             CTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCCC-
T ss_pred             CCCCCCCCchhhcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccCCc-CCCChh--hcCCCCCCEEECCCCccCcC-
Confidence            999999988779999999999999999998765 8889999999999998 556665  78999999999999999833 


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEe
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICI  211 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~  211 (235)
                               ..+..+++|+.|++++|.+..++....+++|+.|++..
T Consensus       189 ---------~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~l~~  226 (308)
T 1h6u_A          189 ---------SPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTN  226 (308)
T ss_dssp             ---------GGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEEE
T ss_pred             ---------hhhcCCCCCCEEEccCCccCccccccCCCCCCEEEccC
Confidence                     23788999999999999999888644889999999963

>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=99.91  E-value=1.5e-23  Score=185.94  Aligned_cols=133  Identities=23%  Similarity=0.289  Sum_probs=73.4

Q ss_pred             cCCCcEEecCCCCCC-CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccCcE
Q 042164            6 RKGPIAISLPQRDIQ-ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINLQT   82 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L~~   82 (235)
                      +++|++|++++|.+. .+|..+ .+++|+.|++ ..+...+.+|.. +..+++|++|++++|.++. +|..+..+++|++
T Consensus       417 l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L-~~n~l~~~~p~~-~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~  494 (768)
T 3rgz_A          417 CSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL-WLNMLEGEIPQE-LMYVKTLETLILDFNDLTGEIPSGLSNCTNLNW  494 (768)
T ss_dssp             CTTCCEEECCSSEEESCCCGGGGGCTTCCEEEC-CSSCCCSCCCGG-GGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCE
T ss_pred             CCCCCEEECcCCcccCcccHHHhcCCCCCEEEC-CCCcccCcCCHH-HcCCCCceEEEecCCcccCcCCHHHhcCCCCCE
Confidence            456666666666665 344444 5666666666 444433344443 3555666666666666553 4555556666666


Q ss_pred             EeccCcCCCCc--cccCCCCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCCCCCc
Q 042164           83 LCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLEVIP  140 (235)
Q Consensus        83 L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~~~~  140 (235)
                      |++++|.+.+.  ..++.+++|++|++++|.++ .+|..+..+++|+.|++++|.+.+.+|
T Consensus       495 L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          495 ISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             EECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCC
T ss_pred             EEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCC
Confidence            66666665532  44555556666666666555 445555555555555555554443433

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

Probab=99.91  E-value=1.1e-23  Score=173.01  Aligned_cols=106  Identities=20%  Similarity=0.254  Sum_probs=56.7

Q ss_pred             cCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh-hcCCccCcE
Q 042164            6 RKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS-LGRLINLQT   82 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~l~~L~~   82 (235)
                      ++++++|++++|.++.+++ .+ .+++|+.|++  .++.+..+++..|..+++|++|++++|.++.+|.. +..+++|++
T Consensus        68 l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L--~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~  145 (390)
T 3o6n_A           68 FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYM--GFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTT  145 (390)
T ss_dssp             CCCCSEEECTTSCCCEECTTTTTTCTTCCEEEC--CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             cccCcEEECCCCcccccChhhccCCCCcCEEEC--CCCCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcE
Confidence            3555666666666554443 22 5556666666  33333344444445556666666666655555543 355556666


Q ss_pred             EeccCcCCCCc--cccCCCCCCcEEEecCCCCC
Q 042164           83 LCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK  113 (235)
Q Consensus        83 L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~  113 (235)
                      |++++|.+..+  ..++.+++|++|++++|.++
T Consensus       146 L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~  178 (390)
T 3o6n_A          146 LSMSNNNLERIEDDTFQATTSLQNLQLSSNRLT  178 (390)
T ss_dssp             EECCSSCCCBCCTTTTSSCTTCCEEECCSSCCS
T ss_pred             EECCCCccCccChhhccCCCCCCEEECCCCcCC
Confidence            66666655544  33555555555555555544

>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=99.91  E-value=4.3e-24  Score=173.27  Aligned_cols=211  Identities=22%  Similarity=0.223  Sum_probs=129.7

Q ss_pred             cCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh-hcCCccCcE
Q 042164            6 RKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS-LGRLINLQT   82 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~l~~L~~   82 (235)
                      .+++++|++++|.++.++.. + .+++|+.|++  .++.+..++...|..+++|++|++++|.++.++.. +..+++|++
T Consensus        51 ~~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L--~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~  128 (353)
T 2z80_A           51 TEAVKSLDLSNNRITYISNSDLQRCVNLQALVL--TSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTF  128 (353)
T ss_dssp             CTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC--TTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSE
T ss_pred             cccCcEEECCCCcCcccCHHHhccCCCCCEEEC--CCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCE
Confidence            45677777777777766552 3 6777777777  44444445444456677777777777777766654 666777777


Q ss_pred             EeccCcCCCCc-c--ccCCCCCCcEEEecCC-CCCCcc-hhhccCCCCcEEcccCCcC----------------------
Q 042164           83 LCLDWCQLEDV-A--AIGQLKKLEILSFRGS-NIKQLP-LEIGQLTRLQLLDLSNCWS----------------------  135 (235)
Q Consensus        83 L~l~~~~l~~~-~--~~~~l~~L~~L~l~~~-~~~~~~-~~~~~l~~L~~L~l~~~~~----------------------  135 (235)
                      |++++|.+..+ .  .++.+++|++|++++| .++.++ ..+..+++|++|++++|.+                      
T Consensus       129 L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n  208 (353)
T 2z80_A          129 LNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMK  208 (353)
T ss_dssp             EECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECS
T ss_pred             EECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCC
Confidence            77777776655 2  4566666666666666 344432 3355556666666665552                      


Q ss_pred             -CCCCchhhhcCCCCCcEEEeccccccccccCCCC-----------------------CccchhcccCCCccceeeecCC
Q 042164          136 -LEVIPPNVISKLSRLEELYMDISFSQWDKVEGGS-----------------------NASLAELKGLSKLTTLNIQVPD  191 (235)
Q Consensus       136 -~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~-----------------------~~~~~~~~~~~~L~~L~l~~n~  191 (235)
                       ++.++...+..+++|++|++++|.+++.......                       ..++..+..+++|+.|++++|.
T Consensus       209 ~l~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~~~~~~l~~l~L~~~~l~~~~l~~l~~~l~~l~~L~~L~Ls~N~  288 (353)
T 2z80_A          209 QHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQ  288 (353)
T ss_dssp             CSTTHHHHHHHHTTTEEEEEEESCBCTTCCCC------CCCCCCEEEEESCBCCHHHHHHHHHHHHTCTTCCEEECCSSC
T ss_pred             ccccchhhhhhhcccccEEECCCCccccccccccccccccchhhccccccccccCcchhhhHHHHhcccCCCEEECCCCC
Confidence             2333333233345555555555555432111000                       0123456778899999999999


Q ss_pred             CCCCCccc--cccccceeEEEecccccccc
Q 042164          192 AQILPQEW--VFVELQSYRICIGNKWWSSW  219 (235)
Q Consensus       192 ~~~~p~~~--~~~~L~~l~l~~~~~~~~~~  219 (235)
                      ++.+|..+  .+++|+.|++ .+|.+.+..
T Consensus       289 l~~i~~~~~~~l~~L~~L~L-~~N~~~~~~  317 (353)
T 2z80_A          289 LKSVPDGIFDRLTSLQKIWL-HTNPWDCSC  317 (353)
T ss_dssp             CCCCCTTTTTTCTTCCEEEC-CSSCBCCCH
T ss_pred             CCccCHHHHhcCCCCCEEEe-eCCCccCcC
Confidence            99998875  7889999999 466664443

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.91  E-value=2.1e-23  Score=167.65  Aligned_cols=192  Identities=16%  Similarity=0.181  Sum_probs=107.3

Q ss_pred             cCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            6 RKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      .++++.|++++|.++.++.. + .+++|++|++  .++.+..+.+..|..+++|++|++++|.++.+|..+.  ++|++|
T Consensus        51 ~~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~L--~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~--~~L~~L  126 (330)
T 1xku_A           51 PPDTALLDLQNNKITEIKDGDFKNLKNLHTLIL--INNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQEL  126 (330)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC--CSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCC--TTCCEE
T ss_pred             CCCCeEEECCCCcCCEeChhhhccCCCCCEEEC--CCCcCCeeCHHHhcCCCCCCEEECCCCcCCccChhhc--ccccEE
Confidence            45677777777777766553 3 6777777777  3334444433335667777777777776665554322  445555


Q ss_pred             eccCcCCCCc--cccCCCCCCcEEEecCCCCC---CcchhhccCC---------------------CCcEEcccCCcCCC
Q 042164           84 CLDWCQLEDV--AAIGQLKKLEILSFRGSNIK---QLPLEIGQLT---------------------RLQLLDLSNCWSLE  137 (235)
Q Consensus        84 ~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~---~~~~~~~~l~---------------------~L~~L~l~~~~~~~  137 (235)
                      ++++|.+..+  ..++.+++|++|++++|.++   ..+..+..++                     +|++|++++|. +.
T Consensus       127 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~-l~  205 (330)
T 1xku_A          127 RVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNK-IT  205 (330)
T ss_dssp             ECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTTSC-CC
T ss_pred             ECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccccccCCEEECCCCc-CC
Confidence            5555554443  33444444555555444443   1222344444                     44444444444 22


Q ss_pred             CCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEE
Q 042164          138 VIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRIC  210 (235)
Q Consensus       138 ~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~  210 (235)
                      .+++..+..+++|++|++++|.+++.        ....+..+++|+.|++++|.+..+|..+ .+++|+.|++.
T Consensus       206 ~~~~~~~~~l~~L~~L~Ls~n~l~~~--------~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~  271 (330)
T 1xku_A          206 KVDAASLKGLNNLAKLGLSFNSISAV--------DNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLH  271 (330)
T ss_dssp             EECTGGGTTCTTCCEEECCSSCCCEE--------CTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECC
T ss_pred             ccCHHHhcCCCCCCEEECCCCcCcee--------ChhhccCCCCCCEEECCCCcCccCChhhccCCCcCEEECC
Confidence            23223355666666666666665522        2335666677777777777777777666 66777777773

>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=99.91  E-value=6.1e-23  Score=165.97  Aligned_cols=143  Identities=22%  Similarity=0.319  Sum_probs=64.3

Q ss_pred             hCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEccc
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLS  131 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~  131 (235)
                      ..+++|++|++++|.+..++. +..+++|+++++++|.+.++..+..+++|+.+++++|.++.++. +..+++|++|+++
T Consensus       152 ~~l~~L~~L~l~~~~~~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l~  229 (347)
T 4fmz_A          152 SNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITP-VANMTRLNSLKIG  229 (347)
T ss_dssp             TTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECC
T ss_pred             hhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCCcccccccccCCCccceeecccCCCCCCch-hhcCCcCCEEEcc
Confidence            344444444444444443332 44445555555555554444333444444444444444433322 4445555555555


Q ss_pred             CCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEE
Q 042164          132 NCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       132 ~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      +|. +..++.  +..+++|++|++++|.++.          ...+..+++|+.|++++|.+..++....+++|+.|++
T Consensus       230 ~n~-l~~~~~--~~~l~~L~~L~l~~n~l~~----------~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L  294 (347)
T 4fmz_A          230 NNK-ITDLSP--LANLSQLTWLEIGTNQISD----------INAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFL  294 (347)
T ss_dssp             SSC-CCCCGG--GTTCTTCCEEECCSSCCCC----------CGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEEC
T ss_pred             CCc-cCCCcc--hhcCCCCCEEECCCCccCC----------ChhHhcCCCcCEEEccCCccCCChhhcCCCCCCEEEC
Confidence            554 333333  4455555555555554441          1234444445555555554444433224444444444

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

Probab=99.91  E-value=1.4e-23  Score=175.06  Aligned_cols=176  Identities=20%  Similarity=0.282  Sum_probs=116.1

Q ss_pred             CCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCc-cCCCCCh-hhcCCccCcE
Q 042164            7 KGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGI-HFSSLPS-SLGRLINLQT   82 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~~~~~~~-~l~~l~~L~~   82 (235)
                      ++|++|++++|.++.++...  .+++|+.|++  .++.+..++...|..+++|++|++++| .++.++. .+..+++|++
T Consensus       112 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L--~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~  189 (440)
T 3zyj_A          112 ANLNTLELFDNRLTTIPNGAFVYLSKLKELWL--RNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRY  189 (440)
T ss_dssp             SSCCEEECCSSCCSSCCTTTSCSCSSCCEEEC--CSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCE
T ss_pred             ccCCEEECCCCcCCeeCHhHhhccccCceeeC--CCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCe
Confidence            44555555555555444422  4555555555  333344444444455555555555552 3333332 4566777777


Q ss_pred             EeccCcCCCCccccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           83 LCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        83 L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      |++++|.+..++.+..+++|++|++++|.++.+ +..+..+++|+.|++++|. +..++...+..+++|++|++++|.++
T Consensus       190 L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N~l~  268 (440)
T 3zyj_A          190 LNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQ-IQVIERNAFDNLQSLVEINLAHNNLT  268 (440)
T ss_dssp             EECTTSCCSSCCCCTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCC-CCEECTTSSTTCTTCCEEECTTSCCC
T ss_pred             ecCCCCcCccccccCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCc-eeEEChhhhcCCCCCCEEECCCCCCC
Confidence            777777777776677777888888888887755 4557788888888888887 55555555788888888888888887


Q ss_pred             ccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          162 WDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      ..        ....+..+++|+.|++++|++.
T Consensus       269 ~~--------~~~~~~~l~~L~~L~L~~Np~~  292 (440)
T 3zyj_A          269 LL--------PHDLFTPLHHLERIHLHHNPWN  292 (440)
T ss_dssp             CC--------CTTTTSSCTTCCEEECCSSCEE
T ss_pred             cc--------ChhHhccccCCCEEEcCCCCcc
Confidence            43        3456778899999999999975

>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=99.91  E-value=2.4e-23  Score=174.17  Aligned_cols=175  Identities=21%  Similarity=0.238  Sum_probs=119.7

Q ss_pred             CCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecC-ccCCCCCh-hhcCCccCcEE
Q 042164            8 GPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG-IHFSSLPS-SLGRLINLQTL   83 (235)
Q Consensus         8 ~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~-~~~~~~~~-~l~~l~~L~~L   83 (235)
                      +|++|++++|.++.++...  .+++|+.|++  .++.+..++...|..+++|+.|++++ +.++.++. .+..+++|++|
T Consensus       124 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L--~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L  201 (452)
T 3zyi_A          124 SLNTLELFDNWLTVIPSGAFEYLSKLRELWL--RNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYL  201 (452)
T ss_dssp             TCCEEECCSSCCSBCCTTTSSSCTTCCEEEC--CSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEE
T ss_pred             cCCEEECCCCcCCccChhhhcccCCCCEEEC--CCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEE
Confidence            4444444444444443322  3444444444  22333333333344444444444444 22333332 46677888888


Q ss_pred             eccCcCCCCccccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccc
Q 042164           84 CLDWCQLEDVAAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW  162 (235)
Q Consensus        84 ~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  162 (235)
                      ++++|.+.+++.+..+++|++|++++|.++.+ |..+..+++|+.|++++|. +..+++..+..+++|++|++++|.++.
T Consensus       202 ~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N~l~~  280 (452)
T 3zyi_A          202 NLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQ-VSLIERNAFDGLASLVELNLAHNNLSS  280 (452)
T ss_dssp             ECTTSCCSSCCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECCSSCCSC
T ss_pred             ECCCCcccccccccccccccEEECcCCcCcccCcccccCccCCCEEEeCCCc-CceECHHHhcCCCCCCEEECCCCcCCc
Confidence            88888888777788889999999999999866 5569999999999999998 555555558999999999999999984


Q ss_pred             cccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          163 DKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      .        ....+..+++|+.|++++|++.
T Consensus       281 ~--------~~~~~~~l~~L~~L~L~~Np~~  303 (452)
T 3zyi_A          281 L--------PHDLFTPLRYLVELHLHHNPWN  303 (452)
T ss_dssp             C--------CTTSSTTCTTCCEEECCSSCEE
T ss_pred             c--------ChHHhccccCCCEEEccCCCcC
Confidence            4        3456778899999999999986

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

Probab=99.91  E-value=1.2e-23  Score=172.90  Aligned_cols=129  Identities=19%  Similarity=0.215  Sum_probs=111.9

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~   81 (235)
                      .+++++.++++++.++.+|...  .+++|+.|++  .++.+..++...|..+++|++|++++|.++.++ ..+..+++|+
T Consensus        43 ~l~~l~~l~l~~~~l~~l~~~~~~~l~~L~~L~L--~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  120 (390)
T 3o6n_A           43 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNL--NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLT  120 (390)
T ss_dssp             GGCCCSEEEEESCEESEECTHHHHHCCCCSEEEC--TTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             ccCCceEEEecCCchhhCChhHhcccccCcEEEC--CCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCC
Confidence            4688999999999999998865  7999999999  555666677666799999999999999999865 5588999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcC
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWS  135 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~  135 (235)
                      +|++++|.+..+  ..++.+++|++|++++|.++.++. .+..+++|++|++++|.+
T Consensus       121 ~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l  177 (390)
T 3o6n_A          121 VLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL  177 (390)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCC
T ss_pred             EEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcC
Confidence            999999999988  346899999999999999997654 588999999999999973

>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=99.91  E-value=3.5e-23  Score=174.20  Aligned_cols=224  Identities=20%  Similarity=0.169  Sum_probs=158.0

Q ss_pred             ccCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~   81 (235)
                      ..++++.|++++|.++.+++ .+ .+++|+.|++  .++.+..+++..|..+++|++|++++|.++.+|. .+..+++|+
T Consensus        30 ~~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L--~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  107 (477)
T 2id5_A           30 IPTETRLLDLGKNRIKTLNQDEFASFPHLEELEL--NENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLT  107 (477)
T ss_dssp             CCTTCSEEECCSSCCCEECTTTTTTCTTCCEEEC--TTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCC
T ss_pred             CCCCCcEEECCCCccceECHhHccCCCCCCEEEC--CCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCC
Confidence            45688999999999987754 34 8999999999  4455555655557889999999999999988775 468899999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      +|++++|.+..+  ..+..+++|++|++++|.++.+ +..+..+++|++|++++|. +..++...+..+++|+.|++++|
T Consensus       108 ~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~l~~l~~L~~L~l~~n  186 (477)
T 2id5_A          108 KLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCN-LTSIPTEALSHLHGLIVLRLRHL  186 (477)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCC-CSSCCHHHHTTCTTCCEEEEESC
T ss_pred             EEECCCCccccCChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCc-CcccChhHhcccCCCcEEeCCCC
Confidence            999999998866  6788899999999999988855 4458888999999999998 66677666888899999999988


Q ss_pred             cccccccCC----------------CCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEecccccccch
Q 042164          159 FSQWDKVEG----------------GSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKWWSSWS  220 (235)
Q Consensus       159 ~~~~~~~~~----------------~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~~~~~~  220 (235)
                      .+.......                .....+.......+|+.|++++|.++.+|...  .+++|+.|+++ ++...  ..
T Consensus       187 ~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls-~n~l~--~~  263 (477)
T 2id5_A          187 NINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLS-YNPIS--TI  263 (477)
T ss_dssp             CCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESSCCCSCCHHHHTTCTTCCEEECC-SSCCC--EE
T ss_pred             cCcEeChhhcccCcccceeeCCCCccccccCcccccCccccEEECcCCcccccCHHHhcCccccCeeECC-CCcCC--cc
Confidence            877441110                00011111112235666666666666666433  66677777774 33331  11


Q ss_pred             hhhhhhhhccccCC
Q 042164          221 VKSGLSRLMKLQGL  234 (235)
Q Consensus       221 ~~~~~~~l~~L~~L  234 (235)
                      .+..+.++++|+.|
T Consensus       264 ~~~~~~~l~~L~~L  277 (477)
T 2id5_A          264 EGSMLHELLRLQEI  277 (477)
T ss_dssp             CTTSCTTCTTCCEE
T ss_pred             ChhhccccccCCEE
Confidence            22445566665544

>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=99.91  E-value=3.7e-24  Score=173.64  Aligned_cols=191  Identities=21%  Similarity=0.240  Sum_probs=155.2

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEeccC
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDW   87 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~   87 (235)
                      ....+++++.++.+|..+ .++|+.|++  .++.+..++...|..+++|++|++++|.++.+ +..+..+++|++|++++
T Consensus        33 ~~~c~~~~~~l~~iP~~~-~~~L~~L~l--~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~  109 (353)
T 2z80_A           33 NGICKGSSGSLNSIPSGL-TEAVKSLDL--SNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSY  109 (353)
T ss_dssp             TSEEECCSTTCSSCCTTC-CTTCCEEEC--TTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CeEeeCCCCCcccccccc-cccCcEEEC--CCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCC
Confidence            345888999999999876 469999999  55666677776679999999999999999986 45689999999999999


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCCCcch--hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccc
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIKQLPL--EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD  163 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  163 (235)
                      |.+.++  ..++.+++|++|++++|.++.+|.  .+..+++|++|++++|...+.+++..++.+++|++|++++|.+++.
T Consensus       110 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~  189 (353)
T 2z80_A          110 NYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSY  189 (353)
T ss_dssp             SCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE
T ss_pred             CcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCcc
Confidence            999988  448999999999999999998887  5889999999999999546777665689999999999999998744


Q ss_pred             ccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEE
Q 042164          164 KVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRIC  210 (235)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~  210 (235)
                              .+..++.+++|++|++++|.+..+|...  .+++|+.|+++
T Consensus       190 --------~~~~l~~l~~L~~L~l~~n~l~~~~~~~~~~~~~L~~L~L~  230 (353)
T 2z80_A          190 --------EPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELR  230 (353)
T ss_dssp             --------CTTTTTTCSEEEEEEEECSCSTTHHHHHHHHTTTEEEEEEE
T ss_pred             --------CHHHHhccccCCeecCCCCccccchhhhhhhcccccEEECC
Confidence                    3455666667777777777666665544  35666666664

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.91  E-value=2.5e-23  Score=179.78  Aligned_cols=107  Identities=20%  Similarity=0.255  Sum_probs=67.1

Q ss_pred             cCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh-hcCCccCcE
Q 042164            6 RKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS-LGRLINLQT   82 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~l~~L~~   82 (235)
                      +++|+.|++++|.+..+++ .+ .+++|+.|++  .++.+..+++..|+.+++|++|++++|.++.+|+. |..+++|++
T Consensus        74 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L--~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~  151 (597)
T 3oja_B           74 FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYM--GFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTT  151 (597)
T ss_dssp             CCCCSEEECTTSCCCEECTTTTTTCTTCCEEEC--CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCE
T ss_pred             CCCCcEEECCCCCCCCCChHHhcCCCCCCEEEC--CCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCE
Confidence            4566777777777665543 33 6677777777  33344445555556667777777777766666544 466677777


Q ss_pred             EeccCcCCCCc--cccCCCCCCcEEEecCCCCCC
Q 042164           83 LCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ  114 (235)
Q Consensus        83 L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~  114 (235)
                      |++++|.+.++  ..++.+++|++|++++|.++.
T Consensus       152 L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~  185 (597)
T 3oja_B          152 LSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTH  185 (597)
T ss_dssp             EECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSB
T ss_pred             EEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCC
Confidence            77777766655  356666666666666666553

>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=99.91  E-value=1.1e-23  Score=161.84  Aligned_cols=193  Identities=14%  Similarity=0.226  Sum_probs=160.1

Q ss_pred             ccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecC-ccCCCCC-hhhcCCccC
Q 042164            5 IRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG-IHFSSLP-SSLGRLINL   80 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~-~~~~~~~-~~l~~l~~L   80 (235)
                      ..+++++|++++|.++.+++. + .+++|+.|++ +.+..+..++...|..+++|++|++++ |.++.++ ..+..+++|
T Consensus        29 ~~~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l-~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L  107 (239)
T 2xwt_C           29 LPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYV-SIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLL  107 (239)
T ss_dssp             CCTTCCEEEEESCCCSEECTTTTTTCTTCCEEEE-ECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTC
T ss_pred             CCCcccEEEEeCCcceEECHHHccCCCCCcEEeC-CCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCC
Confidence            345899999999999988774 3 8999999999 544447778776678999999999998 8898876 467889999


Q ss_pred             cEEeccCcCCCCccccCCCCCCc---EEEecCC-CCCCcchh-hccCCCCc-EEcccCCcCCCCCchhhhcCCCCCcEEE
Q 042164           81 QTLCLDWCQLEDVAAIGQLKKLE---ILSFRGS-NIKQLPLE-IGQLTRLQ-LLDLSNCWSLEVIPPNVISKLSRLEELY  154 (235)
Q Consensus        81 ~~L~l~~~~l~~~~~~~~l~~L~---~L~l~~~-~~~~~~~~-~~~l~~L~-~L~l~~~~~~~~~~~~~l~~~~~L~~L~  154 (235)
                      ++|++++|.+.+++.++.+++|+   +|++++| .++.++.. +..+++|+ +|++++|. +..++..++.. ++|++|+
T Consensus       108 ~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~-l~~i~~~~~~~-~~L~~L~  185 (239)
T 2xwt_C          108 KFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNG-FTSVQGYAFNG-TKLDAVY  185 (239)
T ss_dssp             CEEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCC-CCEECTTTTTT-CEEEEEE
T ss_pred             CEEeCCCCCCccccccccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCC-CcccCHhhcCC-CCCCEEE
Confidence            99999999998886688888888   9999999 88877764 88899999 99999998 56788765555 8899999


Q ss_pred             ecccc-ccccccCCCCCccchhcccC-CCccceeeecCCCCCCCccccccccceeEE
Q 042164          155 MDISF-SQWDKVEGGSNASLAELKGL-SKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       155 l~~n~-~~~~~~~~~~~~~~~~~~~~-~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      +++|. ++..        ....+..+ ++|+.|++++|.++.+|.. .+++|+.|++
T Consensus       186 L~~n~~l~~i--------~~~~~~~l~~~L~~L~l~~N~l~~l~~~-~~~~L~~L~l  233 (239)
T 2xwt_C          186 LNKNKYLTVI--------DKDAFGGVYSGPSLLDVSQTSVTALPSK-GLEHLKELIA  233 (239)
T ss_dssp             CTTCTTCCEE--------CTTTTTTCSBCCSEEECTTCCCCCCCCT-TCTTCSEEEC
T ss_pred             cCCCCCcccC--------CHHHhhccccCCcEEECCCCccccCChh-HhccCceeec
Confidence            99995 7733        34567778 8999999999999988887 7889998887

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

Probab=99.90  E-value=1.4e-22  Score=158.52  Aligned_cols=178  Identities=26%  Similarity=0.374  Sum_probs=155.0

Q ss_pred             ccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~   81 (235)
                      ..+++++|++++|.++.++.. + .+++|+.|++  .++.+..++...|..+++|++|++++|.++.++. .+..+++|+
T Consensus        35 ~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l--~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  112 (270)
T 2o6q_A           35 IPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYL--NDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLA  112 (270)
T ss_dssp             CCTTCSEEECCSSCCSCCCTTSSSSCTTCCEEEC--CSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCC
T ss_pred             CCCCCCEEECcCCCCCeeCHHHhcCCCCCCEEEC--CCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCC
Confidence            456899999999999988764 3 8999999999  5666677888878899999999999999998764 568899999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      +|++++|.+..+  ..++.+++|++|++++|.++.++.. +..+++|++|++++|. +..++...+..+++|++|++++|
T Consensus       113 ~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N  191 (270)
T 2o6q_A          113 ELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQ-LKRVPEGAFDKLTELKTLKLDNN  191 (270)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             EEECCCCccCeeCHHHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCc-CcEeChhHhccCCCcCEEECCCC
Confidence            999999999987  5688999999999999999988765 7899999999999998 66677666889999999999999


Q ss_pred             cccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          159 FSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      .++..        ....+..+++|+.|++++|++.
T Consensus       192 ~l~~~--------~~~~~~~l~~L~~L~l~~N~~~  218 (270)
T 2o6q_A          192 QLKRV--------PEGAFDSLEKLKMLQLQENPWD  218 (270)
T ss_dssp             CCSCC--------CTTTTTTCTTCCEEECCSSCBC
T ss_pred             cCCcC--------CHHHhccccCCCEEEecCCCee
Confidence            99843        3345778899999999999986

>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=99.90  E-value=2.5e-23  Score=175.08  Aligned_cols=128  Identities=23%  Similarity=0.257  Sum_probs=82.3

Q ss_pred             ccCCCcEEecCCCCCCCC-CCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQEL-PERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~   81 (235)
                      .+++|++|++++|.++.+ |..+ .+++|+.|++  .++.+..++...|..+++|++|++++|.++.+ +..+..+++|+
T Consensus        54 ~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L--~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~  131 (477)
T 2id5_A           54 SFPHLEELELNENIVSAVEPGAFNNLFNLRTLGL--RSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLK  131 (477)
T ss_dssp             TCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC--CSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCC
T ss_pred             CCCCCCEEECCCCccCEeChhhhhCCccCCEEEC--CCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCC
Confidence            356777777777777755 3334 6777777777  44555556665566777777777777777653 44566677777


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCc
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCW  134 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~  134 (235)
                      +|++++|.+..+  ..++.+++|++|++++|.++.++.. +..+++|+.|++++|.
T Consensus       132 ~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~  187 (477)
T 2id5_A          132 SLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLN  187 (477)
T ss_dssp             EEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCC
T ss_pred             EEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCc
Confidence            777777766654  4566666666666666666655432 5555555555555554

>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=99.90  E-value=1.2e-23  Score=167.39  Aligned_cols=190  Identities=22%  Similarity=0.215  Sum_probs=148.6

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC---ChhhcCCccCcEEec
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL---PSSLGRLINLQTLCL   85 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~---~~~l~~l~~L~~L~l   85 (235)
                      -+.++++++.++.+|... .++++.|++  .++.+..++...|..+++|++|++++|.++.+   +..+..+++|++|++
T Consensus         9 ~~~l~c~~~~l~~ip~~~-~~~l~~L~L--~~n~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L   85 (306)
T 2z66_A            9 GTEIRCNSKGLTSVPTGI-PSSATRLEL--ESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDL   85 (306)
T ss_dssp             TTEEECCSSCCSSCCSCC-CTTCCEEEC--CSSCCCCCCTTTTTTCTTCSEEECCSSCCCEEEEEEHHHHSCSCCCEEEC
T ss_pred             CCEEEcCCCCcccCCCCC-CCCCCEEEC--CCCccCccCHhHhhccccCCEEECCCCccCcccCcccccccccccCEEEC
Confidence            357899999999999876 579999999  55666688888789999999999999999854   567788999999999


Q ss_pred             cCcCCCCc-cccCCCCCCcEEEecCCCCCCcch--hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccc
Q 042164           86 DWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPL--EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW  162 (235)
Q Consensus        86 ~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  162 (235)
                      ++|.+..+ ..+..+++|++|++++|.++.++.  .+..+++|++|++++|.+ ...++..+..+++|++|++++|.+.+
T Consensus        86 s~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~  164 (306)
T 2z66_A           86 SFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT-RVAFNGIFNGLSSLEVLKMAGNSFQE  164 (306)
T ss_dssp             CSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCC-EECSTTTTTTCTTCCEEECTTCEEGG
T ss_pred             CCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcC-CccchhhcccCcCCCEEECCCCcccc
Confidence            99999888 678899999999999999997764  688999999999999984 44444448889999999999998874


Q ss_pred             cccCCCCCccchhcccCCCccceeeecCCCCCCC-ccc-cccccceeEE
Q 042164          163 DKVEGGSNASLAELKGLSKLTTLNIQVPDAQILP-QEW-VFVELQSYRI  209 (235)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p-~~~-~~~~L~~l~l  209 (235)
                      .       ..+..+..+++|+.|++++|.+..++ ..+ .+++|+.|++
T Consensus       165 ~-------~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  206 (306)
T 2z66_A          165 N-------FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM  206 (306)
T ss_dssp             G-------EECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC
T ss_pred             c-------cchhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEEC
Confidence            2       12344555556666666666655442 223 4555555555

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

Probab=99.90  E-value=3.8e-23  Score=166.34  Aligned_cols=191  Identities=19%  Similarity=0.236  Sum_probs=95.0

Q ss_pred             cCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            6 RKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      +++++.|++++|.+..+++ .+ .+++|+.|++  .++.+..++...|..+++|++|++++|.++.+|..+.  ++|++|
T Consensus        53 ~~~l~~L~l~~n~i~~~~~~~~~~l~~L~~L~L--~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~~L  128 (332)
T 2ft3_A           53 SPDTTLLDLQNNDISELRKDDFKGLQHLYALVL--VNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLVEL  128 (332)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEEC--CSSCCCEECGGGSTTCTTCCEEECCSSCCCSCCSSCC--TTCCEE
T ss_pred             CCCCeEEECCCCcCCccCHhHhhCCCCCcEEEC--CCCccCccCHhHhhCcCCCCEEECCCCcCCccCcccc--ccCCEE
Confidence            3456666666666655433 22 5666666666  3333333433334566666666666666655554332  556666


Q ss_pred             eccCcCCCCc--cccCCCCCCcEEEecCCCCCC---cchhhccC--------------------CCCcEEcccCCcCCCC
Q 042164           84 CLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ---LPLEIGQL--------------------TRLQLLDLSNCWSLEV  138 (235)
Q Consensus        84 ~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~---~~~~~~~l--------------------~~L~~L~l~~~~~~~~  138 (235)
                      ++++|.+..+  ..++.+++|++|++++|.++.   .+..+..+                    ++|++|++++|. +..
T Consensus       129 ~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~-i~~  207 (332)
T 2ft3_A          129 RIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHNK-IQA  207 (332)
T ss_dssp             ECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSCSSCSCCBCCSSC-CCC
T ss_pred             ECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCCccCEEECcCCCCCccCccccCCCCEEECCCCc-CCc
Confidence            6666655544  335556666666666665541   12223322                    233333333333 222


Q ss_pred             CchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEE
Q 042164          139 IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRI  209 (235)
Q Consensus       139 ~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l  209 (235)
                      ++...+..+++|++|++++|.+++.        ....+..+++|+.|++++|.+..+|..+ .+++|+.|++
T Consensus       208 ~~~~~l~~l~~L~~L~L~~N~l~~~--------~~~~~~~l~~L~~L~L~~N~l~~lp~~l~~l~~L~~L~l  271 (332)
T 2ft3_A          208 IELEDLLRYSKLYRLGLGHNQIRMI--------ENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYL  271 (332)
T ss_dssp             CCTTSSTTCTTCSCCBCCSSCCCCC--------CTTGGGGCTTCCEEECCSSCCCBCCTTGGGCTTCCEEEC
T ss_pred             cCHHHhcCCCCCCEEECCCCcCCcC--------ChhHhhCCCCCCEEECCCCcCeecChhhhcCccCCEEEC
Confidence            2222244444444444444444421        2224455556666666666666565555 5556666665

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

Probab=99.90  E-value=5.4e-23  Score=161.06  Aligned_cols=187  Identities=24%  Similarity=0.281  Sum_probs=143.8

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCcEE
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTL   83 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~~L   83 (235)
                      .+++++.|+++++.+..++....+++|+.|++  .++.+..++  .+..+++|++|++++|.++.+++ .+..+++|++|
T Consensus        39 ~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l--~~n~l~~~~--~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  114 (272)
T 3rfs_A           39 ELNSIDQIIANNSDIKSVQGIQYLPNVRYLAL--GGNKLHDIS--ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL  114 (272)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEEC--TTSCCCCCG--GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             cccceeeeeeCCCCcccccccccCCCCcEEEC--CCCCCCCch--hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEE
Confidence            35678889999988887776668889999998  444444444  25788899999999998887654 46788899999


Q ss_pred             eccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccc
Q 042164           84 CLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS  160 (235)
Q Consensus        84 ~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~  160 (235)
                      ++++|.+.++  ..++.+++|++|++++|.++.++.. +..+++|++|++++|. +..+++..++.+++|++|++++|.+
T Consensus       115 ~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          115 VLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQNQL  193 (272)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             ECCCCcCCccCHHHhccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCC-cCccCHHHhcCCccCCEEECCCCcC
Confidence            9999988877  4478888999999999988877654 6788899999999988 5566666578888999999999888


Q ss_pred             cccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEE
Q 042164          161 QWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      ++.        ....+..+++|+.|++++|++..     .+++++.+++
T Consensus       194 ~~~--------~~~~~~~l~~L~~L~l~~N~~~~-----~~~~l~~l~~  229 (272)
T 3rfs_A          194 KSV--------PDGVFDRLTSLQYIWLHDNPWDC-----TCPGIRYLSE  229 (272)
T ss_dssp             SCC--------CTTTTTTCTTCCEEECCSSCBCC-----CTTTTHHHHH
T ss_pred             Ccc--------CHHHHhCCcCCCEEEccCCCccc-----cCcHHHHHHH
Confidence            743        33456778889999999887652     2344555555

>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=99.90  E-value=2.4e-22  Score=161.50  Aligned_cols=214  Identities=13%  Similarity=0.137  Sum_probs=145.4

Q ss_pred             cCCCcEEecCCCCCCCC-CCcC-CCCCccEEEeccCCCCCccc---------------------chhhhhCCCCCcEEee
Q 042164            6 RKGPIAISLPQRDIQEL-PERL-QCPNLQLFLLFREGNGPMQI---------------------SDHFFEGTEELKVLDF   62 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i-~~~~-~l~~L~~L~l~~~~~~~~~~---------------------~~~~~~~~~~L~~L~l   62 (235)
                      +++|++|++++|.++.+ |..+ .+++|+.|++  .++.+..+                     +...|..+++|++|++
T Consensus        75 l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L--s~n~l~~l~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  152 (330)
T 1xku_A           75 LKNLHTLILINNKISKISPGAFAPLVKLERLYL--SKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVEL  152 (330)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC--CSSCCSBCCSSCCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEEC
T ss_pred             CCCCCEEECCCCcCCeeCHHHhcCCCCCCEEEC--CCCcCCccChhhcccccEEECCCCcccccCHhHhcCCccccEEEC
Confidence            45677777777776655 3334 6666666666  33333333                     3333455666666666


Q ss_pred             cCccCCC---CChhhcCCccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCC
Q 042164           63 TGIHFSS---LPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLE  137 (235)
Q Consensus        63 ~~~~~~~---~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~  137 (235)
                      ++|.++.   .+..+..+++|++|++++|.+..+ ..+  .++|++|++++|.++.+ +..+..+++|+.|++++|. +.
T Consensus       153 ~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~--~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~  229 (330)
T 1xku_A          153 GTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-IS  229 (330)
T ss_dssp             CSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSC--CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC-CC
T ss_pred             CCCcCCccCcChhhccCCCCcCEEECCCCccccCCccc--cccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-Cc
Confidence            6665542   334556666677777766666655 222  26788888888888855 5568899999999999998 55


Q ss_pred             CCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcccc--------ccccceeEE
Q 042164          138 VIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWV--------FVELQSYRI  209 (235)
Q Consensus       138 ~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~--------~~~L~~l~l  209 (235)
                      .++...+..+++|++|++++|.++         .++..+..+++|+.|++++|.++.++....        .+.++.+++
T Consensus       230 ~~~~~~~~~l~~L~~L~L~~N~l~---------~lp~~l~~l~~L~~L~l~~N~i~~~~~~~f~~~~~~~~~~~l~~l~l  300 (330)
T 1xku_A          230 AVDNGSLANTPHLRELHLNNNKLV---------KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSL  300 (330)
T ss_dssp             EECTTTGGGSTTCCEEECCSSCCS---------SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEEC
T ss_pred             eeChhhccCCCCCCEEECCCCcCc---------cCChhhccCCCcCEEECCCCcCCccChhhcCCcccccccccccceEe
Confidence            555545889999999999999988         345667889999999999999998876542        366788888


Q ss_pred             EecccccccchhhhhhhhhccccCC
Q 042164          210 CIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                       .+|.+......+..+..+.+++.+
T Consensus       301 -~~N~~~~~~i~~~~f~~~~~l~~l  324 (330)
T 1xku_A          301 -FSNPVQYWEIQPSTFRCVYVRAAV  324 (330)
T ss_dssp             -CSSSSCGGGSCGGGGTTCCCGGGE
T ss_pred             -ecCcccccccCccccccccceeEE
Confidence             456553222344566666666543

>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=99.90  E-value=4.9e-23  Score=172.23  Aligned_cols=133  Identities=25%  Similarity=0.396  Sum_probs=109.2

Q ss_pred             ccCCCcEEecCCCCCCCC-CCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQEL-PERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~   81 (235)
                      ..+++++|++++|.++.+ |..+ .+++|+.|++ +.+.....++...|..+++|++|++++|.++.+ |..+..+++|+
T Consensus        28 l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L-~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  106 (455)
T 3v47_A           28 LPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKV-EQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLE  106 (455)
T ss_dssp             CCTTCCEEECCSSCCCEECTTTTSSCTTCCEEEC-CCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCC
T ss_pred             CCCccCEEEecCCccCcCChhHhccCccccEEEC-cCCcccceECcccccccccCCEEeCCCCccCccChhhccCcccCC
Confidence            346899999999999876 4445 8999999999 655555567766678999999999999999874 67889999999


Q ss_pred             EEeccCcCCCCc----cccCCCCCCcEEEecCCCCCCc-chh-hccCCCCcEEcccCCcCCCC
Q 042164           82 TLCLDWCQLEDV----AAIGQLKKLEILSFRGSNIKQL-PLE-IGQLTRLQLLDLSNCWSLEV  138 (235)
Q Consensus        82 ~L~l~~~~l~~~----~~~~~l~~L~~L~l~~~~~~~~-~~~-~~~l~~L~~L~l~~~~~~~~  138 (235)
                      +|++++|.+.+.    ..++.+++|++|++++|.++.+ |.. +..+++|++|++++|.+.+.
T Consensus       107 ~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L~~L~L~~n~l~~~  169 (455)
T 3v47_A          107 VLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSI  169 (455)
T ss_dssp             EEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTCCEEECTTCCBSCC
T ss_pred             EEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcccEEeCCCCccccc
Confidence            999999998863    3388899999999999999865 544 78899999999999874443

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

Probab=99.90  E-value=1.1e-22  Score=163.72  Aligned_cols=214  Identities=16%  Similarity=0.145  Sum_probs=154.2

Q ss_pred             ccCCCcEEecCCCCCCCC-CCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQEL-PERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~   81 (235)
                      .+++|++|++++|.++.+ |..+ .+++|+.|++  .++.+..+|...+   ++|++|++++|.++.++. .+..+++|+
T Consensus        76 ~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L--~~n~l~~l~~~~~---~~L~~L~l~~n~i~~~~~~~~~~l~~L~  150 (332)
T 2ft3_A           76 GLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYI--SKNHLVEIPPNLP---SSLVELRIHDNRIRKVPKGVFSGLRNMN  150 (332)
T ss_dssp             TCTTCCEEECCSSCCCEECGGGSTTCTTCCEEEC--CSSCCCSCCSSCC---TTCCEEECCSSCCCCCCSGGGSSCSSCC
T ss_pred             CCCCCcEEECCCCccCccCHhHhhCcCCCCEEEC--CCCcCCccCcccc---ccCCEEECCCCccCccCHhHhCCCccCC
Confidence            456788888888888765 4444 7788888888  4445555665432   677777777777776653 466777777


Q ss_pred             EEeccCcCCCC--c--cccCCC--------------------CCCcEEEecCCCCCCcc-hhhccCCCCcEEcccCCcCC
Q 042164           82 TLCLDWCQLED--V--AAIGQL--------------------KKLEILSFRGSNIKQLP-LEIGQLTRLQLLDLSNCWSL  136 (235)
Q Consensus        82 ~L~l~~~~l~~--~--~~~~~l--------------------~~L~~L~l~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~  136 (235)
                      +|++++|.+..  +  ..++.+                    ++|++|++++|.++.++ ..+..+++|+.|++++|. +
T Consensus       151 ~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          151 CIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ-I  229 (332)
T ss_dssp             EEECCSCCCBGGGSCTTSSCSCCCSCCBCCSSBCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSC-C
T ss_pred             EEECCCCccccCCCCcccccCCccCEEECcCCCCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-C
Confidence            77777776642  1  222221                    47788888888888665 568899999999999998 5


Q ss_pred             CCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--------cccccceeE
Q 042164          137 EVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--------VFVELQSYR  208 (235)
Q Consensus       137 ~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--------~~~~L~~l~  208 (235)
                      ..+++..+..+++|++|++++|.++         .++..+..+++|+.|++++|.++.++...        .++.++.++
T Consensus       230 ~~~~~~~~~~l~~L~~L~L~~N~l~---------~lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~  300 (332)
T 2ft3_A          230 RMIENGSLSFLPTLRELHLDNNKLS---------RVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGIS  300 (332)
T ss_dssp             CCCCTTGGGGCTTCCEEECCSSCCC---------BCCTTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEE
T ss_pred             CcCChhHhhCCCCCCEEECCCCcCe---------ecChhhhcCccCCEEECCCCCCCccChhHccccccccccccccceE
Confidence            5566555899999999999999998         34566888999999999999999887654        146688898


Q ss_pred             EEecccccccchhhhhhhhhccccCC
Q 042164          209 ICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       209 l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      + .++.+......+..+..+++|+.+
T Consensus       301 l-~~N~~~~~~~~~~~~~~l~~L~~l  325 (332)
T 2ft3_A          301 L-FNNPVPYWEVQPATFRCVTDRLAI  325 (332)
T ss_dssp             C-CSSSSCGGGSCGGGGTTBCCSTTE
T ss_pred             e-ecCcccccccCcccccccchhhhh
Confidence            8 466553223345677888887765

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

Probab=99.90  E-value=1.5e-22  Score=174.97  Aligned_cols=225  Identities=16%  Similarity=0.166  Sum_probs=167.0

Q ss_pred             cccCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccC
Q 042164            4 TIRKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINL   80 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L   80 (235)
                      ...+++++|++++|.++.+++ .+ .+++|++|++  .++.+..+.+..|+.+++|++|++++|.++.+ |..+..+++|
T Consensus        30 ~l~~~l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L--s~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  107 (606)
T 3t6q_A           30 TLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDL--TRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKAL  107 (606)
T ss_dssp             TSCTTCCEEECTTCCCSEECTTTSTTCTTCSEEEC--TTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTC
T ss_pred             CCCCcCcEEEccCCccCcCChhHhccCccceEEEC--CCCccceeChhhccCccccCeeeCCCCcccccChhhhcccccc
Confidence            345689999999999997744 44 8999999999  44555556555578999999999999999874 6678999999


Q ss_pred             cEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcc-hhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCc--EEEe
Q 042164           81 QTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLP-LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE--ELYM  155 (235)
Q Consensus        81 ~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~--~L~l  155 (235)
                      ++|++++|.+.++  ..++.+++|++|++++|.++.++ +.+..+++|++|++++|. +..+++..++.+++|+  ++++
T Consensus       108 ~~L~L~~n~i~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~l~L~l  186 (606)
T 3t6q_A          108 KHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNA-IHYLSKEDMSSLQQATNLSLNL  186 (606)
T ss_dssp             CEEECTTSCCSCGGGSCCTTCTTCCEEECCSSCCCCCCCCTTCCCTTCCEEECCSSC-CCEECHHHHHTTTTCCSEEEEC
T ss_pred             cEeeccccCcccCCcchhccCCcccEEECCCCcccccCcccccCCcccCEEEcccCc-ccccChhhhhhhcccceeEEec
Confidence            9999999999976  77889999999999999998653 334458999999999998 5555555588888888  8888


Q ss_pred             ccccccccccCCCC------------------------------------------------------------------
Q 042164          156 DISFSQWDKVEGGS------------------------------------------------------------------  169 (235)
Q Consensus       156 ~~n~~~~~~~~~~~------------------------------------------------------------------  169 (235)
                      ++|.+++.......                                                                  
T Consensus       187 ~~n~l~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~~~l~~l~~~~~~~~~~~~i~~~~~~~l~~~~L~~L~l~~n~l  266 (606)
T 3t6q_A          187 NGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYF  266 (606)
T ss_dssp             TTCCCCEECTTTTTTCEEEEEECTTCSCHHHHHHHTTTCEEEEEECCCCTTSCCCCCCGGGGGGGGGSEEEEEECTTCCC
T ss_pred             CCCccCccChhHhhhccccccccCCchhHHHHhhhccccchhheechhhccccccccChhHhchhhcCceeEEEeecCcc
Confidence            88877654221100                                                                  


Q ss_pred             -CccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          170 -NASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       170 -~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                       ......++.+++|++|++++|.++.+|..+ .+++|+.|++. ++...+  ..+..++++++|+.|
T Consensus       267 ~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~-~n~l~~--~~~~~~~~l~~L~~L  330 (606)
T 3t6q_A          267 FNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLS-ANKFEN--LCQISASNFPSLTHL  330 (606)
T ss_dssp             SSCCTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECT-TCCCSB--GGGGCGGGCTTCSEE
T ss_pred             CccCHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECc-cCCcCc--CchhhhhccCcCCEE
Confidence             011223667788999999999988888877 77888888884 444321  122445555555443

>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=99.90  E-value=5.7e-23  Score=177.52  Aligned_cols=215  Identities=17%  Similarity=0.164  Sum_probs=154.2

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~   81 (235)
                      .+.+++.++++++.+..+|+..  .+++|+.|++  .++.+..++...|..+++|++|++++|.++.+++ .+..+++|+
T Consensus        49 ~l~~l~~l~l~~~~l~~lp~~~~~~l~~L~~L~L--~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  126 (597)
T 3oja_B           49 TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNL--NDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLT  126 (597)
T ss_dssp             GGCCCSEEEESSCEESEECTHHHHHCCCCSEEEC--TTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             cCCCceEEEeeCCCCCCcCHHHHccCCCCcEEEC--CCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCC
Confidence            3578899999999999998875  7999999999  5555666666557999999999999999998664 578999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhh---------------
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNV---------------  143 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~---------------  143 (235)
                      +|++++|.+..+  ..++.+++|++|++++|.++.++. .++.+++|++|++++|.+ ..++...               
T Consensus       127 ~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l-~~~~~~~l~~L~~L~l~~n~l~  205 (597)
T 3oja_B          127 VLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL-THVDLSLIPSLFHANVSYNLLS  205 (597)
T ss_dssp             EEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCC-SBCCGGGCTTCSEEECCSSCCS
T ss_pred             EEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCC-CCcChhhhhhhhhhhcccCccc
Confidence            999999999988  447899999999999999997654 588999999999999973 3333111               


Q ss_pred             --------------------------------------------hcCCCCCcEEEeccccccccccCCCCCccchhcccC
Q 042164          144 --------------------------------------------ISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGL  179 (235)
Q Consensus       144 --------------------------------------------l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~  179 (235)
                                                                  ++.+++|+.|++++|.+++.        .+..++.+
T Consensus       206 ~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~l~~~--------~~~~~~~l  277 (597)
T 3oja_B          206 TLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKI--------MYHPFVKM  277 (597)
T ss_dssp             EEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCEE--------ESGGGTTC
T ss_pred             cccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCCccCCC--------CHHHhcCc
Confidence                                                        23334444444444444422        34455666


Q ss_pred             CCccceeeecCCCCCCCccc-cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          180 SKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       180 ~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      ++|+.|++++|.+..+|... .+++|+.|+++ ++... .  .+.++..+++|++|
T Consensus       278 ~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~Ls-~N~l~-~--i~~~~~~l~~L~~L  329 (597)
T 3oja_B          278 QRLERLYISNNRLVALNLYGQPIPTLKVLDLS-HNHLL-H--VERNQPQFDRLENL  329 (597)
T ss_dssp             SSCCEEECTTSCCCEEECSSSCCTTCCEEECC-SSCCC-C--CGGGHHHHTTCSEE
T ss_pred             cCCCEEECCCCCCCCCCcccccCCCCcEEECC-CCCCC-c--cCcccccCCCCCEE
Confidence            66666666666666666555 56677777764 33332 1  22345555555544

>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=99.90  E-value=8.3e-23  Score=170.83  Aligned_cols=85  Identities=18%  Similarity=0.276  Sum_probs=46.9

Q ss_pred             cCCCcEEecCCCCCCCC-CCcC-CCCCccEEEeccCCCCCcccch-hhhhCCCCCcEEeecCccCCCC-Chh-hcCCccC
Q 042164            6 RKGPIAISLPQRDIQEL-PERL-QCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSL-PSS-LGRLINL   80 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i-~~~~-~l~~L~~L~l~~~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~~-~~~-l~~l~~L   80 (235)
                      +++|++|++++|.+..+ |..+ .+++|++|++ +.+......+. ..|..+++|++|++++|.++.+ |.. +..+++|
T Consensus        78 l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L-~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~~L  156 (455)
T 3v47_A           78 LSSLIILKLDYNQFLQLETGAFNGLANLEVLTL-TQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRF  156 (455)
T ss_dssp             CTTCCEEECTTCTTCEECTTTTTTCTTCCEEEC-TTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCTTC
T ss_pred             cccCCEEeCCCCccCccChhhccCcccCCEEeC-CCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCCcc
Confidence            45666666666666544 3333 5666666666 33333222221 2245566666666666666654 333 5566666


Q ss_pred             cEEeccCcCCC
Q 042164           81 QTLCLDWCQLE   91 (235)
Q Consensus        81 ~~L~l~~~~l~   91 (235)
                      ++|++++|.+.
T Consensus       157 ~~L~L~~n~l~  167 (455)
T 3v47_A          157 HVLDLTFNKVK  167 (455)
T ss_dssp             CEEECTTCCBS
T ss_pred             cEEeCCCCccc
Confidence            66666666544

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

Probab=99.89  E-value=4e-23  Score=179.65  Aligned_cols=223  Identities=13%  Similarity=0.148  Sum_probs=143.3

Q ss_pred             cCCCcEEecCCCCCCCCCC--cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCcc-Cc
Q 042164            6 RKGPIAISLPQRDIQELPE--RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLIN-LQ   81 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~--~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~-L~   81 (235)
                      +++|++|++++|.++.+|.  .+ .+++|+.|++ +.+...+.+| . |..+++|++|++++|.++.+|..+..+++ |+
T Consensus       304 l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L-~~N~l~g~ip-~-~~~l~~L~~L~L~~N~l~~lp~~l~~l~~~L~  380 (636)
T 4eco_A          304 GEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLEC-LYNQLEGKLP-A-FGSEIKLASLNLAYNQITEIPANFCGFTEQVE  380 (636)
T ss_dssp             GGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEEC-CSCCCEEECC-C-CEEEEEESEEECCSSEEEECCTTSEEECTTCC
T ss_pred             CCCCCEEECCCCcCCccCchhhhccCCCCCEEeC-cCCcCccchh-h-hCCCCCCCEEECCCCccccccHhhhhhcccCc
Confidence            4788888888888888887  44 7888888888 5554444677 3 57777888888888877777777777777 88


Q ss_pred             EEeccCcCCCCc-cccCCC--CCCcEEEecCCCCC-Ccchhhc-------cCCCCcEEcccCCcCCCCCchhhhcCCCCC
Q 042164           82 TLCLDWCQLEDV-AAIGQL--KKLEILSFRGSNIK-QLPLEIG-------QLTRLQLLDLSNCWSLEVIPPNVISKLSRL  150 (235)
Q Consensus        82 ~L~l~~~~l~~~-~~~~~l--~~L~~L~l~~~~~~-~~~~~~~-------~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L  150 (235)
                      +|++++|.+..+ ..++..  ++|++|++++|.++ ..|..+.       .+++|++|++++|. +..+|..++..+++|
T Consensus       381 ~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~-l~~lp~~~~~~l~~L  459 (636)
T 4eco_A          381 NLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQ-ISKFPKELFSTGSPL  459 (636)
T ss_dssp             EEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSC-CCSCCTHHHHTTCCC
T ss_pred             EEEccCCcCcccchhhhhcccCccCEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCc-cCcCCHHHHccCCCC
Confidence            888887777766 334433  25666666666665 2344444       55566666666665 445555545556666


Q ss_pred             cEEEeccccccccccCC----------------------CCCccchhcc--cCCCccceeeecCCCCCCCccc-cccccc
Q 042164          151 EELYMDISFSQWDKVEG----------------------GSNASLAELK--GLSKLTTLNIQVPDAQILPQEW-VFVELQ  205 (235)
Q Consensus       151 ~~L~l~~n~~~~~~~~~----------------------~~~~~~~~~~--~~~~L~~L~l~~n~~~~~p~~~-~~~~L~  205 (235)
                      ++|++++|.++......                      ....++..+.  .+++|+.|++++|.+..+|..+ .+++|+
T Consensus       460 ~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~~l~~L~  539 (636)
T 4eco_A          460 SSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLK  539 (636)
T ss_dssp             SEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCCCBCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCSSCC
T ss_pred             CEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcCCccChhhhhccCCCcCEEECCCCCCCCcChhhhcCCCCC
Confidence            66666666555221100                      0012344444  6778888888888887777776 777788


Q ss_pred             eeEEEe-----cccccccchhhhhhhhhccccCC
Q 042164          206 SYRICI-----GNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       206 ~l~l~~-----~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      .|+++.     ++...+.  .+.++.++++|+.|
T Consensus       540 ~L~Ls~N~~ls~N~l~~~--~p~~l~~l~~L~~L  571 (636)
T 4eco_A          540 GFGIRNQRDAQGNRTLRE--WPEGITLCPSLTQL  571 (636)
T ss_dssp             EEECCSCBCTTCCBCCCC--CCTTGGGCSSCCEE
T ss_pred             EEECCCCcccccCccccc--ChHHHhcCCCCCEE
Confidence            887743     2333222  33567777777665

>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=99.89  E-value=2.2e-22  Score=173.97  Aligned_cols=221  Identities=20%  Similarity=0.206  Sum_probs=117.1

Q ss_pred             cCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCC-CCCh-hhcCCccCcE
Q 042164            6 RKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFS-SLPS-SLGRLINLQT   82 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~-~~~~-~l~~l~~L~~   82 (235)
                      ++++++|++++|.++.+|..+ .+++|+.|++  .++.+..+++..+..+++|++|++++|.+. .++. .+..+++|++
T Consensus       277 l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l--~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~  354 (606)
T 3t6q_A          277 FSGLQELDLTATHLSELPSGLVGLSTLKKLVL--SANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRE  354 (606)
T ss_dssp             CTTCSEEECTTSCCSCCCSSCCSCTTCCEEEC--TTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCE
T ss_pred             ccCCCEEeccCCccCCCChhhcccccCCEEEC--ccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCE
Confidence            567777888887777777666 7777777777  434444443333456666666666666554 2332 2555666666


Q ss_pred             EeccCcCCCCc----cccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecc
Q 042164           83 LCLDWCQLEDV----AAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI  157 (235)
Q Consensus        83 L~l~~~~l~~~----~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  157 (235)
                      |++++|.+.++    ..++.+++|++|++++|.+..+ +..+..+++|++|++++|.+.+..+...+..+++|++|++++
T Consensus       355 L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~  434 (606)
T 3t6q_A          355 LDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSH  434 (606)
T ss_dssp             EECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCTTCCEEECTT
T ss_pred             EECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcccCCEEECCC
Confidence            66666655533    2345555555555555555432 333444555555555555432222222234444444444444


Q ss_pred             ccccccccCC-------------------CCCccchhcccCCCccceeeecCCCCCCC-ccc-cccccceeEEEeccccc
Q 042164          158 SFSQWDKVEG-------------------GSNASLAELKGLSKLTTLNIQVPDAQILP-QEW-VFVELQSYRICIGNKWW  216 (235)
Q Consensus       158 n~~~~~~~~~-------------------~~~~~~~~~~~~~~L~~L~l~~n~~~~~p-~~~-~~~~L~~l~l~~~~~~~  216 (235)
                      |.+.+.....                   ........+..+++|+.|++++|.+..++ ..+ .+++|+.|+++ ++...
T Consensus       435 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls-~N~l~  513 (606)
T 3t6q_A          435 SLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLS-HNRLT  513 (606)
T ss_dssp             CCCBTTCTTTTTTCTTCCEEECTTCBCGGGEECSSCGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECC-SSCCC
T ss_pred             CccCCcCHHHHhCCCCCCEEECCCCCCCccccccchhhccCCCccEEECCCCccCccChhhhccccCCCEEECC-CCccC
Confidence            4443221000                   00011234566677777777777776543 333 66777777773 44442


Q ss_pred             ccchhhhhhhhhccc
Q 042164          217 SSWSVKSGLSRLMKL  231 (235)
Q Consensus       217 ~~~~~~~~~~~l~~L  231 (235)
                      +  ..+.++.++++|
T Consensus       514 ~--~~~~~l~~l~~L  526 (606)
T 3t6q_A          514 S--SSIEALSHLKGI  526 (606)
T ss_dssp             G--GGGGGGTTCCSC
T ss_pred             c--CChhHhCccccc
Confidence            2  233556666555

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

Probab=99.89  E-value=1e-21  Score=158.81  Aligned_cols=190  Identities=21%  Similarity=0.246  Sum_probs=125.3

Q ss_pred             cccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            4 TIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      ..++++++|++++|.++.++....+++|++|++  .++.+..++.  +..+++|++|++++|.++.++. +..+++|+++
T Consensus        63 ~~~~~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           63 EYLTNLEYLNLNGNQITDISPLSNLVKLTNLYI--GTNKITDISA--LQNLTNLRELYLNEDNISDISP-LANLTKMYSL  137 (347)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGTTCTTCCEEEC--CSSCCCCCGG--GTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEE
T ss_pred             hhcCCccEEEccCCccccchhhhcCCcCCEEEc--cCCcccCchH--HcCCCcCCEEECcCCcccCchh-hccCCceeEE
Confidence            346788899999998888877558888999998  4445555543  6788888888888888887765 6777788888


Q ss_pred             eccCcC-CCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchh--------------------
Q 042164           84 CLDWCQ-LEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPN--------------------  142 (235)
Q Consensus        84 ~l~~~~-l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~--------------------  142 (235)
                      ++++|. ...+..+..+++|++|++++|.+..++. +..+++|++|++++|. +..++.-                    
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 NLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP-IANLTDLYSLSLNYNQ-IEDISPLASLTSLHYFTAYVNQITDIT  215 (347)
T ss_dssp             ECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCSEEECTTSC-CCCCGGGGGCTTCCEEECCSSCCCCCG
T ss_pred             ECCCCCCcccccchhhCCCCcEEEecCCCcCCchh-hccCCCCCEEEccCCc-ccccccccCCCccceeecccCCCCCCc
Confidence            887774 3344556666667777776666665543 5566666666666665 3333330                    


Q ss_pred             hhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEE
Q 042164          143 VISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRIC  210 (235)
Q Consensus       143 ~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~  210 (235)
                      .+..+++|++|++++|.++.          ...+..+++|+.|++++|.+..++....+++|+.|+++
T Consensus       216 ~~~~~~~L~~L~l~~n~l~~----------~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~  273 (347)
T 4fmz_A          216 PVANMTRLNSLKIGNNKITD----------LSPLANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVG  273 (347)
T ss_dssp             GGGGCTTCCEEECCSSCCCC----------CGGGTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEECC
T ss_pred             hhhcCCcCCEEEccCCccCC----------CcchhcCCCCCEEECCCCccCCChhHhcCCCcCEEEcc
Confidence            03444455555555554441          12266677777777777777766543367777777774

>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=99.89  E-value=1.9e-22  Score=158.21  Aligned_cols=210  Identities=21%  Similarity=0.238  Sum_probs=166.3

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCc
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWC   88 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~   88 (235)
                      ..++..+..+..+|..+ .++++.|++  .++.+..++...|..+++|++|++++|.++.++ ..+..+++|++|++++|
T Consensus        10 ~~~~c~~~~l~~ip~~l-~~~l~~L~l--s~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n   86 (276)
T 2z62_A           10 ITYQCMELNFYKIPDNL-PFSTKNLDL--SFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN   86 (276)
T ss_dssp             TEEECTTSCCSSCCSSS-CTTCCEEEC--TTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTC
T ss_pred             ceEEecCCCccccCCCC-CCCccEEEC--CCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCC
Confidence            46778888888898876 468999999  556666677656789999999999999999865 46889999999999999


Q ss_pred             CCCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCC-CCchhhhcCCCCCcEEEeccccccccc
Q 042164           89 QLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLE-VIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        89 ~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~-~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      .+.++  ..+..+++|++|++++|.++.++. .+..+++|++|++++|.+.+ .+|.. +..+++|++|++++|.+++. 
T Consensus        87 ~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l~~~-~~~l~~L~~L~Ls~N~l~~~-  164 (276)
T 2z62_A           87 PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY-FSNLTNLEHLDLSSNKIQSI-  164 (276)
T ss_dssp             CCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGG-GGGCTTCCEEECCSSCCCEE-
T ss_pred             ccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecCchh-hccCCCCCEEECCCCCCCcC-
Confidence            99876  678999999999999999997765 58899999999999998433 24555 89999999999999999844 


Q ss_pred             cCCCCCccchhcccCCCcc----ceeeecCCCCCCCccc-cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          165 VEGGSNASLAELKGLSKLT----TLNIQVPDAQILPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~----~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                             ....+..+++|+    .|++++|.+..++... ...+|+.|+++ ++... .. .+..+.++++|+.|
T Consensus       165 -------~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~-~n~l~-~~-~~~~~~~l~~L~~L  229 (276)
T 2z62_A          165 -------YCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALD-TNQLK-SV-PDGIFDRLTSLQKI  229 (276)
T ss_dssp             -------CGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECC-SSCCS-CC-CTTTTTTCCSCCEE
T ss_pred             -------CHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECC-CCcee-ec-CHhHhcccccccEE
Confidence                   233444444555    8999999999887766 55689999995 45452 22 23456777777654

>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=99.89  E-value=6.5e-22  Score=153.10  Aligned_cols=177  Identities=24%  Similarity=0.345  Sum_probs=152.0

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEec
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCL   85 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l   85 (235)
                      .+.++++++++.++.+|..+ .++++.|++  .++.+..++...|..+++|++|++++|.++.++ ..+..+++|++|++
T Consensus        14 ~~~~~l~~~~~~l~~~p~~~-~~~l~~L~L--~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L   90 (251)
T 3m19_A           14 EGKKEVDCQGKSLDSVPSGI-PADTEKLDL--QSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGL   90 (251)
T ss_dssp             GGGTEEECTTCCCSSCCSCC-CTTCCEEEC--TTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCeEEecCCCCccccCCCC-CCCCCEEEc--cCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEEC
Confidence            45678999999999999877 478999999  555566666666789999999999999999865 45789999999999


Q ss_pred             cCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccc
Q 042164           86 DWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW  162 (235)
Q Consensus        86 ~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  162 (235)
                      ++|.+..+  ..++.+++|++|++++|.++.++.. +..+++|++|++++|. +..+++..+..+++|++|++++|.+++
T Consensus        91 ~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~~  169 (251)
T 3m19_A           91 ANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ-LQSIPAGAFDKLTNLQTLSLSTNQLQS  169 (251)
T ss_dssp             TTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCSC
T ss_pred             CCCcccccChhHhcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCCc-CCccCHHHcCcCcCCCEEECCCCcCCc
Confidence            99999977  6778999999999999999988765 7889999999999998 667777668999999999999999984


Q ss_pred             cccCCCCCccchhcccCCCccceeeecCCCCCC
Q 042164          163 DKVEGGSNASLAELKGLSKLTTLNIQVPDAQIL  195 (235)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~  195 (235)
                      .        ....+..+++|+.|++++|++...
T Consensus       170 ~--------~~~~~~~l~~L~~L~l~~N~~~c~  194 (251)
T 3m19_A          170 V--------PHGAFDRLGKLQTITLFGNQFDCS  194 (251)
T ss_dssp             C--------CTTTTTTCTTCCEEECCSCCBCTT
T ss_pred             c--------CHHHHhCCCCCCEEEeeCCceeCC
Confidence            4        345678889999999999998744

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

Probab=99.89  E-value=5.3e-24  Score=169.98  Aligned_cols=190  Identities=18%  Similarity=0.169  Sum_probs=92.9

Q ss_pred             cCCCcEEecCCCCCC-CCCCc---CCCCCccEEEeccCCCCCcccchhhhhCC-----CCCcEEeecCccCCCCC-hhhc
Q 042164            6 RKGPIAISLPQRDIQ-ELPER---LQCPNLQLFLLFREGNGPMQISDHFFEGT-----EELKVLDFTGIHFSSLP-SSLG   75 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-~i~~~---~~l~~L~~L~l~~~~~~~~~~~~~~~~~~-----~~L~~L~l~~~~~~~~~-~~l~   75 (235)
                      ++++++|++++|.++ .+|..   ..+++|+.|++ +. +.+...|.. +..+     ++|++|++++|.++.++ ..+.
T Consensus        94 l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L-s~-N~l~~~~~~-~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~  170 (312)
T 1wwl_A           94 ISGLQELTLENLEVTGTAPPPLLEATGPDLNILNL-RN-VSWATRDAW-LAELQQWLKPGLKVLSIAQAHSLNFSCEQVR  170 (312)
T ss_dssp             TSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEE-ES-CBCSSSSSH-HHHHHTTCCTTCCEEEEESCSCCCCCTTTCC
T ss_pred             cCCccEEEccCCcccchhHHHHHHhcCCCccEEEc-cC-CCCcchhHH-HHHHHHhhcCCCcEEEeeCCCCccchHHHhc
Confidence            445555666655554 34443   14555566665 22 223223322 2333     55566666655555543 4455


Q ss_pred             CCccCcEEeccCcCCCCc----ccc--CCCCCCcEEEecCCCCCCcc---hh-hccCCCCcEEcccCCcCCCCCchhhhc
Q 042164           76 RLINLQTLCLDWCQLEDV----AAI--GQLKKLEILSFRGSNIKQLP---LE-IGQLTRLQLLDLSNCWSLEVIPPNVIS  145 (235)
Q Consensus        76 ~l~~L~~L~l~~~~l~~~----~~~--~~l~~L~~L~l~~~~~~~~~---~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~  145 (235)
                      .+++|++|++++|.+.+.    ..+  +.+++|++|++++|.++.++   .. +..+++|++|++++|.+.+..+...+.
T Consensus       171 ~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~  250 (312)
T 1wwl_A          171 VFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCD  250 (312)
T ss_dssp             CCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSCCC
T ss_pred             cCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhhhh
Confidence            555666666655554321    222  45555566666655555322   12 234555666666655533333222234


Q ss_pred             CCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEE
Q 042164          146 KLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       146 ~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      .+++|++|++++|.++.         ++..+.  ++|+.|++++|.++.+|....+++|+.|++
T Consensus       251 ~l~~L~~L~Ls~N~l~~---------ip~~~~--~~L~~L~Ls~N~l~~~p~~~~l~~L~~L~L  303 (312)
T 1wwl_A          251 WPSQLNSLNLSFTGLKQ---------VPKGLP--AKLSVLDLSYNRLDRNPSPDELPQVGNLSL  303 (312)
T ss_dssp             CCTTCCEEECTTSCCSS---------CCSSCC--SEEEEEECCSSCCCSCCCTTTSCEEEEEEC
T ss_pred             hcCCCCEEECCCCccCh---------hhhhcc--CCceEEECCCCCCCCChhHhhCCCCCEEec
Confidence            45556666666555551         122222  455556666665555554225555555555

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

Probab=99.89  E-value=8.9e-23  Score=159.81  Aligned_cols=194  Identities=20%  Similarity=0.300  Sum_probs=160.5

Q ss_pred             CCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccC
Q 042164            8 GPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW   87 (235)
Q Consensus         8 ~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~   87 (235)
                      ++..+++..+.+..+.....+++|+.|.+  .++.+..++.  +..+++|++|++++|.++.++ .+..+++|++|++++
T Consensus        20 ~l~~l~l~~~~~~~~~~~~~l~~L~~L~l--~~~~i~~~~~--l~~l~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~   94 (272)
T 3rfs_A           20 ETIKANLKKKSVTDAVTQNELNSIDQIIA--NNSDIKSVQG--IQYLPNVRYLALGGNKLHDIS-ALKELTNLTYLILTG   94 (272)
T ss_dssp             HHHHHHHTCSCTTSEECHHHHTTCCEEEC--TTSCCCCCTT--GGGCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECTT
T ss_pred             HHHHHHhcCcccccccccccccceeeeee--CCCCcccccc--cccCCCCcEEECCCCCCCCch-hhcCCCCCCEEECCC
Confidence            44556666766665544448899999999  5555555554  688999999999999998875 688999999999999


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      |.+.++  ..++.+++|++|++++|.++.++.. +..+++|++|++++|. +..+++..++.+++|++|++++|.+++. 
T Consensus        95 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~-  172 (272)
T 3rfs_A           95 NQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQ-LQSLPKGVFDKLTNLTELDLSYNQLQSL-  172 (272)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCC-
T ss_pred             CccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECCCCc-cCccCHHHhccCccCCEEECCCCCcCcc-
Confidence            999987  4578999999999999999977665 7899999999999998 6667776678999999999999999843 


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEeccccc
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKWW  216 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~~  216 (235)
                             ....++.+++|+.|++++|.+..++...  .+++|+.|++. ++.+.
T Consensus       173 -------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~-~N~~~  218 (272)
T 3rfs_A          173 -------PEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLH-DNPWD  218 (272)
T ss_dssp             -------CTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC-SSCBC
T ss_pred             -------CHHHhcCCccCCEEECCCCcCCccCHHHHhCCcCCCEEEcc-CCCcc
Confidence                   3445788999999999999999887764  78999999994 55553

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

Probab=99.89  E-value=2.9e-22  Score=178.39  Aligned_cols=213  Identities=14%  Similarity=0.197  Sum_probs=127.9

Q ss_pred             cCCCcEEecCCCCCCCCCC--cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCcc-Cc
Q 042164            6 RKGPIAISLPQRDIQELPE--RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLIN-LQ   81 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~--~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~-L~   81 (235)
                      +++|++|++++|.+..+|.  .+ .+++|+.|++ +.+ .+..+|  .|..+++|+.|++++|.++.+|..+..+++ |+
T Consensus       547 l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~L-s~N-~l~~lp--~~~~L~~L~~L~Ls~N~l~~lp~~l~~l~~~L~  622 (876)
T 4ecn_A          547 GPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDC-VHN-KVRHLE--AFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVE  622 (876)
T ss_dssp             TTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEEC-TTS-CCCBCC--CCCTTSEESEEECCSSCCSCCCTTSCEECTTCC
T ss_pred             cCCccEEEeeCCcCCccCChhhhhcCCCCCEEEC-CCC-Ccccch--hhcCCCcceEEECcCCccccchHHHhhccccCC
Confidence            4577778888877777777  44 7777888887 333 333666  257777777777777777777766777777 77


Q ss_pred             EEeccCcCCCCc-cccCCCC-------------------------------CCcEEEecCCCCCCcchhh-ccCCCCcEE
Q 042164           82 TLCLDWCQLEDV-AAIGQLK-------------------------------KLEILSFRGSNIKQLPLEI-GQLTRLQLL  128 (235)
Q Consensus        82 ~L~l~~~~l~~~-~~~~~l~-------------------------------~L~~L~l~~~~~~~~~~~~-~~l~~L~~L  128 (235)
                      +|++++|.+..+ ..+..+.                               +|+.|++++|.++.+|..+ ..+++|+.|
T Consensus       623 ~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L  702 (876)
T 4ecn_A          623 GLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTI  702 (876)
T ss_dssp             EEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEECCSSCCCSCCHHHHHTTCCCSEE
T ss_pred             EEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEccCCcCCccCHHHHccCCCCCEE
Confidence            777777776655 3333222                               3444444444444444432 244555555


Q ss_pred             cccCCcCCCCCchhhhcCC-------CCCcEEEeccccccccccCCCCCccchhcc--cCCCccceeeecCCCCCCCccc
Q 042164          129 DLSNCWSLEVIPPNVISKL-------SRLEELYMDISFSQWDKVEGGSNASLAELK--GLSKLTTLNIQVPDAQILPQEW  199 (235)
Q Consensus       129 ~l~~~~~~~~~~~~~l~~~-------~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~--~~~~L~~L~l~~n~~~~~p~~~  199 (235)
                      ++++|. +..+|...+...       ++|++|++++|.++         .++..+.  .+++|+.|+|++|.+..+|..+
T Consensus       703 ~Ls~N~-L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~---------~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~l  772 (876)
T 4ecn_A          703 ILSNNL-MTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLT---------SLSDDFRATTLPYLSNMDVSYNCFSSFPTQP  772 (876)
T ss_dssp             ECCSCC-CSCCCTTSSSCTTSCCTTGGGCCEEECCSSCCC---------CCCGGGSTTTCTTCCEEECCSSCCSSCCCGG
T ss_pred             ECCCCc-CCccChHHhccccccccccCCccEEECCCCCCc---------cchHHhhhccCCCcCEEEeCCCCCCccchhh
Confidence            555554 334444322211       14555555555554         2344554  6778888888888887777766


Q ss_pred             -cccccceeEEEec-----ccccccchhhhhhhhhccccCC
Q 042164          200 -VFVELQSYRICIG-----NKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       200 -~~~~L~~l~l~~~-----~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                       .+++|+.|+++.+     +...+.  .+.++.++++|+.|
T Consensus       773 ~~L~~L~~L~Ls~N~~ls~N~l~~~--ip~~l~~L~~L~~L  811 (876)
T 4ecn_A          773 LNSSQLKAFGIRHQRDAEGNRILRQ--WPTGITTCPSLIQL  811 (876)
T ss_dssp             GGCTTCCEEECCCCBCTTCCBCCCC--CCTTGGGCSSCCEE
T ss_pred             hcCCCCCEEECCCCCCccccccccc--ChHHHhcCCCCCEE
Confidence             7778888877531     333222  23567777777655

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

Probab=99.89  E-value=8.6e-23  Score=177.52  Aligned_cols=194  Identities=17%  Similarity=0.169  Sum_probs=117.9

Q ss_pred             cCCCcEEecCCCCCC-CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCC-CcEEeecCccCCCCChhh--------
Q 042164            6 RKGPIAISLPQRDIQ-ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEE-LKVLDFTGIHFSSLPSSL--------   74 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~-L~~L~l~~~~~~~~~~~l--------   74 (235)
                      +++|++|++++|.+. .+| .+ .+++|+.|++  .++.+..+|.. +..++. |++|++++|.++.+|..+        
T Consensus       329 l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L--~~N~l~~lp~~-l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L  404 (636)
T 4eco_A          329 MKKLGMLECLYNQLEGKLP-AFGSEIKLASLNL--AYNQITEIPAN-FCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVM  404 (636)
T ss_dssp             CTTCCEEECCSCCCEEECC-CCEEEEEESEEEC--CSSEEEECCTT-SEEECTTCCEEECCSSCCSSCCSCCCTTCSSCE
T ss_pred             CCCCCEEeCcCCcCccchh-hhCCCCCCCEEEC--CCCccccccHh-hhhhcccCcEEEccCCcCcccchhhhhcccCcc
Confidence            455666666666665 555 33 5555555555  33333344444 244444 555555555555444433        


Q ss_pred             ------------------c-------CCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchhhcc-C----
Q 042164           75 ------------------G-------RLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEIGQ-L----  122 (235)
Q Consensus        75 ------------------~-------~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~~~~-l----  122 (235)
                                        .       .+++|++|++++|.+..+  ..+..+++|++|++++|.++.+|..+.. .    
T Consensus       405 ~~L~Ls~N~l~~~~p~~l~~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~  484 (636)
T 4eco_A          405 SAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENF  484 (636)
T ss_dssp             EEEECCSSCTTTTTTCSSCTTCSSCCCCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETTEEC
T ss_pred             CEEECcCCcCCCcchhhhcccccccccCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhccccccc
Confidence                              3       344555555555555544  2233456666666666666655543222 1    


Q ss_pred             ---CCCcEEcccCCcCCCCCchhhhc--CCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeee------cCC
Q 042164          123 ---TRLQLLDLSNCWSLEVIPPNVIS--KLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ------VPD  191 (235)
Q Consensus       123 ---~~L~~L~l~~~~~~~~~~~~~l~--~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~------~n~  191 (235)
                         ++|+.|++++|. +..+|.. +.  .+++|++|++++|.++         .++..+..+++|+.|+++      +|.
T Consensus       485 ~~l~~L~~L~Ls~N~-l~~lp~~-~~~~~l~~L~~L~Ls~N~l~---------~ip~~~~~l~~L~~L~Ls~N~~ls~N~  553 (636)
T 4eco_A          485 KNTYLLTSIDLRFNK-LTKLSDD-FRATTLPYLVGIDLSYNSFS---------KFPTQPLNSSTLKGFGIRNQRDAQGNR  553 (636)
T ss_dssp             TTGGGCCEEECCSSC-CCBCCGG-GSTTTCTTCCEEECCSSCCS---------SCCCGGGGCSSCCEEECCSCBCTTCCB
T ss_pred             cccCCccEEECcCCc-CCccChh-hhhccCCCcCEEECCCCCCC---------CcChhhhcCCCCCEEECCCCcccccCc
Confidence               267777777776 4466665 44  7777888888887776         346677889999999995      455


Q ss_pred             CC-CCCccc-cccccceeEEEecccc
Q 042164          192 AQ-ILPQEW-VFVELQSYRICIGNKW  215 (235)
Q Consensus       192 ~~-~~p~~~-~~~~L~~l~l~~~~~~  215 (235)
                      +. .+|..+ .+++|+.|+++ ++..
T Consensus       554 l~~~~p~~l~~l~~L~~L~Ls-~N~l  578 (636)
T 4eco_A          554 TLREWPEGITLCPSLTQLQIG-SNDI  578 (636)
T ss_dssp             CCCCCCTTGGGCSSCCEEECC-SSCC
T ss_pred             ccccChHHHhcCCCCCEEECC-CCcC
Confidence            54 788877 89999999995 4444

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

Probab=99.88  E-value=1e-22  Score=171.75  Aligned_cols=209  Identities=14%  Similarity=0.170  Sum_probs=130.2

Q ss_pred             cCCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh----------
Q 042164            6 RKGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS----------   73 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~----------   73 (235)
                      ++++++|++++|.+..+++ .+ .+++|+.|++ +.| .+...++  +..+++|++|++++|.++.++..          
T Consensus        33 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L-s~N-~l~~~~~--l~~l~~L~~L~Ls~N~l~~l~~~~~L~~L~L~~  108 (487)
T 3oja_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNL-SSN-VLYETLD--LESLSTLRTLDLNNNYVQELLVGPSIETLHAAN  108 (487)
T ss_dssp             GGGCCEEECCSSCCCCCCGGGGTTCTTCCEEEC-TTS-CCEEEEE--CTTCTTCCEEECCSSEEEEEEECTTCCEEECCS
T ss_pred             CCCccEEEeeCCcCCCCCHHHHhCCCCCCEEEe-eCC-CCCCCcc--cccCCCCCEEEecCCcCCCCCCCCCcCEEECcC
Confidence            4589999999999998764 34 8999999999 444 4443443  68889999999998887755421          


Q ss_pred             -------hcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCC-cchhhc-cCCCCcEEcccCCcCCCCCchh
Q 042164           74 -------LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ-LPLEIG-QLTRLQLLDLSNCWSLEVIPPN  142 (235)
Q Consensus        74 -------l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~-~~~~~~-~l~~L~~L~l~~~~~~~~~~~~  142 (235)
                             ...+++|++|++++|.+.++  ..++.+++|++|++++|.++. .|..+. .+++|+.|++++|. +..++. 
T Consensus       109 N~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~-l~~~~~-  186 (487)
T 3oja_A          109 NNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF-IYDVKG-  186 (487)
T ss_dssp             SCCCCEEECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSC-CCEEEC-
T ss_pred             CcCCCCCccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCc-cccccc-
Confidence                   01234455555555555544  344555556666666665553 233333 45566666666655 333333 


Q ss_pred             hhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEEecccccccchh
Q 042164          143 VISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKWWSSWSV  221 (235)
Q Consensus       143 ~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~~~~~~~  221 (235)
                       ...+++|+.|++++|.++         ..+..+..+++|+.|++++|.+..+|..+ .+++|+.|++ .++.+. +...
T Consensus       187 -~~~l~~L~~L~Ls~N~l~---------~~~~~~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l-~~N~l~-c~~~  254 (487)
T 3oja_A          187 -QVVFAKLKTLDLSSNKLA---------FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDL-RGNGFH-CGTL  254 (487)
T ss_dssp             -CCCCTTCCEEECCSSCCC---------EECGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEEC-TTCCBC-HHHH
T ss_pred             -cccCCCCCEEECCCCCCC---------CCCHhHcCCCCccEEEecCCcCcccchhhccCCCCCEEEc-CCCCCc-Ccch
Confidence             234556666666666655         23445667788888888888888777776 6678888887 355542 1223


Q ss_pred             hhhhhhhcccc
Q 042164          222 KSGLSRLMKLQ  232 (235)
Q Consensus       222 ~~~~~~l~~L~  232 (235)
                      +.++..+++|+
T Consensus       255 ~~~~~~l~~L~  265 (487)
T 3oja_A          255 RDFFSKNQRVQ  265 (487)
T ss_dssp             HHHHTTCHHHH
T ss_pred             HHHHHhCCCCc
Confidence            35566555544

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

Probab=99.88  E-value=7.2e-23  Score=163.77  Aligned_cols=210  Identities=14%  Similarity=0.185  Sum_probs=139.9

Q ss_pred             cCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh----------
Q 042164            6 RKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS----------   73 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~----------   73 (235)
                      .+++++|++++|.++.+++. + .+++|+.|++  .++.+...++  +..+++|++|++++|.++.++..          
T Consensus        33 ~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L--s~n~l~~~~~--~~~l~~L~~L~Ls~n~l~~l~~~~~L~~L~l~~  108 (317)
T 3o53_A           33 AWNVKELDLSGNPLSQISAADLAPFTKLELLNL--SSNVLYETLD--LESLSTLRTLDLNNNYVQELLVGPSIETLHAAN  108 (317)
T ss_dssp             GGGCSEEECTTSCCCCCCHHHHTTCTTCCEEEC--TTSCCEEEEE--ETTCTTCCEEECCSSEEEEEEECTTCCEEECCS
T ss_pred             CCCCCEEECcCCccCcCCHHHhhCCCcCCEEEC--CCCcCCcchh--hhhcCCCCEEECcCCccccccCCCCcCEEECCC
Confidence            45899999999999877643 3 8999999999  4444444443  67888999999998887654311          


Q ss_pred             -------hcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcc-hhh-ccCCCCcEEcccCCcCCCCCchh
Q 042164           74 -------LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLP-LEI-GQLTRLQLLDLSNCWSLEVIPPN  142 (235)
Q Consensus        74 -------l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~-~~~-~~l~~L~~L~l~~~~~~~~~~~~  142 (235)
                             ...+++|++|++++|.+..+  ..++.+++|++|++++|.++.++ ..+ ..+++|++|++++|. +..++. 
T Consensus       109 n~l~~~~~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~-  186 (317)
T 3o53_A          109 NNISRVSCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF-IYDVKG-  186 (317)
T ss_dssp             SCCSEEEECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSC-CCEEEC-
T ss_pred             CccCCcCccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCc-Cccccc-
Confidence                   11234566666666666655  34555666666666666666432 233 356667777777666 444443 


Q ss_pred             hhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEEecccccccchh
Q 042164          143 VISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKWWSSWSV  221 (235)
Q Consensus       143 ~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~~~~~~~  221 (235)
                       ...+++|++|++++|.++         ..+..+..+++|+.|++++|.++.+|..+ .+++|+.|++ .++.+. ....
T Consensus       187 -~~~l~~L~~L~Ls~N~l~---------~l~~~~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L~~L~l-~~N~~~-~~~~  254 (317)
T 3o53_A          187 -QVVFAKLKTLDLSSNKLA---------FMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDL-RGNGFH-CGTL  254 (317)
T ss_dssp             -CCCCTTCCEEECCSSCCC---------EECGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEEC-TTCCCB-HHHH
T ss_pred             -ccccccCCEEECCCCcCC---------cchhhhcccCcccEEECcCCcccchhhHhhcCCCCCEEEc-cCCCcc-CcCH
Confidence             234666777777777666         23445777888999999999988888877 7788888888 455553 1234


Q ss_pred             hhhhhhhccccC
Q 042164          222 KSGLSRLMKLQG  233 (235)
Q Consensus       222 ~~~~~~l~~L~~  233 (235)
                      +.++.++++|+.
T Consensus       255 ~~~~~~~~~L~~  266 (317)
T 3o53_A          255 RDFFSKNQRVQT  266 (317)
T ss_dssp             HHHHHTCHHHHH
T ss_pred             HHHHhccccceE
Confidence            467777666654

>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=99.88  E-value=8.9e-22  Score=155.49  Aligned_cols=176  Identities=19%  Similarity=0.227  Sum_probs=152.9

Q ss_pred             cccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCc
Q 042164            4 TIRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQ   81 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~   81 (235)
                      ..+++++.|++++|.++.++.. + .+++|+.|++  .++.+..++..  ..+++|++|++++|.++.+|..+..+++|+
T Consensus        28 ~~~~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L--~~n~l~~~~~~--~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~  103 (290)
T 1p9a_G           28 DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNL--DRAELTKLQVD--GTLPVLGTLDLSHNQLQSLPLLGQTLPALT  103 (290)
T ss_dssp             CCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEEC--TTSCCCEEECC--SCCTTCCEEECCSSCCSSCCCCTTTCTTCC
T ss_pred             CCCCCCCEEEcCCCcCCccCHHHhhcCCCCCEEEC--CCCccCcccCC--CCCCcCCEEECCCCcCCcCchhhccCCCCC
Confidence            3457899999999999977543 4 8999999999  55556666653  689999999999999999998889999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      +|++++|.+..+  ..+..+++|++|++++|.++.++.. +..+++|+.|++++|. +..++..++..+++|++|++++|
T Consensus       104 ~L~l~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~l~~L~~L~L~~N  182 (290)
T 1p9a_G          104 VLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN-LTELPAGLLNGLENLDTLLLQEN  182 (290)
T ss_dssp             EEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             EEECCCCcCcccCHHHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCc-CCccCHHHhcCcCCCCEEECCCC
Confidence            999999999987  6789999999999999999988765 7889999999999998 67788877889999999999999


Q ss_pred             cccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          159 FSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      .++         .++..+...++|+.+++++|++.
T Consensus       183 ~l~---------~ip~~~~~~~~L~~l~L~~Np~~  208 (290)
T 1p9a_G          183 SLY---------TIPKGFFGSHLLPFAFLHGNPWL  208 (290)
T ss_dssp             CCC---------CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             cCC---------ccChhhcccccCCeEEeCCCCcc
Confidence            998         34556666789999999999986

>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=99.88  E-value=1.4e-21  Score=155.75  Aligned_cols=177  Identities=22%  Similarity=0.320  Sum_probs=154.1

Q ss_pred             cccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            4 TIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      ..++++++|++++|.+..++....+++|+.|++  .++.+..++.  +..+++|++|++++|.++.++. +..+++|++|
T Consensus        60 ~~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           60 QYLNNLIGLELKDNQITDLAPLKNLTKITELEL--SGNPLKNVSA--IAGLQSIKTLDLTSTQITDVTP-LAGLSNLQVL  134 (308)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGTTCCSCCEEEC--CSCCCSCCGG--GTTCTTCCEEECTTSCCCCCGG-GTTCTTCCEE
T ss_pred             hccCCCCEEEccCCcCCCChhHccCCCCCEEEc--cCCcCCCchh--hcCCCCCCEEECCCCCCCCchh-hcCCCCCCEE
Confidence            346899999999999999888559999999999  4555555653  6899999999999999998875 8999999999


Q ss_pred             eccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccc
Q 042164           84 CLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD  163 (235)
Q Consensus        84 ~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  163 (235)
                      ++++|.+..+..++.+++|++|++++|.++.++. +..+++|++|++++|. +..++.  +..+++|++|++++|.+++.
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~~~  210 (308)
T 1h6u_A          135 YLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDNK-ISDISP--LASLPNLIEVHLKNNQISDV  210 (308)
T ss_dssp             ECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG--GGGCTTCCEEECTTSCCCBC
T ss_pred             ECCCCccCcCccccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCCCc-cCcChh--hcCCCCCCEEEccCCccCcc
Confidence            9999999988669999999999999999998876 8899999999999998 666665  78999999999999999833


Q ss_pred             ccCCCCCccchhcccCCCccceeeecCCCCCCCccc
Q 042164          164 KVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW  199 (235)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~  199 (235)
                                ..+..+++|+.|++++|++...|...
T Consensus       211 ----------~~l~~l~~L~~L~l~~N~i~~~~~~~  236 (308)
T 1h6u_A          211 ----------SPLANTSNLFIVTLTNQTITNQPVFY  236 (308)
T ss_dssp             ----------GGGTTCTTCCEEEEEEEEEECCCEEC
T ss_pred             ----------ccccCCCCCCEEEccCCeeecCCeee
Confidence                      24788999999999999998766543

>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=99.88  E-value=1.9e-22  Score=174.44  Aligned_cols=197  Identities=19%  Similarity=0.160  Sum_probs=94.4

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC---ChhhcCCccCcEE
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL---PSSLGRLINLQTL   83 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~---~~~l~~l~~L~~L   83 (235)
                      +++++|++++|.+..+|.. .+++|+.|++ ..+......+   +..+++|++|++++|.++.+   +..+..+++|++|
T Consensus       307 ~~L~~L~l~~n~l~~lp~~-~l~~L~~L~l-~~n~~~~~~~---~~~l~~L~~L~ls~n~l~~~~~~~~~~~~~~~L~~L  381 (606)
T 3vq2_A          307 FKWQSLSIIRCQLKQFPTL-DLPFLKSLTL-TMNKGSISFK---KVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHL  381 (606)
T ss_dssp             CCCSEEEEESCCCSSCCCC-CCSSCCEEEE-ESCSSCEECC---CCCCTTCCEEECCSSCEEEEEECCHHHHCCSCCCEE
T ss_pred             ccCCEEEcccccCcccccC-CCCccceeec-cCCcCccchh---hccCCCCCEEECcCCccCCCcchhhhhccCCcccEe
Confidence            4566666666666666643 5555555555 3332322221   24455555555555555432   4445555555555


Q ss_pred             eccCcCCCCc-cccCCCCCCcEEEecCCCCCCcch--hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccc
Q 042164           84 CLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPL--EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFS  160 (235)
Q Consensus        84 ~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~  160 (235)
                      ++++|.+..+ ..++.+++|++|++++|.+...+.  .+..+++|++|++++|.+.+..+.. ++.+++|++|++++|.+
T Consensus       382 ~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~-~~~l~~L~~L~l~~n~l  460 (606)
T 3vq2_A          382 DLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGI-FLGLTSLNTLKMAGNSF  460 (606)
T ss_dssp             ECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTT-TTTCTTCCEEECTTCEE
T ss_pred             ECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchhh-hcCCCCCCEEECCCCcC
Confidence            5555554444 444455555555555555443322  3445555555555555432222222 44455555555555544


Q ss_pred             cccccCC-----------------CCCccchhcccCCCccceeeecCCCCCC-Cccc-cccccceeEE
Q 042164          161 QWDKVEG-----------------GSNASLAELKGLSKLTTLNIQVPDAQIL-PQEW-VFVELQSYRI  209 (235)
Q Consensus       161 ~~~~~~~-----------------~~~~~~~~~~~~~~L~~L~l~~n~~~~~-p~~~-~~~~L~~l~l  209 (235)
                      ++...+.                 .....+..+..+++|+.|++++|.+..+ |..+ .+++|+.|++
T Consensus       461 ~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l  528 (606)
T 3vq2_A          461 KDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDC  528 (606)
T ss_dssp             GGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEEC
T ss_pred             CCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEEC
Confidence            4210000                 0001233445555555566655555543 3333 4555555555

>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=99.88  E-value=2.2e-21  Score=162.93  Aligned_cols=186  Identities=20%  Similarity=0.225  Sum_probs=119.2

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .+++|++|++++|.+..++....+++|+.|++ . ++.+...++  +..+++|++|++++|.++.++ .+..+++|++|+
T Consensus       175 ~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          175 NLTTLERLDISSNKVSDISVLAKLTNLESLIA-T-NNQISDITP--LGILTNLDELSLNGNQLKDIG-TLASLTNLTDLD  249 (466)
T ss_dssp             TCTTCCEEECCSSCCCCCGGGGGCTTCSEEEC-C-SSCCCCCGG--GGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEE
T ss_pred             cCCCCCEEECcCCcCCCChhhccCCCCCEEEe-c-CCccccccc--ccccCCCCEEECCCCCcccch-hhhcCCCCCEEE
Confidence            34677788888887777665557777888887 3 333333333  456777777777777776654 466777777777


Q ss_pred             ccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           85 LDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        85 l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      +++|.+.++..+..+++|++|++++|.++.++. +..+++|+.|++++|. +..+++  +..+++|++|++++|.+++. 
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 LANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTALTNLELNENQ-LEDISP--ISNLKNLTYLTLYFNNISDI-  324 (466)
T ss_dssp             CCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSC-CSCCGG--GGGCTTCSEEECCSSCCSCC-
T ss_pred             CCCCccccchhhhcCCCCCEEECCCCccCcccc-ccCCCccCeEEcCCCc-ccCchh--hcCCCCCCEEECcCCcCCCc-
Confidence            777777766446677777777777777766554 5667777777777776 444443  56667777777777766622 


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEE
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                               ..+..+++|+.|++++|.+..++....+++|+.|++
T Consensus       325 ---------~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l  360 (466)
T 1o6v_A          325 ---------SPVSSLTKLQRLFFYNNKVSDVSSLANLTNINWLSA  360 (466)
T ss_dssp             ---------GGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEEC
T ss_pred             ---------hhhccCccCCEeECCCCccCCchhhccCCCCCEEeC
Confidence                     114455666666666666655543225556666665

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

Probab=99.88  E-value=2e-21  Score=170.07  Aligned_cols=202  Identities=22%  Similarity=0.253  Sum_probs=110.8

Q ss_pred             cCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCC---------------------------CCcccchhhhhCCCC
Q 042164            6 RKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGN---------------------------GPMQISDHFFEGTEE   56 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~---------------------------~~~~~~~~~~~~~~~   56 (235)
                      ++++++|++++|.+..+++..  .+++|+.|++ +.+.                           .+..++...|..+++
T Consensus       328 l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L-s~n~~~~~~l~~~~f~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~  406 (680)
T 1ziw_A          328 LKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSL-SNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGH  406 (680)
T ss_dssp             CTTCCEEECCSCCBCCCCTTTTTTCTTCCEEEC-TTCBSCCCEECTTTTGGGTTSCCCEEECTTSCCCEECTTTTTTCTT
T ss_pred             CCCCCEEECCCCccCCCChhHhccccCCcEEEC-CCCchhhhhcchhhhcccccCcCceEECCCCCCCeEChhhhhCCCC
Confidence            467778888888777665432  6677777776 3321                           112222233455666


Q ss_pred             CcEEeecCccCCC-CC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCC---CcchhhccCCCCcEEc
Q 042164           57 LKVLDFTGIHFSS-LP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK---QLPLEIGQLTRLQLLD  129 (235)
Q Consensus        57 L~~L~l~~~~~~~-~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~---~~~~~~~~l~~L~~L~  129 (235)
                      |++|++++|.++. +| ..+..+++|+++++++|.+..+  ..+..+++|++|++++|.+.   .+|..+..+++|+.|+
T Consensus       407 L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~p~~~~~l~~L~~L~  486 (680)
T 1ziw_A          407 LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILD  486 (680)
T ss_dssp             CCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTCSSCTTTTCTTCCEEE
T ss_pred             CCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhccccccccccCCcccccCCCCCEEE
Confidence            6666666666653 43 4456666666666666665543  44555566666666665553   3455566677777777


Q ss_pred             ccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--ccccccee
Q 042164          130 LSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSY  207 (235)
Q Consensus       130 l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l  207 (235)
                      +++|. +..+++..+..+++|++|++++|.+++.............++.+++|+.|++++|.+..+|...  .+++|+.|
T Consensus       487 Ls~N~-l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L  565 (680)
T 1ziw_A          487 LSNNN-IANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKII  565 (680)
T ss_dssp             CCSSC-CCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCC-CCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCCEEECCCCCCCCCCHHHcccccCccee
Confidence            77776 4455555566777777777777766543111000001112344445555555555554444432  44444444


Q ss_pred             EE
Q 042164          208 RI  209 (235)
Q Consensus       208 ~l  209 (235)
                      ++
T Consensus       566 ~L  567 (680)
T 1ziw_A          566 DL  567 (680)
T ss_dssp             EC
T ss_pred             EC
Confidence            44

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

Probab=99.88  E-value=1e-22  Score=162.93  Aligned_cols=197  Identities=15%  Similarity=0.064  Sum_probs=150.5

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccch----------------hhhhCCCCCcEEeecCccCC
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISD----------------HFFEGTEELKVLDFTGIHFS   68 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~----------------~~~~~~~~L~~L~l~~~~~~   68 (235)
                      .+++|++|++++|.+..+++...+++|+.|++ +. +.+..++.                -....+++|++|++++|.++
T Consensus        56 ~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~L-s~-n~l~~l~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~N~l~  133 (317)
T 3o53_A           56 PFTKLELLNLSSNVLYETLDLESLSTLRTLDL-NN-NYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLANNKIT  133 (317)
T ss_dssp             TCTTCCEEECTTSCCEEEEEETTCTTCCEEEC-CS-SEEEEEEECTTCCEEECCSSCCSEEEECCCSSCEEEECCSSCCC
T ss_pred             CCCcCCEEECCCCcCCcchhhhhcCCCCEEEC-cC-CccccccCCCCcCEEECCCCccCCcCccccCCCCEEECCCCCCC
Confidence            35677888888887765555446777777777 33 33222210                00134678899999999998


Q ss_pred             CCC-hhhcCCccCcEEeccCcCCCCc--ccc-CCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhh
Q 042164           69 SLP-SSLGRLINLQTLCLDWCQLEDV--AAI-GQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVI  144 (235)
Q Consensus        69 ~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~-~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l  144 (235)
                      .++ ..+..+++|++|++++|.+..+  ..+ ..+++|++|++++|.++.++.. ..+++|++|++++|. +..+++. +
T Consensus       134 ~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~l~~L~~L~Ls~N~-l~~l~~~-~  210 (317)
T 3o53_A          134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQ-VVFAKLKTLDLSSNK-LAFMGPE-F  210 (317)
T ss_dssp             SGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEECC-CCCTTCCEEECCSSC-CCEECGG-G
T ss_pred             CccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCcccccc-cccccCCEEECCCCc-CCcchhh-h
Confidence            864 4678899999999999999976  444 4789999999999999977543 358999999999998 6677777 8


Q ss_pred             cCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC--CCCccc-cccccceeEEEecccc
Q 042164          145 SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ--ILPQEW-VFVELQSYRICIGNKW  215 (235)
Q Consensus       145 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~--~~p~~~-~~~~L~~l~l~~~~~~  215 (235)
                      ..+++|++|++++|.++         .++..+..+++|+.|++++|++.  .+|.++ .+++|+.+++..++.+
T Consensus       211 ~~l~~L~~L~L~~N~l~---------~l~~~~~~l~~L~~L~l~~N~~~~~~~~~~~~~~~~L~~l~l~~~~~l  275 (317)
T 3o53_A          211 QSAAGVTWISLRNNKLV---------LIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKL  275 (317)
T ss_dssp             GGGTTCSEEECTTSCCC---------EECTTCCCCTTCCEEECTTCCCBHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cccCcccEEECcCCccc---------chhhHhhcCCCCCEEEccCCCccCcCHHHHHhccccceEEECCCchhc
Confidence            89999999999999998         34566788999999999999998  555555 7888888887534333

>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=99.88  E-value=1.7e-21  Score=153.91  Aligned_cols=173  Identities=24%  Similarity=0.340  Sum_probs=138.1

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      +++++.|++++|.+..++....+++|+.|++  ..+.+..++.  +..+++|++|++++|.++.++. +..+++|++|++
T Consensus        45 l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L--~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L  119 (291)
T 1h6t_A           45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFL--NGNKLTDIKP--LANLKNLGWLFLDENKVKDLSS-LKDLKKLKSLSL  119 (291)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEEC--CSSCCCCCGG--GTTCTTCCEEECCSSCCCCGGG-GTTCTTCCEEEC
T ss_pred             cCcccEEEccCCCcccChhHhcCCCCCEEEc--cCCccCCCcc--cccCCCCCEEECCCCcCCCChh-hccCCCCCEEEC
Confidence            5678889999988888876558888999998  4445555555  5788889999999888887654 788889999999


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      ++|.+.++..+..+++|++|++++|.++.+ ..+..+++|++|++++|. +..+++  +..+++|++|++++|.++.   
T Consensus       120 ~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~-l~~~~~--l~~l~~L~~L~L~~N~i~~---  192 (291)
T 1h6t_A          120 EHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHISD---  192 (291)
T ss_dssp             TTSCCCCCGGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCB---
T ss_pred             CCCcCCCChhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCc-cccchh--hcCCCccCEEECCCCcCCC---
Confidence            999888887788888899999999888877 467888889999999887 555554  7888889999999888872   


Q ss_pred             CCCCCccchhcccCCCccceeeecCCCCCCCc
Q 042164          166 EGGSNASLAELKGLSKLTTLNIQVPDAQILPQ  197 (235)
Q Consensus       166 ~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~  197 (235)
                             ...+..+++|+.|++++|.+...|.
T Consensus       193 -------l~~l~~l~~L~~L~l~~n~i~~~~~  217 (291)
T 1h6t_A          193 -------LRALAGLKNLDVLELFSQECLNKPI  217 (291)
T ss_dssp             -------CGGGTTCTTCSEEEEEEEEEECCCE
T ss_pred             -------ChhhccCCCCCEEECcCCcccCCcc
Confidence                   2347788889999999888765554

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.87  E-value=2.7e-21  Score=162.35  Aligned_cols=195  Identities=21%  Similarity=0.266  Sum_probs=87.4

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      ++++++|++++|.++.+++...+++|+.|++  .++.+..++.  +..+++|++|++++|.++.+++ +..+++|++|++
T Consensus        67 l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~l--~~n~l~~~~~--~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~l  141 (466)
T 1o6v_A           67 LNNLTQINFSNNQLTDITPLKNLTKLVDILM--NNNQIADITP--LANLTNLTGLTLFNNQITDIDP-LKNLTNLNRLEL  141 (466)
T ss_dssp             CTTCCEEECCSSCCCCCGGGTTCTTCCEEEC--CSSCCCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEE
T ss_pred             hcCCCEEECCCCccCCchhhhccccCCEEEC--CCCccccChh--hcCCCCCCEEECCCCCCCCChH-HcCCCCCCEEEC
Confidence            4455555555555555544335555555555  2233333333  3455555555555555555443 455555555555


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      ++|.+..+..++.+++|++|+++ +.+..++ .+..+++|++|++++|. ...++.  +..+++|++|++++|.+.+...
T Consensus       142 ~~n~l~~~~~~~~l~~L~~L~l~-~~~~~~~-~~~~l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~l~~n~l~~~~~  216 (466)
T 1o6v_A          142 SSNTISDISALSGLTSLQQLSFG-NQVTDLK-PLANLTTLERLDISSNK-VSDISV--LAKLTNLESLIATNNQISDITP  216 (466)
T ss_dssp             EEEEECCCGGGTTCTTCSEEEEE-ESCCCCG-GGTTCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECCSSCCCCCGG
T ss_pred             CCCccCCChhhccCCcccEeecC-CcccCch-hhccCCCCCEEECcCCc-CCCChh--hccCCCCCEEEecCCccccccc
Confidence            55554433222222222222221 1111111 13344444445554444 222321  3444444444444444432200


Q ss_pred             CC------------CCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEE
Q 042164          166 EG------------GSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRIC  210 (235)
Q Consensus       166 ~~------------~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~  210 (235)
                      -+            ........+..+++|+.|++++|.+..++....+++|+.|+++
T Consensus       217 ~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~  273 (466)
T 1o6v_A          217 LGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLG  273 (466)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECC
T ss_pred             ccccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchhhhcCCCCCEEECC
Confidence            00            0000123455566666666666666655553366666666663

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

Probab=99.87  E-value=2e-21  Score=170.17  Aligned_cols=198  Identities=18%  Similarity=0.245  Sum_probs=103.9

Q ss_pred             CCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEE
Q 042164            7 KGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTL   83 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L   83 (235)
                      ++++.|++++|.+..+++ .+ .+++|+.|++ +.+.....++...|..+++|++|++++|.+..+ +..+..+++|++|
T Consensus       381 ~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L-~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L  459 (680)
T 1ziw_A          381 SPLHILNLTKNKISKIESDAFSWLGHLEVLDL-GLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRL  459 (680)
T ss_dssp             SCCCEEECTTSCCCEECTTTTTTCTTCCEEEC-CSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEE
T ss_pred             CcCceEECCCCCCCeEChhhhhCCCCCCEEeC-CCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccc
Confidence            356677777777765533 33 7888888888 555444456555567777777777777766543 2334445555555


Q ss_pred             eccCcCCCCc----cccCCCCCCcEEEecCCCCCCcchh-hccC--------------------------------CCCc
Q 042164           84 CLDWCQLEDV----AAIGQLKKLEILSFRGSNIKQLPLE-IGQL--------------------------------TRLQ  126 (235)
Q Consensus        84 ~l~~~~l~~~----~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l--------------------------------~~L~  126 (235)
                      ++++|.+..+    ..++.+++|++|++++|.++.++.. +..+                                ++|+
T Consensus       460 ~l~~n~l~~~~~~p~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~~~~~l~~L~  539 (680)
T 1ziw_A          460 MLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLH  539 (680)
T ss_dssp             ECTTSCCBCTTCSSCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTSTTSCCCTTTTCTTCC
T ss_pred             hhccccccccccCCcccccCCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhccCCcchhhcCCCCCC
Confidence            5555444311    3344444455555555444433322 4444                                4455


Q ss_pred             EEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc---cccc
Q 042164          127 LLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW---VFVE  203 (235)
Q Consensus       127 ~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~---~~~~  203 (235)
                      .|++++|. +..+|...+..+++|++|++++|.++..        ....+..+++|+.|++++|.++.++...   .+++
T Consensus       540 ~L~L~~N~-l~~i~~~~~~~l~~L~~L~Ls~N~l~~l--------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~  610 (680)
T 1ziw_A          540 ILNLESNG-FDEIPVEVFKDLFELKIIDLGLNNLNTL--------PASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRN  610 (680)
T ss_dssp             EEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCC--------CTTTTTTCTTCCEEECTTSCCCBCCHHHHHHHHTT
T ss_pred             EEECCCCC-CCCCCHHHcccccCcceeECCCCCCCcC--------CHhHhCCCCCCCEEECCCCcCCccChhHhcccccc
Confidence            55555544 3344443344555555555555554422        1223444555555555555555544432   3455


Q ss_pred             cceeEEEecccc
Q 042164          204 LQSYRICIGNKW  215 (235)
Q Consensus       204 L~~l~l~~~~~~  215 (235)
                      |+.+++ .+|.|
T Consensus       611 L~~l~l-~~N~~  621 (680)
T 1ziw_A          611 LTELDM-RFNPF  621 (680)
T ss_dssp             CSEEEC-TTCCC
T ss_pred             cCEEEc-cCCCc
Confidence            555555 34443

>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=99.87  E-value=5.5e-22  Score=156.76  Aligned_cols=184  Identities=20%  Similarity=0.254  Sum_probs=154.7

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcC
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQ   89 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~   89 (235)
                      ..+.+....+..+.....+++|+.|++  .++.+..++.  +..+++|++|++++|.++.+++ +..+++|++|++++|.
T Consensus        27 ~~~~l~~~~~~~~~~~~~l~~L~~L~l--~~~~i~~~~~--~~~l~~L~~L~L~~n~l~~~~~-l~~l~~L~~L~l~~n~  101 (291)
T 1h6t_A           27 IKDNLKKKSVTDAVTQNELNSIDQIIA--NNSDIKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENK  101 (291)
T ss_dssp             HHHHTTCSCTTSEECHHHHHTCCEEEC--TTSCCCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC
T ss_pred             HHHHhcCCCcccccchhhcCcccEEEc--cCCCcccChh--HhcCCCCCEEEccCCccCCCcc-cccCCCCCEEECCCCc
Confidence            344555666655544447899999999  5556666654  6889999999999999999877 8999999999999999


Q ss_pred             CCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCC
Q 042164           90 LEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGS  169 (235)
Q Consensus        90 l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~  169 (235)
                      +..++.++.+++|++|++++|.++.++ .+..+++|++|++++|. +..++ . +..+++|++|++++|.+++.      
T Consensus       102 l~~~~~l~~l~~L~~L~L~~n~i~~~~-~l~~l~~L~~L~l~~n~-l~~~~-~-l~~l~~L~~L~L~~N~l~~~------  171 (291)
T 1h6t_A          102 VKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDIT-V-LSRLTKLDTLSLEDNQISDI------  171 (291)
T ss_dssp             CCCGGGGTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCG-G-GGGCTTCSEEECCSSCCCCC------
T ss_pred             CCCChhhccCCCCCEEECCCCcCCCCh-hhcCCCCCCEEEccCCc-CCcch-h-hccCCCCCEEEccCCccccc------
Confidence            999988999999999999999999874 57889999999999998 55563 3 89999999999999999833      


Q ss_pred             CccchhcccCCCccceeeecCCCCCCCccccccccceeEEEec
Q 042164          170 NASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIG  212 (235)
Q Consensus       170 ~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~  212 (235)
                         . .+..+++|+.|++++|.++.++....+++|+.|++..+
T Consensus       172 ---~-~l~~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          172 ---V-PLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQ  210 (291)
T ss_dssp             ---G-GGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEEEE
T ss_pred             ---h-hhcCCCccCEEECCCCcCCCChhhccCCCCCEEECcCC
Confidence               2 28889999999999999999886448999999999643

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

Probab=99.87  E-value=2.9e-21  Score=161.68  Aligned_cols=193  Identities=15%  Similarity=0.134  Sum_probs=137.1

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      ++++++|++++|.++.+|....+++|+.|++  .++.+..++   ++.+++|++|++++|.++.++  +..+++|++|++
T Consensus        41 l~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~L--s~n~l~~~~---~~~l~~L~~L~Ls~N~l~~~~--~~~l~~L~~L~L  113 (457)
T 3bz5_A           41 LATLTSLDCHNSSITDMTGIEKLTGLTKLIC--TSNNITTLD---LSQNTNLTYLACDSNKLTNLD--VTPLTKLTYLNC  113 (457)
T ss_dssp             HTTCCEEECCSSCCCCCTTGGGCTTCSEEEC--CSSCCSCCC---CTTCTTCSEEECCSSCCSCCC--CTTCTTCCEEEC
T ss_pred             cCCCCEEEccCCCcccChhhcccCCCCEEEc--cCCcCCeEc---cccCCCCCEEECcCCCCceee--cCCCCcCCEEEC
Confidence            5788899999998888875448889999998  444454454   578888889999888888775  778888888888


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      ++|.+.+++ ++.+++|++|++++|.++.++  ++.+++|++|++++|...+.++   ++.+++|++|++++|.+++...
T Consensus       114 ~~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~---~~~l~~L~~L~ls~n~l~~l~l  187 (457)
T 3bz5_A          114 DTNKLTKLD-VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD---VTPQTQLTTLDCSFNKITELDV  187 (457)
T ss_dssp             CSSCCSCCC-CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC---CTTCTTCCEEECCSSCCCCCCC
T ss_pred             CCCcCCeec-CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc---cccCCcCCEEECCCCccceecc
Confidence            888888764 778888888888888887664  5667777777777775455552   4566666666666666654321


Q ss_pred             CC------------CCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEecccc
Q 042164          166 EG------------GSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKW  215 (235)
Q Consensus       166 ~~------------~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~~  215 (235)
                      ..            .... . .++.+++|+.|++++|.++.+| ...+++|+.|+++ ++.+
T Consensus       188 ~~l~~L~~L~l~~N~l~~-~-~l~~l~~L~~L~Ls~N~l~~ip-~~~l~~L~~L~l~-~N~l  245 (457)
T 3bz5_A          188 SQNKLLNRLNCDTNNITK-L-DLNQNIQLTFLDCSSNKLTEID-VTPLTQLTYFDCS-VNPL  245 (457)
T ss_dssp             TTCTTCCEEECCSSCCSC-C-CCTTCTTCSEEECCSSCCSCCC-CTTCTTCSEEECC-SSCC
T ss_pred             ccCCCCCEEECcCCcCCe-e-ccccCCCCCEEECcCCcccccC-ccccCCCCEEEee-CCcC
Confidence            11            0001 1 3566788888888888888777 2377888888884 4444

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

Probab=99.87  E-value=7.3e-22  Score=157.57  Aligned_cols=212  Identities=17%  Similarity=0.189  Sum_probs=168.8

Q ss_pred             CCcEEecCCCCCC--CCCCcC--------CCCCccEEEeccCCCCCcccchhhh-hCCCCCcEEeecCccCCCCChhhcC
Q 042164            8 GPIAISLPQRDIQ--ELPERL--------QCPNLQLFLLFREGNGPMQISDHFF-EGTEELKVLDFTGIHFSSLPSSLGR   76 (235)
Q Consensus         8 ~l~~L~l~~~~l~--~i~~~~--------~l~~L~~L~l~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~~~~~l~~   76 (235)
                      .++.|++++|.+.  .+|...        .+++|+.|++ +.+.....+|..+| ..+++|++|++++|.++.+|..+..
T Consensus        64 ~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~l~~L~~L~L-~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~  142 (312)
T 1wwl_A           64 IIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTL-ENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAE  142 (312)
T ss_dssp             HHHHCCCCEEEEEEEECBHHHHHHHHHHHTTSCCCEEEE-EEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHH
T ss_pred             HHhhcccccccccCCCcCHHHHHHHHHhcCcCCccEEEc-cCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHH
Confidence            3778899999885  455543        4999999999 66665556777644 7899999999999999988877777


Q ss_pred             C-----ccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCC---cchhh--ccCCCCcEEcccCCcCCC---CCch
Q 042164           77 L-----INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ---LPLEI--GQLTRLQLLDLSNCWSLE---VIPP  141 (235)
Q Consensus        77 l-----~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~---~~~~~--~~l~~L~~L~l~~~~~~~---~~~~  141 (235)
                      +     ++|++|++++|.+.++  ..++.+++|++|++++|.+..   ++..+  ..+++|++|++++|. +.   .++.
T Consensus       143 l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~  221 (312)
T 1wwl_A          143 LQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVCS  221 (312)
T ss_dssp             HHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHHH
T ss_pred             HHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHHH
Confidence            6     9999999999999977  689999999999999999763   34444  789999999999998 44   3444


Q ss_pred             hhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEecccccccchh
Q 042164          142 NVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSV  221 (235)
Q Consensus       142 ~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~~~~~~~~  221 (235)
                      ..+..+++|++|++++|.+++.       .....+..+++|+.|++++|.++.+|..+. ++|+.|+++ ++...+. + 
T Consensus       222 ~~~~~l~~L~~L~Ls~N~l~~~-------~~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~-~~L~~L~Ls-~N~l~~~-p-  290 (312)
T 1wwl_A          222 ALAAARVQLQGLDLSHNSLRDA-------AGAPSCDWPSQLNSLNLSFTGLKQVPKGLP-AKLSVLDLS-YNRLDRN-P-  290 (312)
T ss_dssp             HHHHTTCCCSEEECTTSCCCSS-------CCCSCCCCCTTCCEEECTTSCCSSCCSSCC-SEEEEEECC-SSCCCSC-C-
T ss_pred             HHHhcCCCCCEEECCCCcCCcc-------cchhhhhhcCCCCEEECCCCccChhhhhcc-CCceEEECC-CCCCCCC-h-
Confidence            5567889999999999999844       112455567999999999999999998766 899999995 5555322 2 


Q ss_pred             hhhhhhhccccCC
Q 042164          222 KSGLSRLMKLQGL  234 (235)
Q Consensus       222 ~~~~~~l~~L~~L  234 (235)
                       . +..+++|+.|
T Consensus       291 -~-~~~l~~L~~L  301 (312)
T 1wwl_A          291 -S-PDELPQVGNL  301 (312)
T ss_dssp             -C-TTTSCEEEEE
T ss_pred             -h-HhhCCCCCEE
Confidence             3 6777777655

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

Probab=99.87  E-value=2.2e-22  Score=169.82  Aligned_cols=191  Identities=15%  Similarity=0.067  Sum_probs=148.7

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchh----------------hhhCCCCCcEEeecCccCC
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDH----------------FFEGTEELKVLDFTGIHFS   68 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~----------------~~~~~~~L~~L~l~~~~~~   68 (235)
                      .+++|+.|++++|.+..+++...+++|+.|++  .++.+..++..                ....+++|+.|++++|.++
T Consensus        56 ~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~L--s~N~l~~l~~~~~L~~L~L~~N~l~~~~~~~l~~L~~L~L~~N~l~  133 (487)
T 3oja_A           56 PFTKLELLNLSSNVLYETLDLESLSTLRTLDL--NNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKKNIYLANNKIT  133 (487)
T ss_dssp             TCTTCCEEECTTSCCEEEEECTTCTTCCEEEC--CSSEEEEEEECTTCCEEECCSSCCCCEEECCCSSCEEEECCSSCCC
T ss_pred             CCCCCCEEEeeCCCCCCCcccccCCCCCEEEe--cCCcCCCCCCCCCcCEEECcCCcCCCCCccccCCCCEEECCCCCCC
Confidence            45788888888888876555447778888777  33333322210                0134678899999999998


Q ss_pred             CC-ChhhcCCccCcEEeccCcCCCCc--cccC-CCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhh
Q 042164           69 SL-PSSLGRLINLQTLCLDWCQLEDV--AAIG-QLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVI  144 (235)
Q Consensus        69 ~~-~~~l~~l~~L~~L~l~~~~l~~~--~~~~-~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l  144 (235)
                      .+ |..+..+++|++|++++|.+.++  ..+. .+++|++|++++|.++.++. ...+++|+.|++++|. +..+++. +
T Consensus       134 ~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~~~~-~~~l~~L~~L~Ls~N~-l~~~~~~-~  210 (487)
T 3oja_A          134 MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKG-QVVFAKLKTLDLSSNK-LAFMGPE-F  210 (487)
T ss_dssp             SGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEEC-CCCCTTCCEEECCSSC-CCEECGG-G
T ss_pred             CCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCccccccc-cccCCCCCEEECCCCC-CCCCCHh-H
Confidence            75 55788899999999999999975  5554 78999999999999997754 3468999999999998 6667776 8


Q ss_pred             cCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC--CCCccc-cccccceeEE
Q 042164          145 SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ--ILPQEW-VFVELQSYRI  209 (235)
Q Consensus       145 ~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~--~~p~~~-~~~~L~~l~l  209 (235)
                      ..+++|+.|++++|.+++         ++..+..+++|+.|++++|++.  .+|.++ .++.++.+++
T Consensus       211 ~~l~~L~~L~Ls~N~l~~---------lp~~l~~l~~L~~L~l~~N~l~c~~~~~~~~~l~~L~~l~~  269 (487)
T 3oja_A          211 QSAAGVTWISLRNNKLVL---------IEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAK  269 (487)
T ss_dssp             GGGTTCSEEECTTSCCCE---------ECTTCCCCTTCCEEECTTCCBCHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCCCccEEEecCCcCcc---------cchhhccCCCCCEEEcCCCCCcCcchHHHHHhCCCCcEEec
Confidence            899999999999999983         4556788899999999999998  666655 6677776665

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

Probab=99.87  E-value=9e-22  Score=175.28  Aligned_cols=201  Identities=17%  Similarity=0.202  Sum_probs=135.8

Q ss_pred             ccCCCcEEecCCCCCCC------------------CCCcC---CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeec
Q 042164            5 IRKGPIAISLPQRDIQE------------------LPERL---QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFT   63 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~------------------i~~~~---~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~   63 (235)
                      .+++|+.|++++|.++.                  +|+.+   .+++|+.|++ +.|...+.+|.. |..+++|+.|+++
T Consensus       446 ~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~L-s~N~l~~~iP~~-l~~L~~L~~L~Ls  523 (876)
T 4ecn_A          446 RLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVEL-YNCPNMTQLPDF-LYDLPELQSLNIA  523 (876)
T ss_dssp             GCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEE-ESCTTCCSCCGG-GGGCSSCCEEECT
T ss_pred             cCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEEC-cCCCCCccChHH-HhCCCCCCEEECc
Confidence            45678888888888876                  77765   4788888888 666666667755 4777888888888


Q ss_pred             Ccc-CCC--CChhhcCCc-------cCcEEeccCcCCCCc-c--ccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcc
Q 042164           64 GIH-FSS--LPSSLGRLI-------NLQTLCLDWCQLEDV-A--AIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL  130 (235)
Q Consensus        64 ~~~-~~~--~~~~l~~l~-------~L~~L~l~~~~l~~~-~--~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l  130 (235)
                      +|. ++.  +|..+..++       +|++|++++|.+..+ .  .++.+++|++|++++|.++.+| .++.+++|+.|++
T Consensus       524 ~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp-~~~~L~~L~~L~L  602 (876)
T 4ecn_A          524 CNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLE-AFGTNVKLTDLKL  602 (876)
T ss_dssp             TCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCC-CCCTTSEESEEEC
T ss_pred             CCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccch-hhcCCCcceEEEC
Confidence            776 664  665555444       777777777777766 3  5777777777777777777776 6777777777777


Q ss_pred             cCCcCCCCCchhhhcCCCC-CcEEEeccccccccccC--------------------CCCCccchhcc--cCCCccceee
Q 042164          131 SNCWSLEVIPPNVISKLSR-LEELYMDISFSQWDKVE--------------------GGSNASLAELK--GLSKLTTLNI  187 (235)
Q Consensus       131 ~~~~~~~~~~~~~l~~~~~-L~~L~l~~n~~~~~~~~--------------------~~~~~~~~~~~--~~~~L~~L~l  187 (235)
                      ++|. +..+|.. +..+++ |++|++++|.++.....                    +..+.....+.  ..++|+.|++
T Consensus       603 s~N~-l~~lp~~-l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~g~ip~l~~~l~~~~~~~L~~L~L  680 (876)
T 4ecn_A          603 DYNQ-IEEIPED-FCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTL  680 (876)
T ss_dssp             CSSC-CSCCCTT-SCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTTTTSSSCSSCTTTCCCCCEEEEEC
T ss_pred             cCCc-cccchHH-HhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCCCccccchhhhccccCCCcCEEEc
Confidence            7777 4466665 666776 77777777776633100                    00001111111  2347788888


Q ss_pred             ecCCCCCCCccc--cccccceeEEE
Q 042164          188 QVPDAQILPQEW--VFVELQSYRIC  210 (235)
Q Consensus       188 ~~n~~~~~p~~~--~~~~L~~l~l~  210 (235)
                      ++|.+..+|..+  .+++|+.|+++
T Consensus       681 s~N~L~~lp~~~~~~l~~L~~L~Ls  705 (876)
T 4ecn_A          681 SYNEIQKFPTELFATGSPISTIILS  705 (876)
T ss_dssp             CSSCCCSCCHHHHHTTCCCSEEECC
T ss_pred             cCCcCCccCHHHHccCCCCCEEECC
Confidence            888888777766  56788888884

>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=99.87  E-value=2.3e-21  Score=164.79  Aligned_cols=122  Identities=16%  Similarity=0.279  Sum_probs=66.6

Q ss_pred             CCCcEEecCCCCCCCCCC-cC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            7 KGPIAISLPQRDIQELPE-RL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~-~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      +++++|++++|.+..+++ .+ .+++|++|++  .++.+..+++..|..+++|++|++++|.++.+|..  .+++|++|+
T Consensus        21 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L--s~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~   96 (520)
T 2z7x_B           21 QKTTILNISQNYISELWTSDILSLSKLRILII--SHNRIQYLDISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKHLD   96 (520)
T ss_dssp             TTCSEEECCSSCCCCCCHHHHTTCTTCCEEEC--CSSCCCEEEGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSEEE
T ss_pred             ccccEEECCCCcccccChhhccccccccEEec--CCCccCCcChHHhhcccCCCEEecCCCceeecCcc--ccCCccEEe
Confidence            556666666666665543 22 5666666666  33333334333346666666666666666655544  566666666


Q ss_pred             ccCcCCCCc---cccCCCCCCcEEEecCCCCCCcchhhccCCCC--cEEcccCCc
Q 042164           85 LDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRL--QLLDLSNCW  134 (235)
Q Consensus        85 l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L--~~L~l~~~~  134 (235)
                      +++|.+.++   ..++.+++|++|++++|.++.  ..+..+++|  ++|++++|.
T Consensus        97 L~~N~l~~~~~p~~~~~l~~L~~L~L~~n~l~~--~~~~~l~~L~L~~L~l~~n~  149 (520)
T 2z7x_B           97 LSFNAFDALPICKEFGNMSQLKFLGLSTTHLEK--SSVLPIAHLNISKVLLVLGE  149 (520)
T ss_dssp             CCSSCCSSCCCCGGGGGCTTCCEEEEEESSCCG--GGGGGGTTSCEEEEEEEECT
T ss_pred             ccCCccccccchhhhccCCcceEEEecCcccch--hhccccccceeeEEEeeccc
Confidence            666665542   455666666666666665543  123333344  444444443

>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=99.87  E-value=2.5e-21  Score=167.38  Aligned_cols=191  Identities=17%  Similarity=0.235  Sum_probs=142.2

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEeccC
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDW   87 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~   87 (235)
                      -+.++++++.++.+|..+ .++++.|++  .++.+..++...|..+++|++|++++|.++.+ |..|..+++|++|++++
T Consensus        13 ~~~~~c~~~~l~~ip~~~-~~~l~~L~L--s~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~   89 (606)
T 3vq2_A           13 NITYQCMDQKLSKVPDDI-PSSTKNIDL--SFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTG   89 (606)
T ss_dssp             TTEEECTTSCCSSCCTTS-CTTCCEEEC--TTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTT
T ss_pred             CCceEccCCCcccCCCCC-CCCcCEEEC--CCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCC
Confidence            357888888888888766 478888888  55555666665578888888888888888875 55678888888888888


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCCCcc-hhhccCCCCcEEcccCCcCCC-CCchhhhcCCCCCcEEEecccccccc
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIKQLP-LEIGQLTRLQLLDLSNCWSLE-VIPPNVISKLSRLEELYMDISFSQWD  163 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~-~~~~~~l~~~~~L~~L~l~~n~~~~~  163 (235)
                      |.+..+  ..++.+++|++|++++|.++.++ ..++++++|++|++++|.+.+ .+|.. ++.+++|++|++++|.+++.
T Consensus        90 n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~-~~~l~~L~~L~Ls~n~l~~~  168 (606)
T 3vq2_A           90 NPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAY-FSNLTNLVHVDLSYNYIQTI  168 (606)
T ss_dssp             CCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTTCTTCCEEECCSSCCCCCCCCGG-GGTCTTCCEEECCSSCCCEE
T ss_pred             CcccccChhhcCCcccCCEEEccCCccccccccccCCCCCCCEEeCCCCcccceechHh-HhhcCCCCEEEccCCcceec
Confidence            888866  67888888888888888888665 458888888888888887443 45665 78888888888888888743


Q ss_pred             ccCCCCCccchhcccCCC----ccceeeecCCCCCCCccc-cccccceeEEEe
Q 042164          164 KVEGGSNASLAELKGLSK----LTTLNIQVPDAQILPQEW-VFVELQSYRICI  211 (235)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~----L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~  211 (235)
                              .+..++.+++    ++.+++++|.+..++... ...+|+.|++..
T Consensus       169 --------~~~~~~~l~~L~~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L~~  213 (606)
T 3vq2_A          169 --------TVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRG  213 (606)
T ss_dssp             --------CTTTTHHHHHCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEEES
T ss_pred             --------ChhhhhhhhccccccceeeccCCCcceeCcccccCceeeeeeccC
Confidence                    2233333333    446888888888777665 444788888753

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

Probab=99.86  E-value=3.1e-21  Score=172.71  Aligned_cols=133  Identities=26%  Similarity=0.364  Sum_probs=110.0

Q ss_pred             ccCCCcEEecCCCCCCCC-CCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQEL-PERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~   81 (235)
                      .++++++|++++|.++.+ +..+ .+++|+.|++ +.+.....+++..|..+++|++|++++|.++.+ |..+..+++|+
T Consensus        22 lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdL-s~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~  100 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLEL-GSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLF  100 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEE-CTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCC
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccccCeEEeC-CCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccC
Confidence            467899999999999866 4444 8999999999 666677777666679999999999999999874 77889999999


Q ss_pred             EEeccCcCCCC-c-c--ccCCCCCCcEEEecCCCCCCc--chhhccCCCCcEEcccCCcCCCC
Q 042164           82 TLCLDWCQLED-V-A--AIGQLKKLEILSFRGSNIKQL--PLEIGQLTRLQLLDLSNCWSLEV  138 (235)
Q Consensus        82 ~L~l~~~~l~~-~-~--~~~~l~~L~~L~l~~~~~~~~--~~~~~~l~~L~~L~l~~~~~~~~  138 (235)
                      +|++++|.+.+ + .  .++.+++|++|++++|.++.+  +..++++++|++|++++|.+.+.
T Consensus       101 ~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~  163 (844)
T 3j0a_A          101 ELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLV  163 (844)
T ss_dssp             CEECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCC
T ss_pred             EeeCcCCCCCcccccCccccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCee
Confidence            99999999885 2 3  388999999999999998854  34688999999999999874443

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

Probab=99.86  E-value=3e-21  Score=165.58  Aligned_cols=156  Identities=24%  Similarity=0.280  Sum_probs=126.7

Q ss_pred             ccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~   81 (235)
                      ..+++++|++++|.++.+++. + .+++|+.|++  .++.+..+++..|..+++|++|++++|.++.++ ..+..+++|+
T Consensus        26 l~~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L--s~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  103 (570)
T 2z63_A           26 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDL--SRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ  103 (570)
T ss_dssp             SCSSCCEEECCSCCCCEECTTTTTTCSSCCEEEC--TTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCC
T ss_pred             ccccccEEEccCCccCccChhHhhCCCCceEEEC--CCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccc
Confidence            456899999999999877653 3 8999999999  455566677666789999999999999998865 6789999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCC--cchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCC----cEE
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ--LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRL----EEL  153 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L----~~L  153 (235)
                      +|++++|.+..+  ..++.+++|++|++++|.++.  +|..++++++|++|++++|. +..+++..++.+++|    ..+
T Consensus       104 ~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~~~~~L  182 (570)
T 2z63_A          104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSL  182 (570)
T ss_dssp             EEECTTSCCCCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSC-CCEECGGGGHHHHTCTTCCCEE
T ss_pred             cccccccccccCCCccccccccccEEecCCCccceecChhhhcccCCCCEEeCcCCc-cceecHHHccchhccchhhhhc
Confidence            999999999887  358899999999999999884  68889999999999999998 444444336666666    677


Q ss_pred             Eecccccccc
Q 042164          154 YMDISFSQWD  163 (235)
Q Consensus       154 ~l~~n~~~~~  163 (235)
                      ++++|.++..
T Consensus       183 ~l~~n~l~~~  192 (570)
T 2z63_A          183 DLSLNPMNFI  192 (570)
T ss_dssp             ECTTCCCCEE
T ss_pred             ccCCCCceec
Confidence            7777766543

>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=99.86  E-value=1.5e-21  Score=149.86  Aligned_cols=196  Identities=18%  Similarity=0.218  Sum_probs=157.7

Q ss_pred             CCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCcc-CCCCCh-hhcCCccCcEEeccC-cCCCCc-
Q 042164           18 DIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIH-FSSLPS-SLGRLINLQTLCLDW-CQLEDV-   93 (235)
Q Consensus        18 ~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~-~~~~~~-~l~~l~~L~~L~l~~-~~l~~~-   93 (235)
                      .++.+|. . .++++.|++  .++.+..++...|..+++|++|++++|. ++.+++ .+..+++|++|++++ |.++.+ 
T Consensus        22 ~l~~ip~-~-~~~l~~L~l--~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~   97 (239)
T 2xwt_C           22 DIQRIPS-L-PPSTQTLKL--IETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYID   97 (239)
T ss_dssp             SCSSCCC-C-CTTCCEEEE--ESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEEC
T ss_pred             CccccCC-C-CCcccEEEE--eCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcC
Confidence            3788888 3 568999999  5566677777668999999999999997 888764 689999999999998 899977 


Q ss_pred             -cccCCCCCCcEEEecCCCCCCcchhhccCCCCc---EEcccCC-cCCCCCchhhhcCCCCCc-EEEeccccccccccCC
Q 042164           94 -AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQ---LLDLSNC-WSLEVIPPNVISKLSRLE-ELYMDISFSQWDKVEG  167 (235)
Q Consensus        94 -~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~---~L~l~~~-~~~~~~~~~~l~~~~~L~-~L~l~~n~~~~~~~~~  167 (235)
                       ..+..+++|++|++++|.++.+|. +..+++|+   +|++++| . ++.++...+..+++|+ ++++++|.++..    
T Consensus        98 ~~~f~~l~~L~~L~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~-l~~i~~~~~~~l~~L~~~L~l~~n~l~~i----  171 (239)
T 2xwt_C           98 PDALKELPLLKFLGIFNTGLKMFPD-LTKVYSTDIFFILEITDNPY-MTSIPVNAFQGLCNETLTLKLYNNGFTSV----  171 (239)
T ss_dssp             TTSEECCTTCCEEEEEEECCCSCCC-CTTCCBCCSEEEEEEESCTT-CCEECTTTTTTTBSSEEEEECCSCCCCEE----
T ss_pred             HHHhCCCCCCCEEeCCCCCCccccc-cccccccccccEEECCCCcc-hhhcCcccccchhcceeEEEcCCCCCccc----
Confidence             578899999999999999998887 78888888   9999999 6 7778777789999999 999999998833    


Q ss_pred             CCCccchhcccCCCccceeeecCC-CCCCCccc--cc-cccceeEEEecccccccchhhhhhhhhccc
Q 042164          168 GSNASLAELKGLSKLTTLNIQVPD-AQILPQEW--VF-VELQSYRICIGNKWWSSWSVKSGLSRLMKL  231 (235)
Q Consensus       168 ~~~~~~~~~~~~~~L~~L~l~~n~-~~~~p~~~--~~-~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L  231 (235)
                          ....+.. ++|+.|++++|. ++.+|...  .+ ++|+.|+++ ++... ..+ +..+.+++.|
T Consensus       172 ----~~~~~~~-~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~-~N~l~-~l~-~~~~~~L~~L  231 (239)
T 2xwt_C          172 ----QGYAFNG-TKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVS-QTSVT-ALP-SKGLEHLKEL  231 (239)
T ss_dssp             ----CTTTTTT-CEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECT-TCCCC-CCC-CTTCTTCSEE
T ss_pred             ----CHhhcCC-CCCCEEEcCCCCCcccCCHHHhhccccCCcEEECC-CCccc-cCC-hhHhccCcee
Confidence                1223344 789999999995 99887654  66 899999994 55552 222 2345555544

>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=99.86  E-value=3.6e-21  Score=164.49  Aligned_cols=195  Identities=19%  Similarity=0.238  Sum_probs=143.3

Q ss_pred             ccCCCcEEecCCCCCCCCC-CcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh-hcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELP-ERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS-LGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~-~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~l~~L~   81 (235)
                      .++++++|++++|.++.++ ..+ .+++|++|++  ..+.+..+++..|..+++|++|++++|.++.+++. +..+++|+
T Consensus        24 ~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L--s~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  101 (549)
T 2z81_A           24 LTAAMKSLDLSFNKITYIGHGDLRACANLQVLIL--KSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLK  101 (549)
T ss_dssp             CCTTCCEEECCSSCCCEECSSTTSSCTTCCEEEC--TTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCC
T ss_pred             CCCCccEEECcCCccCccChhhhhcCCcccEEEC--CCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCc
Confidence            3467888888888888664 334 7888888888  44455555555568888888888888888876654 88888888


Q ss_pred             EEeccCcCCCCc---cccCCCCCCcEEEecCCC-CCCcc-hhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEec
Q 042164           82 TLCLDWCQLEDV---AAIGQLKKLEILSFRGSN-IKQLP-LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD  156 (235)
Q Consensus        82 ~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~-~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~  156 (235)
                      +|++++|.+..+   ..++.+++|++|++++|. +..++ ..+..+++|++|++++|.+.+..+.. ++.+++|++|+++
T Consensus       102 ~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-l~~l~~L~~L~l~  180 (549)
T 2z81_A          102 YLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQS-LKSIRDIHHLTLH  180 (549)
T ss_dssp             EEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTT-TTTCSEEEEEEEE
T ss_pred             EEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhh-hhccccCceEecc
Confidence            888888888743   567888888888888887 55665 35788888888888888855555554 7788888888888


Q ss_pred             cccccccccCCCCCccchhcccCCCccceeeecCCCCCCC---ccc--cccccceeEEE
Q 042164          157 ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILP---QEW--VFVELQSYRIC  210 (235)
Q Consensus       157 ~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p---~~~--~~~~L~~l~l~  210 (235)
                      .|.+...        ....+..+++|+.|++++|.+..++   ...  .+++|+.|++.
T Consensus       181 ~n~~~~~--------~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~  231 (549)
T 2z81_A          181 LSESAFL--------LEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFR  231 (549)
T ss_dssp             CSBSTTH--------HHHHHHSTTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEE
T ss_pred             cCccccc--------chhhHhhcccccEEEccCCccccccccccchhhhhhcccceecc
Confidence            8876522        1222356788999999999887642   222  56777777774

>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=99.86  E-value=4.3e-21  Score=164.67  Aligned_cols=57  Identities=19%  Similarity=0.068  Sum_probs=33.0

Q ss_pred             ccCCCccceeeecCCCCC-CCccc-cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          177 KGLSKLTTLNIQVPDAQI-LPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       177 ~~~~~L~~L~l~~n~~~~-~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      +.+++|+.|++++|.+.. +|..+ .+++|+.|++. ++...+....+..+.++++|+.|
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~-~N~l~~~~~~~~~~~~l~~L~~L  408 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQ-RNGLKNFFKVALMTKNMSSLETL  408 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECC-SSCCCBTTHHHHTTTTCTTCCEE
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECC-CCCcCCcccchhhhcCCCCCCEE
Confidence            456677777777777764 55554 66777777773 34442222223445566655544

>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=99.86  E-value=2.2e-21  Score=165.86  Aligned_cols=194  Identities=18%  Similarity=0.204  Sum_probs=165.1

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCc
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWC   88 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~   88 (235)
                      ...+.+++.++++|..+ .++++.|++ +. +.+..++...|..+++|++|++++|.++.++ ..+..+++|++|++++|
T Consensus         8 ~~c~~~~~~l~~ip~~~-~~~L~~L~L-s~-n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n   84 (549)
T 2z81_A            8 GVCDGRSRSFTSIPSGL-TAAMKSLDL-SF-NKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDN   84 (549)
T ss_dssp             SEEECTTSCCSSCCSCC-CTTCCEEEC-CS-SCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTS
T ss_pred             ceEECCCCccccccccC-CCCccEEEC-cC-CccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCC
Confidence            34688889999999876 489999999 44 4455555555789999999999999999854 67899999999999999


Q ss_pred             CCCCc--cccCCCCCCcEEEecCCCCCC--cchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           89 QLEDV--AAIGQLKKLEILSFRGSNIKQ--LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        89 ~l~~~--~~~~~l~~L~~L~l~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      .+.++  ..++.+++|++|++++|.++.  .|..++.+++|++|++++|...+.++...+..+++|++|++++|.+++. 
T Consensus        85 ~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~-  163 (549)
T 2z81_A           85 HLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNY-  163 (549)
T ss_dssp             CCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE-
T ss_pred             ccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCccccc-
Confidence            99987  559999999999999999984  4667899999999999999867778765689999999999999999844 


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEecccc
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKW  215 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~  215 (235)
                             .+..++.+++|+.|++++|.+..+|...  .+++|+.|+++. +..
T Consensus       164 -------~~~~l~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~-n~l  208 (549)
T 2z81_A          164 -------QSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRD-TNL  208 (549)
T ss_dssp             -------CTTTTTTCSEEEEEEEECSBSTTHHHHHHHSTTTBSEEEEES-CBC
T ss_pred             -------ChhhhhccccCceEecccCcccccchhhHhhcccccEEEccC-Ccc
Confidence                   5677888999999999999998888776  689999999964 443

>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=99.85  E-value=1.3e-20  Score=160.23  Aligned_cols=122  Identities=20%  Similarity=0.180  Sum_probs=52.2

Q ss_pred             ccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCC---cchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcE
Q 042164           78 INLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ---LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEE  152 (235)
Q Consensus        78 ~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~---~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~  152 (235)
                      ++|++|++++|.+.+.  ..++.+++|++|++++|.++.   +|..+..+++|++|++++|.+.+.+|...+..+++|++
T Consensus       324 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~  403 (520)
T 2z7x_B          324 SPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLS  403 (520)
T ss_dssp             CCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCE
T ss_pred             CcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCE
Confidence            3344444444443331  333444444444444444442   12234444444444444444222243333334444444


Q ss_pred             EEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEE
Q 042164          153 LYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRI  209 (235)
Q Consensus       153 L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l  209 (235)
                      |++++|.+++.        .+..+.  ++|+.|++++|.++.+|..+ .+++|+.|++
T Consensus       404 L~Ls~N~l~~~--------~~~~l~--~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L  451 (520)
T 2z7x_B          404 LNMSSNILTDT--------IFRCLP--PRIKVLDLHSNKIKSIPKQVVKLEALQELNV  451 (520)
T ss_dssp             EECCSSCCCGG--------GGGSCC--TTCCEEECCSSCCCCCCGGGGGCTTCCEEEC
T ss_pred             EECcCCCCCcc--------hhhhhc--ccCCEEECCCCcccccchhhhcCCCCCEEEC
Confidence            44444444321        111110  45555555555555555544 5555555555

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

Probab=99.85  E-value=4.5e-20  Score=154.44  Aligned_cols=179  Identities=16%  Similarity=0.109  Sum_probs=122.1

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .++++++|++++|.++.+| ...+++|+.|++ +. +.+..++   ++.+++|++|++++|.++.++  +..+++|++|+
T Consensus        62 ~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~L-s~-N~l~~~~---~~~l~~L~~L~L~~N~l~~l~--~~~l~~L~~L~  133 (457)
T 3bz5_A           62 KLTGLTKLICTSNNITTLD-LSQNTNLTYLAC-DS-NKLTNLD---VTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLN  133 (457)
T ss_dssp             GCTTCSEEECCSSCCSCCC-CTTCTTCSEEEC-CS-SCCSCCC---CTTCTTCCEEECCSSCCSCCC--CTTCTTCCEEE
T ss_pred             ccCCCCEEEccCCcCCeEc-cccCCCCCEEEC-cC-CCCceee---cCCCCcCCEEECCCCcCCeec--CCCCCcCCEEE
Confidence            4567888888888887775 337778888888 33 3344443   467777777777777777664  66677777777


Q ss_pred             ccCcCCCCcc---------------------ccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhh
Q 042164           85 LDWCQLEDVA---------------------AIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNV  143 (235)
Q Consensus        85 l~~~~l~~~~---------------------~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~  143 (235)
                      +++|.+++++                     .++.+++|++|++++|.++.+|  +..+++|+.|++++|. +..++   
T Consensus       134 l~~N~l~~l~l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~--l~~l~~L~~L~l~~N~-l~~~~---  207 (457)
T 3bz5_A          134 CARNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTNN-ITKLD---  207 (457)
T ss_dssp             CTTSCCSCCCCTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCC--CTTCTTCCEEECCSSC-CSCCC---
T ss_pred             CCCCccceeccccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccceec--cccCCCCCEEECcCCc-CCeec---
Confidence            7777665441                     2344556666666666666654  5566777777777776 33332   


Q ss_pred             hcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEE
Q 042164          144 ISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       144 l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      ++.+++|++|++++|.+++.         +  ++.+++|+.|++++|.++.+|.. .+++|+.+++
T Consensus       208 l~~l~~L~~L~Ls~N~l~~i---------p--~~~l~~L~~L~l~~N~l~~~~~~-~l~~L~~L~l  261 (457)
T 3bz5_A          208 LNQNIQLTFLDCSSNKLTEI---------D--VTPLTQLTYFDCSVNPLTELDVS-TLSKLTTLHC  261 (457)
T ss_dssp             CTTCTTCSEEECCSSCCSCC---------C--CTTCTTCSEEECCSSCCSCCCCT-TCTTCCEEEC
T ss_pred             cccCCCCCEEECcCCccccc---------C--ccccCCCCEEEeeCCcCCCcCHH-HCCCCCEEec
Confidence            56777788888888877722         2  77889999999999999987743 5666665554

>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=99.85  E-value=2.6e-20  Score=159.85  Aligned_cols=111  Identities=18%  Similarity=0.189  Sum_probs=55.0

Q ss_pred             CCCCCcEEEecCCCCCC-cchhhccCCCCcEEcccCCcCCCCCch--hhhcCCCCCcEEEeccccccccccCCCC-----
Q 042164           98 QLKKLEILSFRGSNIKQ-LPLEIGQLTRLQLLDLSNCWSLEVIPP--NVISKLSRLEELYMDISFSQWDKVEGGS-----  169 (235)
Q Consensus        98 ~l~~L~~L~l~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~~~~~~--~~l~~~~~L~~L~l~~n~~~~~~~~~~~-----  169 (235)
                      .+++|++|++++|.++. .|..+..+++|++|++++|. +..++.  ..++.+++|++|++++|.+++....+..     
T Consensus       351 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~  429 (562)
T 3a79_B          351 SPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNG-LKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAES  429 (562)
T ss_dssp             SCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSC-CCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTT
T ss_pred             CCCCceEEECCCCccccchhhhhcccCCCCEEECCCCC-cCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCccc
Confidence            44556666666666553 44455566666666666665 333221  1245555666666666655531011000     


Q ss_pred             --------Ccc-chhcccC-CCccceeeecCCCCCCCccc-cccccceeEE
Q 042164          170 --------NAS-LAELKGL-SKLTTLNIQVPDAQILPQEW-VFVELQSYRI  209 (235)
Q Consensus       170 --------~~~-~~~~~~~-~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l  209 (235)
                              ... ...+..+ ++|+.|++++|.++.+|..+ .+++|+.|++
T Consensus       430 L~~L~l~~n~l~~~~~~~l~~~L~~L~L~~N~l~~ip~~~~~l~~L~~L~L  480 (562)
T 3a79_B          430 ILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNV  480 (562)
T ss_dssp             CCEEECCSSCCCGGGGSSCCTTCSEEECCSSCCCCCCTTTTSSCCCSEEEC
T ss_pred             CCEEECCCCCCCcchhhhhcCcCCEEECCCCcCcccChhhcCCCCCCEEEC
Confidence                    000 0111112 45666666666666666555 5566666666

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

Probab=99.85  E-value=6.2e-21  Score=163.64  Aligned_cols=198  Identities=19%  Similarity=0.205  Sum_probs=132.8

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccc--hhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQIS--DHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~--~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      ++++.|++++|.+........+++|+.|++ +.+ .+...+  ...+..+++|++|++++|.++.+++.+..+++|++|+
T Consensus       325 ~~L~~L~l~~n~~~~~~~~~~~~~L~~L~l-~~n-~l~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~l~~L~~L~  402 (570)
T 2z63_A          325 KSLKRLTFTSNKGGNAFSEVDLPSLEFLDL-SRN-GLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLD  402 (570)
T ss_dssp             SSCCEEEEESCBSCCBCCCCBCTTCCEEEC-CSS-CCBEEEEEEHHHHTCSCCCEEECCSCSEEEEEEEEETCTTCCEEE
T ss_pred             cccCEEeCcCCccccccccccCCCCCEEeC-cCC-ccCccccccccccccCccCEEECCCCccccccccccccCCCCEEE
Confidence            344444444444332222235666777777 333 333221  2224677778888888777776665577778888888


Q ss_pred             ccCcCCCCc---cccCCCCCCcEEEecCCCCCC-cchhhccCCCCcEEcccCCcCC-CCCchhhhcCCCCCcEEEecccc
Q 042164           85 LDWCQLEDV---AAIGQLKKLEILSFRGSNIKQ-LPLEIGQLTRLQLLDLSNCWSL-EVIPPNVISKLSRLEELYMDISF  159 (235)
Q Consensus        85 l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~-~~~~~~~l~~~~~L~~L~l~~n~  159 (235)
                      +++|.+...   ..+..+++|++|++++|.+.. .+..+..+++|++|++++|.+. +.+|.. +..+++|++|++++|.
T Consensus       403 l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~~-~~~l~~L~~L~l~~n~  481 (570)
T 2z63_A          403 FQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI-FTELRNLTFLDLSQCQ  481 (570)
T ss_dssp             CTTSEEESCTTSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECSC-CTTCTTCCEEECTTSC
T ss_pred             ccCCccccccchhhhhcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchhh-hhcccCCCEEECCCCc
Confidence            888776654   356777888888888887774 4555777888888888888743 345544 7778888888888887


Q ss_pred             ccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEeccccc
Q 042164          160 SQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKWW  216 (235)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~~  216 (235)
                      +++.        .+..+..+++|+.|++++|.++.+|...  .+++|+.+++. ++.+.
T Consensus       482 l~~~--------~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~-~N~~~  531 (570)
T 2z63_A          482 LEQL--------SPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH-TNPWD  531 (570)
T ss_dssp             CCEE--------CTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECC-SSCBC
T ss_pred             cccC--------ChhhhhcccCCCEEeCCCCcCCCCCHHHhhcccCCcEEEec-CCccc
Confidence            7733        3567778888999999998888776653  77888888884 55553

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.85  E-value=7.1e-21  Score=151.68  Aligned_cols=195  Identities=17%  Similarity=0.124  Sum_probs=113.3

Q ss_pred             CCCcEEecCCCCCCC-CCCc---CCCCCccEEEeccCCCCCcccc---hhhhhCCCCCcEEeecCccCCCCC-hhhcCCc
Q 042164            7 KGPIAISLPQRDIQE-LPER---LQCPNLQLFLLFREGNGPMQIS---DHFFEGTEELKVLDFTGIHFSSLP-SSLGRLI   78 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~-i~~~---~~l~~L~~L~l~~~~~~~~~~~---~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~   78 (235)
                      +++++|++++|.+.. +|..   ..+++|++|++ +.+......+   ...+..+++|++|++++|.++.++ ..+..++
T Consensus        91 ~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~L-s~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           91 SRLKELTLEDLKITGTMPPLPLEATGLALSSLRL-RNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             SCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEE-ESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             CceeEEEeeCCEeccchhhhhhhccCCCCCEEEe-ecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            346777777777653 3333   34667777777 4444333222   111235667777777777776543 4566677


Q ss_pred             cCcEEeccCcCCCC---c---cccCCCCCCcEEEecCCCCCCcchh----hccCCCCcEEcccCCcCCCCCchhhhcCC-
Q 042164           79 NLQTLCLDWCQLED---V---AAIGQLKKLEILSFRGSNIKQLPLE----IGQLTRLQLLDLSNCWSLEVIPPNVISKL-  147 (235)
Q Consensus        79 ~L~~L~l~~~~l~~---~---~~~~~l~~L~~L~l~~~~~~~~~~~----~~~l~~L~~L~l~~~~~~~~~~~~~l~~~-  147 (235)
                      +|++|++++|.+.+   +   ..++.+++|++|++++|.++.++..    +..+++|++|++++|.+.+..|.. +..+ 
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~-~~~~~  248 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPS-APRCM  248 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSC-CSSCC
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhh-HHhcc
Confidence            77777777776543   2   2234666777777777776654432    356677777777777644433443 3343 


Q ss_pred             --CCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEecccc
Q 042164          148 --SRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKW  215 (235)
Q Consensus       148 --~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~~  215 (235)
                        ++|++|++++|.++..         +..+  .++|+.|++++|.++.+|....+++|+.|++ .+|.+
T Consensus       249 ~~~~L~~L~Ls~N~l~~l---------p~~~--~~~L~~L~Ls~N~l~~~~~~~~l~~L~~L~L-~~N~l  306 (310)
T 4glp_A          249 WSSALNSLNLSFAGLEQV---------PKGL--PAKLRVLDLSSNRLNRAPQPDELPEVDNLTL-DGNPF  306 (310)
T ss_dssp             CCTTCCCEECCSSCCCSC---------CSCC--CSCCSCEECCSCCCCSCCCTTSCCCCSCEEC-SSTTT
T ss_pred             CcCcCCEEECCCCCCCch---------hhhh--cCCCCEEECCCCcCCCCchhhhCCCccEEEC-cCCCC
Confidence              5677777777766622         2222  1567777777777776655336667777766 34443

>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=99.85  E-value=2.2e-20  Score=160.93  Aligned_cols=174  Identities=24%  Similarity=0.335  Sum_probs=142.7

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .+++|+.|++++|.+..++....+++|+.|++  ..+.+..++.  +..+++|+.|+|++|.++.++ .+..+++|++|+
T Consensus        41 ~L~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L--s~N~l~~~~~--l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~  115 (605)
T 1m9s_A           41 ELNSIDQIIANNSDIKSVQGIQYLPNVTKLFL--NGNKLTDIKP--LTNLKNLGWLFLDENKIKDLS-SLKDLKKLKSLS  115 (605)
T ss_dssp             HHTTCCCCBCTTCCCCCCTTGGGCTTCCEEEC--TTSCCCCCGG--GGGCTTCCEEECCSSCCCCCT-TSTTCTTCCEEE
T ss_pred             cCCCCCEEECcCCCCCCChHHccCCCCCEEEe--eCCCCCCChh--hccCCCCCEEECcCCCCCCCh-hhccCCCCCEEE
Confidence            35788899999999988876558999999999  4445555555  688999999999999988876 578899999999


Q ss_pred             ccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           85 LDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        85 l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      +++|.+..+..+..+++|+.|+++.|.++.+ ..+..+++|+.|++++|. +..+++  +..+++|+.|++++|.+++  
T Consensus       116 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          116 LEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHISD--  189 (605)
T ss_dssp             CTTSCCCCCGGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCB--
T ss_pred             ecCCCCCCCccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcCCc-CCCchh--hccCCCCCEEECcCCCCCC--
Confidence            9999988887788899999999999998877 567888999999999998 444544  7888999999999998872  


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCCCCc
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQILPQ  197 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~  197 (235)
                              +..+..+++|+.|+|++|.+...|.
T Consensus       190 --------l~~l~~l~~L~~L~L~~N~l~~~p~  214 (605)
T 1m9s_A          190 --------LRALAGLKNLDVLELFSQECLNKPI  214 (605)
T ss_dssp             --------CGGGTTCTTCSEEECCSEEEECCCC
T ss_pred             --------ChHHccCCCCCEEEccCCcCcCCcc
Confidence                    3467888999999999998875554

>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=99.85  E-value=5.7e-20  Score=142.17  Aligned_cols=172  Identities=23%  Similarity=0.367  Sum_probs=145.5

Q ss_pred             CCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEE
Q 042164           29 PNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEIL  105 (235)
Q Consensus        29 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L  105 (235)
                      ...+.+++  .+..+..+|..+   ...++.|++++|.++.++ ..+..+++|++|++++|.+.++  ..+..+++|++|
T Consensus        14 ~~~~~l~~--~~~~l~~~p~~~---~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L   88 (251)
T 3m19_A           14 EGKKEVDC--QGKSLDSVPSGI---PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTL   88 (251)
T ss_dssp             GGGTEEEC--TTCCCSSCCSCC---CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCeEEec--CCCCccccCCCC---CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEE
Confidence            45677888  666677777643   368999999999999865 4689999999999999999987  568899999999


Q ss_pred             EecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccc
Q 042164          106 SFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTT  184 (235)
Q Consensus       106 ~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~  184 (235)
                      ++++|.++.++. .+..+++|++|++++|. +..++...+..+++|++|++++|.+++.        ....++.+++|+.
T Consensus        89 ~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~--------~~~~~~~l~~L~~  159 (251)
T 3m19_A           89 GLANNQLASLPLGVFDHLTQLDKLYLGGNQ-LKSLPSGVFDRLTKLKELRLNTNQLQSI--------PAGAFDKLTNLQT  159 (251)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCCC--------CTTTTTTCTTCCE
T ss_pred             ECCCCcccccChhHhcccCCCCEEEcCCCc-CCCcChhHhccCCcccEEECcCCcCCcc--------CHHHcCcCcCCCE
Confidence            999999998765 47899999999999998 6677777688999999999999999843        3346888999999


Q ss_pred             eeeecCCCCCCCccc--cccccceeEEEecccc
Q 042164          185 LNIQVPDAQILPQEW--VFVELQSYRICIGNKW  215 (235)
Q Consensus       185 L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~  215 (235)
                      |++++|.++.+|...  .+++|+.|++ .+|.+
T Consensus       160 L~L~~N~l~~~~~~~~~~l~~L~~L~l-~~N~~  191 (251)
T 3m19_A          160 LSLSTNQLQSVPHGAFDRLGKLQTITL-FGNQF  191 (251)
T ss_dssp             EECCSSCCSCCCTTTTTTCTTCCEEEC-CSCCB
T ss_pred             EECCCCcCCccCHHHHhCCCCCCEEEe-eCCce
Confidence            999999999888744  7899999999 46665

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.84  E-value=3.8e-20  Score=139.12  Aligned_cols=172  Identities=19%  Similarity=0.283  Sum_probs=145.6

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCcEEeccC
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDW   87 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~~L~l~~   87 (235)
                      -+.++++++.+..+|... .++++.|++  .++.+..++...|..+++|++|++++|.++.+++ .+..+++|++|++++
T Consensus         9 ~~~v~c~~~~l~~~p~~~-~~~l~~L~l--~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~   85 (208)
T 2o6s_A            9 GTTVECYSQGRTSVPTGI-PAQTTYLDL--ETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLST   85 (208)
T ss_dssp             TTEEECCSSCCSSCCSCC-CTTCSEEEC--CSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEecCCCccCCCCCC-CCCCcEEEc--CCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCC
Confidence            357888999998888766 679999999  5555667777777899999999999999998765 468899999999999


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      |.+..+  ..++.+++|++|++++|.++.++.. +..+++|++|++++|. +..++...+..+++|+++++++|.+.+  
T Consensus        86 n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~~--  162 (208)
T 2o6s_A           86 NQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIWLHDNPWDC--  162 (208)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSCCBCC--
T ss_pred             CcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCc-cceeCHHHhccCCCccEEEecCCCeec--
Confidence            999987  4578999999999999999987765 7889999999999998 566776668899999999999997762  


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCC-CCCccc
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW  199 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~  199 (235)
                                   .+++|+.|+++.|.+. .+|.++
T Consensus       163 -------------~~~~l~~L~~~~n~~~g~ip~~~  185 (208)
T 2o6s_A          163 -------------TCPGIRYLSEWINKHSGVVRNSA  185 (208)
T ss_dssp             -------------CTTTTHHHHHHHHHCTTTBBCTT
T ss_pred             -------------CCCCHHHHHHHHHhCCceeeccC
Confidence                         3578999999999887 788755

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

Probab=99.84  E-value=2.1e-20  Score=167.31  Aligned_cols=106  Identities=20%  Similarity=0.233  Sum_probs=57.6

Q ss_pred             cCCCcEEecCCCCC-CCC-CCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChh--hcCCcc
Q 042164            6 RKGPIAISLPQRDI-QEL-PERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSS--LGRLIN   79 (235)
Q Consensus         6 ~~~l~~L~l~~~~l-~~i-~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~--l~~l~~   79 (235)
                      +++|++|++++|.. ..+ |..+ .+++|++|++  ..+.+..+++..|..+++|++|++++|.++. ++..  +..+++
T Consensus        47 l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~L--s~N~l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~  124 (844)
T 3j0a_A           47 LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDL--GSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKA  124 (844)
T ss_dssp             CCSCSEEEECTTCCCCEECTTTTSSCTTCCEEEC--TTCCCCEECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSS
T ss_pred             cccCeEEeCCCCCCccccCHHHhcCCCCCCEEEC--CCCcCcccCHhHccCCcccCEeeCcCCCCCcccccCccccccCC
Confidence            45666666666633 344 2333 5666666666  3333333333334566666666666666654 3332  556666


Q ss_pred             CcEEeccCcCCCCc---cccCCCCCCcEEEecCCCCC
Q 042164           80 LQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIK  113 (235)
Q Consensus        80 L~~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~  113 (235)
                      |++|++++|.+.++   ..++.+++|++|++++|.++
T Consensus       125 L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~  161 (844)
T 3j0a_A          125 LTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIF  161 (844)
T ss_dssp             CCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCC
T ss_pred             CCEEECCCCcccccccchhHhhCCCCCEEECCCCcCC
Confidence            66666666665543   34556666666666666554

>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=99.84  E-value=4.3e-21  Score=165.36  Aligned_cols=188  Identities=20%  Similarity=0.255  Sum_probs=158.0

Q ss_pred             CCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccC
Q 042164            8 GPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW   87 (235)
Q Consensus         8 ~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~   87 (235)
                      .+..+.+..+.+..+.....+++|+.|++  .++.+..++.  +..+++|+.|+|++|.++.+++ +..+++|++|++++
T Consensus        22 ~l~~l~l~~~~i~~~~~~~~L~~L~~L~l--~~n~i~~l~~--l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~   96 (605)
T 1m9s_A           22 ETIKDNLKKKSVTDAVTQNELNSIDQIIA--NNSDIKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDE   96 (605)
T ss_dssp             HHHHHHTTCSCTTSEECHHHHTTCCCCBC--TTCCCCCCTT--GGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCS
T ss_pred             HHHHHhccCCCcccccchhcCCCCCEEEC--cCCCCCCChH--HccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcC
Confidence            34456666777766655557899999999  5566666664  6899999999999999998876 89999999999999


Q ss_pred             cCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCC
Q 042164           88 CQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEG  167 (235)
Q Consensus        88 ~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~  167 (235)
                      |.+..++.+..+++|+.|+++.|.++.++ .+..+++|+.|++++|. +..++ . +..+++|+.|++++|.+.+.    
T Consensus        97 N~l~~l~~l~~l~~L~~L~Ls~N~l~~l~-~l~~l~~L~~L~Ls~N~-l~~l~-~-l~~l~~L~~L~Ls~N~l~~~----  168 (605)
T 1m9s_A           97 NKIKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDIT-V-LSRLTKLDTLSLEDNQISDI----  168 (605)
T ss_dssp             SCCCCCTTSTTCTTCCEEECTTSCCCCCG-GGGGCTTCSEEECCSSC-CCCCG-G-GGSCTTCSEEECCSSCCCCC----
T ss_pred             CCCCCChhhccCCCCCEEEecCCCCCCCc-cccCCCccCEEECCCCc-cCCch-h-hcccCCCCEEECcCCcCCCc----
Confidence            99999988999999999999999999874 58899999999999998 55553 3 89999999999999999833    


Q ss_pred             CCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEecccc
Q 042164          168 GSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKW  215 (235)
Q Consensus       168 ~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~~  215 (235)
                           .. +..+++|+.|+|++|.+..+|....+++|+.|++. ++..
T Consensus       169 -----~~-l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~L~-~N~l  209 (605)
T 1m9s_A          169 -----VP-LAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELF-SQEC  209 (605)
T ss_dssp             -----GG-GTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEECC-SEEE
T ss_pred             -----hh-hccCCCCCEEECcCCCCCCChHHccCCCCCEEEcc-CCcC
Confidence                 22 88899999999999999988754489999999995 4433

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.84  E-value=1.1e-19  Score=155.19  Aligned_cols=190  Identities=20%  Similarity=0.235  Sum_probs=153.3

Q ss_pred             CCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccC
Q 042164            8 GPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW   87 (235)
Q Consensus         8 ~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~   87 (235)
                      +++.|++++|.++.+|..+ +++|+.|++  .++.+..+|    ..+++|++|++++|.++.+|. +..  +|++|++++
T Consensus        60 ~L~~L~Ls~n~L~~lp~~l-~~~L~~L~L--s~N~l~~ip----~~l~~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls~  129 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDNL-PPQITVLEI--TQNALISLP----ELPASLEYLDACDNRLSTLPE-LPA--SLKHLDVDN  129 (571)
T ss_dssp             TCSEEECCSSCCSCCCSCC-CTTCSEEEC--CSSCCSCCC----CCCTTCCEEECCSSCCSCCCC-CCT--TCCEEECCS
T ss_pred             CccEEEeCCCCCCccCHhH-cCCCCEEEC--cCCCCcccc----cccCCCCEEEccCCCCCCcch-hhc--CCCEEECCC
Confidence            7999999999999998876 589999999  555556777    357999999999999999887 554  999999999


Q ss_pred             cCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCC
Q 042164           88 CQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEG  167 (235)
Q Consensus        88 ~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~  167 (235)
                      |.+++++.  .+++|++|++++|.++.+|.   .+++|++|++++|. ++.+|.  +.  ++|+.|++++|.++..    
T Consensus       130 N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~N~-L~~lp~--l~--~~L~~L~Ls~N~L~~l----  195 (571)
T 3cvr_A          130 NQLTMLPE--LPALLEYINADNNQLTMLPE---LPTSLEVLSVRNNQ-LTFLPE--LP--ESLEALDVSTNLLESL----  195 (571)
T ss_dssp             SCCSCCCC--CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCSSC-CSCCCC--CC--TTCCEEECCSSCCSSC----
T ss_pred             CcCCCCCC--cCccccEEeCCCCccCcCCC---cCCCcCEEECCCCC-CCCcch--hh--CCCCEEECcCCCCCch----
Confidence            99998855  78999999999999998886   67899999999998 555776  44  8999999999999833    


Q ss_pred             CCCccchhccc-----CCCccceeeecCCCCCCCccc-cccccceeEEEecccccccchhhhhhhhhcc
Q 042164          168 GSNASLAELKG-----LSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMK  230 (235)
Q Consensus       168 ~~~~~~~~~~~-----~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~  230 (235)
                           +. +..     .+.|+.|++++|.++.+|..+ .+++|+.|++ .+|.+.+  ..+..+..+..
T Consensus       196 -----p~-~~~~L~~~~~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~L-~~N~l~~--~~p~~l~~l~~  255 (571)
T 3cvr_A          196 -----PA-VPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIIL-EDNPLSS--RIRESLSQQTA  255 (571)
T ss_dssp             -----CC-CC--------CCEEEECCSSCCCCCCGGGGGSCTTEEEEC-CSSSCCH--HHHHHHHHHHH
T ss_pred             -----hh-HHHhhhcccccceEEecCCCcceecCHHHhcCCCCCEEEe-eCCcCCC--cCHHHHHHhhc
Confidence                 22 222     122399999999999999977 8899999999 4666633  23355555443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.84  E-value=4.4e-21  Score=152.88  Aligned_cols=214  Identities=13%  Similarity=0.070  Sum_probs=155.6

Q ss_pred             CCcEEecCCCCCC-----CCCCcCCCCCccEEEeccCCCCCcccchhhh-hCCCCCcEEeecCccCCC-CC----hhhcC
Q 042164            8 GPIAISLPQRDIQ-----ELPERLQCPNLQLFLLFREGNGPMQISDHFF-EGTEELKVLDFTGIHFSS-LP----SSLGR   76 (235)
Q Consensus         8 ~l~~L~l~~~~l~-----~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~~~-~~----~~l~~   76 (235)
                      .++.+.+.++.+.     .+.....+++|+.|++ +.+......+..++ ..+++|++|++++|.++. .+    ..+..
T Consensus        65 ~l~~l~l~~~~~~~~~~~~~~~~~~~~~L~~L~l-~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~  143 (310)
T 4glp_A           65 RVRRLTVGAAQVPAQLLVGALRVLAYSRLKELTL-EDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWL  143 (310)
T ss_dssp             CCCEEEECSCCCBHHHHHHHHHHHHHSCCCEEEE-ESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTB
T ss_pred             ceeEEEEeCCcCCHHHHHHHHHhcccCceeEEEe-eCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhh
Confidence            3566777776664     1222225677999999 66665555665533 789999999999999985 33    23457


Q ss_pred             CccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCC---cchh--hccCCCCcEEcccCCcCCCCCch---hhhcC
Q 042164           77 LINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ---LPLE--IGQLTRLQLLDLSNCWSLEVIPP---NVISK  146 (235)
Q Consensus        77 l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~---~~~~--~~~l~~L~~L~l~~~~~~~~~~~---~~l~~  146 (235)
                      +++|++|++++|.+..+  ..++.+++|++|++++|.+..   ++..  ++.+++|++|++++|. +..++.   ..++.
T Consensus       144 ~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~~  222 (310)
T 4glp_A          144 KPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTG-METPTGVCAALAAA  222 (310)
T ss_dssp             CSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHHHHHHHHH
T ss_pred             ccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCC-CCchHHHHHHHHhc
Confidence            89999999999999876  678899999999999998763   3322  4688999999999998 554443   23578


Q ss_pred             CCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEecccccccchhhhhhh
Q 042164          147 LSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLS  226 (235)
Q Consensus       147 ~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~  226 (235)
                      +++|++|++++|.+++.     .+.....+..+++|++|++++|.++.+|..+ +++|+.|+++ .|... ..+.   +.
T Consensus       223 l~~L~~L~Ls~N~l~~~-----~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~-~~~L~~L~Ls-~N~l~-~~~~---~~  291 (310)
T 4glp_A          223 GVQPHSLDLSHNSLRAT-----VNPSAPRCMWSSALNSLNLSFAGLEQVPKGL-PAKLRVLDLS-SNRLN-RAPQ---PD  291 (310)
T ss_dssp             TCCCSSEECTTSCCCCC-----CCSCCSSCCCCTTCCCEECCSSCCCSCCSCC-CSCCSCEECC-SCCCC-SCCC---TT
T ss_pred             CCCCCEEECCCCCCCcc-----chhhHHhccCcCcCCEEECCCCCCCchhhhh-cCCCCEEECC-CCcCC-CCch---hh
Confidence            89999999999999833     0111223333479999999999999999876 4899999995 55443 2222   45


Q ss_pred             hhccccCC
Q 042164          227 RLMKLQGL  234 (235)
Q Consensus       227 ~l~~L~~L  234 (235)
                      .+++|+.|
T Consensus       292 ~l~~L~~L  299 (310)
T 4glp_A          292 ELPEVDNL  299 (310)
T ss_dssp             SCCCCSCE
T ss_pred             hCCCccEE
Confidence            56666654

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.83  E-value=9.2e-21  Score=147.63  Aligned_cols=172  Identities=19%  Similarity=0.224  Sum_probs=129.4

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      +.++..++++++.++.++....+++|+.|++  .++.+..++.  +..+++|++|++++|.++.+++ +..+++|++|++
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   92 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTDLVSQKELSGVQNFNG--DNSNIQSLAG--MQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSV   92 (263)
T ss_dssp             HHHHHHHHHTCSCTTSEECHHHHTTCSEEEC--TTSCCCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEEC
T ss_pred             HHHHHHHHhcCCCcccccchhhcCcCcEEEC--cCCCcccchH--HhhCCCCCEEECCCCccCCChh-hccCCCCCEEEC
Confidence            3456667778888877774447888888888  4455555662  5778888888888888888776 788888888888


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      ++|.+.+++.+.. ++|++|++++|.++.++ .+..+++|++|++++|. +..++.  +..+++|++|++++|.+++   
T Consensus        93 ~~N~l~~l~~~~~-~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~N~-i~~~~~--l~~l~~L~~L~L~~N~i~~---  164 (263)
T 1xeu_A           93 NRNRLKNLNGIPS-ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRNNK-LKSIVM--LGFLSKLEVLDLHGNEITN---  164 (263)
T ss_dssp             CSSCCSCCTTCCC-SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTTSC-CCBCGG--GGGCTTCCEEECTTSCCCB---
T ss_pred             CCCccCCcCcccc-CcccEEEccCCccCCCh-hhcCcccccEEECCCCc-CCCChH--HccCCCCCEEECCCCcCcc---
Confidence            8888887744444 78888888888888765 47788888888888887 555552  7788888888888888871   


Q ss_pred             CCCCCccchhcccCCCccceeeecCCCCCCCc
Q 042164          166 EGGSNASLAELKGLSKLTTLNIQVPDAQILPQ  197 (235)
Q Consensus       166 ~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~  197 (235)
                             ...+..+++|+.|++++|.+...|.
T Consensus       165 -------~~~l~~l~~L~~L~l~~N~~~~~~~  189 (263)
T 1xeu_A          165 -------TGGLTRLKKVNWIDLTGQKCVNEPV  189 (263)
T ss_dssp             -------CTTSTTCCCCCEEEEEEEEEECCCE
T ss_pred             -------hHHhccCCCCCEEeCCCCcccCCcc
Confidence                   2566778888888888888765554

>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=99.83  E-value=1.2e-19  Score=157.24  Aligned_cols=188  Identities=20%  Similarity=0.230  Sum_probs=138.4

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCcEEeccCc
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWC   88 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~~L~l~~~   88 (235)
                      ++++.++.++++||..+ .++++.|++  ..+.+..+++..|..+++|++|++++|.++.+++ .|..+++|++|++++|
T Consensus        34 ~~~~c~~~~l~~vP~~l-p~~~~~LdL--s~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N  110 (635)
T 4g8a_A           34 ITYQCMELNFYKIPDNL-PFSTKNLDL--SFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN  110 (635)
T ss_dssp             TEEECTTSCCSSCCSSS-CTTCCEEEC--TTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTC
T ss_pred             CEEECCCCCcCccCCCC-CcCCCEEEe--eCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCC
Confidence            45677777888888776 467889999  5566777777667889999999999999888754 5888999999999999


Q ss_pred             CCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCC-CCchhhhcCCCCCcEEEeccccccccc
Q 042164           89 QLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLE-VIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        89 ~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~-~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      +++.+  ..|+.+++|++|++++|.++.++.. ++++++|++|++++|.+.+ ..|. .++.+++|++|++++|.+++. 
T Consensus       111 ~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~-~~~~l~~L~~L~L~~N~l~~~-  188 (635)
T 4g8a_A          111 PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPE-YFSNLTNLEHLDLSSNKIQSI-  188 (635)
T ss_dssp             CCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCG-GGGGCTTCCEEECCSSCCCEE-
T ss_pred             cCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCch-hhccchhhhhhcccCcccccc-
Confidence            98877  5688899999999999998877654 8888999999999987433 2344 378888999999999988744 


Q ss_pred             cCCCCCccchhcccCCC----ccceeeecCCCCCCCccc-cccccceeEE
Q 042164          165 VEGGSNASLAELKGLSK----LTTLNIQVPDAQILPQEW-VFVELQSYRI  209 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~----L~~L~l~~n~~~~~p~~~-~~~~L~~l~l  209 (235)
                             ....+..+++    ...++++.|.+..++... ....+..+++
T Consensus       189 -------~~~~l~~L~~l~~~~~~~~ls~n~l~~i~~~~~~~~~~~~l~l  231 (635)
T 4g8a_A          189 -------YCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTL  231 (635)
T ss_dssp             -------CGGGGHHHHTCTTCCCEEECTTCCCCEECTTTTTTCEEEEEEE
T ss_pred             -------ccccccchhhhhhhhhhhhcccCcccccCcccccchhhhhhhh
Confidence                   2223333222    235667777777665543 3333444444

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.83  E-value=4e-19  Score=153.43  Aligned_cols=57  Identities=19%  Similarity=0.300  Sum_probs=28.8

Q ss_pred             CCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC
Q 042164            7 KGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP   71 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~   71 (235)
                      ++++.|++++|.++.+|.  .+++|+.|++  .++.+..+|.    .+++|++|++++|.++.+|
T Consensus        61 ~~L~~L~L~~N~l~~lp~--~l~~L~~L~L--s~N~l~~lp~----~l~~L~~L~Ls~N~l~~l~  117 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA--LPPELRTLEV--SGNQLTSLPV----LPPGLLELSIFSNPLTHLP  117 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC--CCTTCCEEEE--CSCCCSCCCC----CCTTCCEEEECSCCCCCCC
T ss_pred             CCCcEEEecCCCCCCCCC--cCCCCCEEEc--CCCcCCcCCC----CCCCCCEEECcCCcCCCCC
Confidence            455556666665555555  3555555555  3333333442    3445555555555554443

>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=99.82  E-value=4.6e-20  Score=149.42  Aligned_cols=198  Identities=14%  Similarity=0.108  Sum_probs=134.3

Q ss_pred             ccCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcE-EeecCccCCCCC-hhhcCCccC
Q 042164            5 IRKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKV-LDFTGIHFSSLP-SSLGRLINL   80 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~-L~l~~~~~~~~~-~~l~~l~~L   80 (235)
                      .++++++|++++|.|+.||+..  ++++|+.|++ +.|.....++...|..++++.+ +.+.+|.++.++ ..|..+++|
T Consensus        28 l~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~L-s~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L  106 (350)
T 4ay9_X           28 LPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEI-SQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNL  106 (350)
T ss_dssp             CCTTCSEEEEESCCCSEECTTSSTTCTTCCEEEE-ECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTC
T ss_pred             cCCCCCEEEccCCcCCCcCHHHHcCCCCCCEEEC-cCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhcccc
Confidence            4567888888888888887653  7888888888 6655556677777777877665 555667788764 567888888


Q ss_pred             cEEeccCcCCCCc--cccCCCCCCcEEEecC-CCCCCcchh-hccCC-CCcEEcccCCcCCCCCchhhhcCCCCCcEEEe
Q 042164           81 QTLCLDWCQLEDV--AAIGQLKKLEILSFRG-SNIKQLPLE-IGQLT-RLQLLDLSNCWSLEVIPPNVISKLSRLEELYM  155 (235)
Q Consensus        81 ~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~-~~~~~~~~~-~~~l~-~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l  155 (235)
                      +++++++|.+..+  ..+.....+..+++.. +.+..++.. +..+. .++.|++++|+ +..++.. .....+++++++
T Consensus       107 ~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~-i~~i~~~-~f~~~~L~~l~l  184 (350)
T 4ay9_X          107 QYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNS-AFNGTQLDELNL  184 (350)
T ss_dssp             CEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTT-SSTTEEEEEEEC
T ss_pred             ccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccccc-ccCCChh-hccccchhHHhh
Confidence            8888888888766  3333445566677755 356655543 44443 57777777776 5566665 334556777777


Q ss_pred             cc-ccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEeccc
Q 042164          156 DI-SFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNK  214 (235)
Q Consensus       156 ~~-n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~  214 (235)
                      .+ |.++..        ....++.+++|+.|++++|.++.+|.. .+.+|++|++...+.
T Consensus       185 ~~~n~l~~i--------~~~~f~~l~~L~~LdLs~N~l~~lp~~-~~~~L~~L~~l~~~~  235 (350)
T 4ay9_X          185 SDNNNLEEL--------PNDVFHGASGPVILDISRTRIHSLPSY-GLENLKKLRARSTYN  235 (350)
T ss_dssp             TTCTTCCCC--------CTTTTTTEECCSEEECTTSCCCCCCSS-SCTTCCEEECTTCTT
T ss_pred             ccCCcccCC--------CHHHhccCcccchhhcCCCCcCccChh-hhccchHhhhccCCC
Confidence            54 455522        223567778888888888888888775 467777777644433

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.82  E-value=5.2e-19  Score=152.68  Aligned_cols=78  Identities=21%  Similarity=0.181  Sum_probs=52.5

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .+++|++|++++|.++.+|.  .+++|+.|++  .++.+..++.    .+.+|+.|++++|.++.+|..   +++|++|+
T Consensus        79 ~l~~L~~L~Ls~N~l~~lp~--~l~~L~~L~L--s~N~l~~l~~----~l~~L~~L~L~~N~l~~lp~~---l~~L~~L~  147 (622)
T 3g06_A           79 LPPELRTLEVSGNQLTSLPV--LPPGLLELSI--FSNPLTHLPA----LPSGLCKLWIFGNQLTSLPVL---PPGLQELS  147 (622)
T ss_dssp             CCTTCCEEEECSCCCSCCCC--CCTTCCEEEE--CSCCCCCCCC----CCTTCCEEECCSSCCSCCCCC---CTTCCEEE
T ss_pred             cCCCCCEEEcCCCcCCcCCC--CCCCCCEEEC--cCCcCCCCCC----CCCCcCEEECCCCCCCcCCCC---CCCCCEEE
Confidence            45788889999888888877  6788888888  4445554553    456666677776666666542   35666666


Q ss_pred             ccCcCCCCc
Q 042164           85 LDWCQLEDV   93 (235)
Q Consensus        85 l~~~~l~~~   93 (235)
                      +++|.+.++
T Consensus       148 Ls~N~l~~l  156 (622)
T 3g06_A          148 VSDNQLASL  156 (622)
T ss_dssp             CCSSCCSCC
T ss_pred             CcCCcCCCc
Confidence            666665544

>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=99.81  E-value=2.1e-19  Score=133.95  Aligned_cols=150  Identities=21%  Similarity=0.269  Sum_probs=113.5

Q ss_pred             hCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCC-cchhhccCCCCcEEcc
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQ-LPLEIGQLTRLQLLDL  130 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~l~~L~~L~l  130 (235)
                      ..++.|+.|++++|.++.+| .+..+++|++|++++|.+..+..+..+++|++|++++|.++. .+..+..+++|++|++
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~L  119 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLT-GIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDI  119 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCT-TGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEEC
T ss_pred             hhcCCccEEeccCCCccChH-HHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEe
Confidence            45677888888888888777 577888888888888877777777888888888888888874 5666778888888888


Q ss_pred             cCCcCCCCCchhhhcCCCCCcEEEecccc-ccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEE
Q 042164          131 SNCWSLEVIPPNVISKLSRLEELYMDISF-SQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       131 ~~~~~~~~~~~~~l~~~~~L~~L~l~~n~-~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      ++|.+.+..+.. ++.+++|++|++++|. ++          ....+..+++|+.|++++|.+..++....+++|+.|++
T Consensus       120 s~n~i~~~~~~~-l~~l~~L~~L~L~~n~~i~----------~~~~l~~l~~L~~L~l~~n~i~~~~~l~~l~~L~~L~l  188 (197)
T 4ezg_A          120 SHSAHDDSILTK-INTLPKVNSIDLSYNGAIT----------DIMPLKTLPELKSLNIQFDGVHDYRGIEDFPKLNQLYA  188 (197)
T ss_dssp             CSSBCBGGGHHH-HTTCSSCCEEECCSCTBCC----------CCGGGGGCSSCCEEECTTBCCCCCTTGGGCSSCCEEEE
T ss_pred             cCCccCcHhHHH-HhhCCCCCEEEccCCCCcc----------ccHhhcCCCCCCEEECCCCCCcChHHhccCCCCCEEEe
Confidence            888744444444 7788888888888887 55          12357778888888888888887774337888888888


Q ss_pred             Eeccc
Q 042164          210 CIGNK  214 (235)
Q Consensus       210 ~~~~~  214 (235)
                      . ++.
T Consensus       189 ~-~N~  192 (197)
T 4ezg_A          189 F-SQT  192 (197)
T ss_dssp             C-BC-
T ss_pred             e-Ccc
Confidence            3 443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.81  E-value=2.8e-19  Score=145.38  Aligned_cols=173  Identities=20%  Similarity=0.229  Sum_probs=137.4

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhh-CCCCCcEEeecCccCCCCC-hhhcCCccCcEEecc
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFE-GTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLD   86 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~   86 (235)
                      -+.++++++.++.+|..+ .+.++.|++  .++.+..++...|. .+.+|++|++++|.++.++ ..|..+++|++|+++
T Consensus        20 ~~~l~c~~~~l~~iP~~~-~~~l~~L~L--s~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   96 (361)
T 2xot_A           20 SNILSCSKQQLPNVPQSL-PSYTALLDL--SHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLS   96 (361)
T ss_dssp             TTEEECCSSCCSSCCSSC-CTTCSEEEC--CSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEEeCCCCcCccCccC-CCCCCEEEC--CCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECC
Confidence            357899999999888765 456888999  55566667766666 8899999999999998865 468889999999999


Q ss_pred             CcCCCCc--cccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCchhhh---cCCCCCcEEEeccccc
Q 042164           87 WCQLEDV--AAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVI---SKLSRLEELYMDISFS  160 (235)
Q Consensus        87 ~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~l---~~~~~L~~L~l~~n~~  160 (235)
                      +|.+..+  ..+..+++|++|++++|.++.+ +..+..+++|++|++++|. +..++..++   ..+++|+.|++++|.+
T Consensus        97 ~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~~~~l~~L~~L~L~~N~l  175 (361)
T 2xot_A           97 SNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQ-ISRFPVELIKDGNKLPKLMLLDLSSNKL  175 (361)
T ss_dssp             SSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC-CCSCCGGGTC----CTTCCEEECCSSCC
T ss_pred             CCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcccCCEEECCCCc-CCeeCHHHhcCcccCCcCCEEECCCCCC
Confidence            9998877  5688899999999999999866 4568889999999999998 667777655   5688999999999988


Q ss_pred             cccccCCCCCccchhcccCCC--ccceeeecCCCC
Q 042164          161 QWDKVEGGSNASLAELKGLSK--LTTLNIQVPDAQ  193 (235)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~~~--L~~L~l~~n~~~  193 (235)
                      +..        ....+..++.  ++.|++++|++.
T Consensus       176 ~~l--------~~~~~~~l~~~~l~~l~l~~N~~~  202 (361)
T 2xot_A          176 KKL--------PLTDLQKLPAWVKNGLYLHNNPLE  202 (361)
T ss_dssp             CCC--------CHHHHHHSCHHHHTTEECCSSCEE
T ss_pred             Ccc--------CHHHhhhccHhhcceEEecCCCcc
Confidence            843        3345666666  478899998875

>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=99.81  E-value=1.5e-18  Score=132.46  Aligned_cols=149  Identities=24%  Similarity=0.300  Sum_probs=106.3

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCcEEeccC
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDW   87 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~~L~l~~   87 (235)
                      -+.++++++.+..+|..+ .++|+.|++  .++.+..++...|..+++|++|++++|.++.++. .+..+++|++|++++
T Consensus        21 ~~~v~c~~~~l~~ip~~~-~~~L~~L~L--s~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~   97 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAGI-PTNAQILYL--HDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGT   97 (229)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEEC--CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEeEccCCCcCccCCCC-CCCCCEEEc--CCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCC
Confidence            456777777777777665 477778887  4444444544446777788888888887777654 356777888888888


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      |.+..+  ..+..+++|++|++++|.++.+|..+..+++|++|++++|. +..++...+..+++|+.+++++|.+.
T Consensus        98 N~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           98 NQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ-LKSIPHGAFDRLSSLTHAYLFGNPWD  172 (229)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECTTSCBC
T ss_pred             CcCCccChhHhCcchhhCeEeccCCcccccCcccccCCCCCEEECCCCc-CCccCHHHHhCCCCCCEEEeeCCCcc
Confidence            777766  44667777777888777777777777777777777777776 55565555677777777777777766

>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=99.81  E-value=1e-18  Score=132.53  Aligned_cols=149  Identities=21%  Similarity=0.270  Sum_probs=117.7

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEeccCc
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWC   88 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~~   88 (235)
                      +.++++++.++.+|..+ .++++.|++  .++.+..++...|..+++|++|++++|.++.+ |..|..+++|++|++++|
T Consensus        14 ~~v~c~~~~l~~iP~~l-~~~l~~L~l--~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N   90 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNL-PETITEIRL--EQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN   90 (220)
T ss_dssp             TEEECTTSCCSSCCSSC-CTTCCEEEC--CSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSS
T ss_pred             CEEEcCCCCcCcCCCcc-CcCCCEEEC--CCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCC
Confidence            56888888888888766 378888888  55566667766678888899999998888875 667888888888888888


Q ss_pred             CCCCc--cccCCCCCCcEEEecCCCCCCcc-hhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccc
Q 042164           89 QLEDV--AAIGQLKKLEILSFRGSNIKQLP-LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW  162 (235)
Q Consensus        89 ~l~~~--~~~~~l~~L~~L~l~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  162 (235)
                      .+..+  ..+..+++|++|++++|.++.++ ..+..+++|++|++++|. +..++...+..+++|+.+++++|.+..
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~~~c  166 (220)
T 2v9t_B           91 KITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNK-LQTIAKGTFSPLRAIQTMHLAQNPFIC  166 (220)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCTTTTTTCTTCCEEECCSSCEEC
T ss_pred             cCCccCHhHccCCCCCCEEECCCCCCCEeCHHHcCCCCCCCEEECCCCc-CCEECHHHHhCCCCCCEEEeCCCCcCC
Confidence            88877  44678888888888888888664 457788888888888887 555665557788888888888888763

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.80  E-value=2.1e-19  Score=139.95  Aligned_cols=166  Identities=20%  Similarity=0.107  Sum_probs=139.3

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEE
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILS  106 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~  106 (235)
                      .+.++..+.+  ..+.+..++.  +..+++|++|++++|.++.++ .+..+++|++|++++|.+.++..++.+++|++|+
T Consensus        17 ~l~~l~~l~l--~~~~i~~~~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~   91 (263)
T 1xeu_A           17 GLANAVKQNL--GKQSVTDLVS--QKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQISDLSPLKDLTKLEELS   91 (263)
T ss_dssp             HHHHHHHHHH--TCSCTTSEEC--HHHHTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEE
T ss_pred             HHHHHHHHHh--cCCCcccccc--hhhcCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCccCCChhhccCCCCCEEE
Confidence            4556667777  4555555553  578999999999999999887 6889999999999999999985599999999999


Q ss_pred             ecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCcccee
Q 042164          107 FRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLN  186 (235)
Q Consensus       107 l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~  186 (235)
                      +++|.++.++....  ++|++|++++|. +..++.  +..+++|++|++++|.+++.          ..++.+++|+.|+
T Consensus        92 L~~N~l~~l~~~~~--~~L~~L~L~~N~-l~~~~~--l~~l~~L~~L~Ls~N~i~~~----------~~l~~l~~L~~L~  156 (263)
T 1xeu_A           92 VNRNRLKNLNGIPS--ACLSRLFLDNNE-LRDTDS--LIHLKNLEILSIRNNKLKSI----------VMLGFLSKLEVLD  156 (263)
T ss_dssp             CCSSCCSCCTTCCC--SSCCEEECCSSC-CSBSGG--GTTCTTCCEEECTTSCCCBC----------GGGGGCTTCCEEE
T ss_pred             CCCCccCCcCcccc--CcccEEEccCCc-cCCChh--hcCcccccEEECCCCcCCCC----------hHHccCCCCCEEE
Confidence            99999998876433  899999999998 555653  89999999999999999832          4688899999999


Q ss_pred             eecCCCCCCCccccccccceeEEEec
Q 042164          187 IQVPDAQILPQEWVFVELQSYRICIG  212 (235)
Q Consensus       187 l~~n~~~~~p~~~~~~~L~~l~l~~~  212 (235)
                      +++|.+..++....+++|+.|+++.+
T Consensus       157 L~~N~i~~~~~l~~l~~L~~L~l~~N  182 (263)
T 1xeu_A          157 LHGNEITNTGGLTRLKKVNWIDLTGQ  182 (263)
T ss_dssp             CTTSCCCBCTTSTTCCCCCEEEEEEE
T ss_pred             CCCCcCcchHHhccCCCCCEEeCCCC
Confidence            99999998843338899999999643

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

Probab=99.80  E-value=6.6e-20  Score=149.15  Aligned_cols=201  Identities=13%  Similarity=0.176  Sum_probs=142.5

Q ss_pred             cCCCcEEecCCCCCCCCCC-----cC-CCC-CccEEEeccCCCCCcccchhhhhCC-----CCCcEEeecCccCCCCChh
Q 042164            6 RKGPIAISLPQRDIQELPE-----RL-QCP-NLQLFLLFREGNGPMQISDHFFEGT-----EELKVLDFTGIHFSSLPSS   73 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~-----~~-~l~-~L~~L~l~~~~~~~~~~~~~~~~~~-----~~L~~L~l~~~~~~~~~~~   73 (235)
                      .+++++|++++|.++.++.     .+ .++ +|++|++ +. +.+.......+..+     +.|++|++++|.++..+..
T Consensus        21 ~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L-s~-N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~   98 (362)
T 3goz_A           21 PHGVTSLDLSLNNLYSISTVELIQAFANTPASVTSLNL-SG-NSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSD   98 (362)
T ss_dssp             CTTCCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEEC-CS-SCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHH
T ss_pred             CCCceEEEccCCCCChHHHHHHHHHHHhCCCceeEEEC-cC-CCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHH
Confidence            4569999999999987663     33 677 8999999 44 45544433334443     8999999999999865432


Q ss_pred             -----hcCC-ccCcEEeccCcCCCCc------cccCC-CCCCcEEEecCCCCC-----CcchhhccCC-CCcEEcccCCc
Q 042164           74 -----LGRL-INLQTLCLDWCQLEDV------AAIGQ-LKKLEILSFRGSNIK-----QLPLEIGQLT-RLQLLDLSNCW  134 (235)
Q Consensus        74 -----l~~l-~~L~~L~l~~~~l~~~------~~~~~-l~~L~~L~l~~~~~~-----~~~~~~~~l~-~L~~L~l~~~~  134 (235)
                           +..+ ++|++|++++|.+...      ..+.. ..+|++|++++|.++     .++..+..++ +|++|++++|.
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                 5555 8999999999998854      23444 369999999999888     3444556665 99999999998


Q ss_pred             CCCCCchh---hhcCC-CCCcEEEeccccccccccCCCCCccchhccc-CCCccceeeecCCCCCCCccc------cccc
Q 042164          135 SLEVIPPN---VISKL-SRLEELYMDISFSQWDKVEGGSNASLAELKG-LSKLTTLNIQVPDAQILPQEW------VFVE  203 (235)
Q Consensus       135 ~~~~~~~~---~l~~~-~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~-~~~L~~L~l~~n~~~~~p~~~------~~~~  203 (235)
                      +.+..+..   .+..+ ++|++|++++|.+...    ........+.. .++|++|++++|.+...+...      .+++
T Consensus       179 l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~----~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~  254 (362)
T 3goz_A          179 LASKNCAELAKFLASIPASVTSLDLSANLLGLK----SYAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLKH  254 (362)
T ss_dssp             GGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGS----CHHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTTTTT
T ss_pred             CchhhHHHHHHHHHhCCCCCCEEECCCCCCChh----HHHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhcCCC
Confidence            43333322   24455 5899999999998843    11123445555 458999999999988655411      5678


Q ss_pred             cceeEEEec
Q 042164          204 LQSYRICIG  212 (235)
Q Consensus       204 L~~l~l~~~  212 (235)
                      |+.|+++.+
T Consensus       255 L~~L~L~~n  263 (362)
T 3goz_A          255 LQTVYLDYD  263 (362)
T ss_dssp             CSEEEEEHH
T ss_pred             ccEEEeccC
Confidence            999998644

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.80  E-value=7.1e-19  Score=152.33  Aligned_cols=156  Identities=24%  Similarity=0.263  Sum_probs=129.5

Q ss_pred             ccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCc
Q 042164            5 IRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQ   81 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~   81 (235)
                      .++++++|+|++|.|+.+++. + .+++|+.|++  .++.+..+++..|..+++|++|+|++|.++.+|+ .|..+++|+
T Consensus        50 lp~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~L--s~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~  127 (635)
T 4g8a_A           50 LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDL--SRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ  127 (635)
T ss_dssp             SCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEC--TTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCC
T ss_pred             CCcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEEC--CCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCC
Confidence            456899999999999998765 3 8999999999  6667777888888999999999999999999874 589999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCC--cchhhccCCCCcEEcccCCcCCCCCchhhhcCCCC----CcEE
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQ--LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSR----LEEL  153 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~--~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~----L~~L  153 (235)
                      +|++++|.+.++  ..++.+++|++|++++|.++.  .|..++.+++|++|++++|. +..+++..+..+.+    ...+
T Consensus       128 ~L~Ls~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~l~~L~~l~~~~~~~  206 (635)
T 4g8a_A          128 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSL  206 (635)
T ss_dssp             EEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSC-CCEECGGGGHHHHTCTTCCCEE
T ss_pred             EEECCCCcCCCCChhhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCcc-ccccccccccchhhhhhhhhhh
Confidence            999999999988  568999999999999999984  56778899999999999998 44444333443332    4468


Q ss_pred             Eecccccccc
Q 042164          154 YMDISFSQWD  163 (235)
Q Consensus       154 ~l~~n~~~~~  163 (235)
                      +++.|.+...
T Consensus       207 ~ls~n~l~~i  216 (635)
T 4g8a_A          207 DLSLNPMNFI  216 (635)
T ss_dssp             ECTTCCCCEE
T ss_pred             hcccCccccc
Confidence            8888877643

>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=99.80  E-value=8.7e-20  Score=146.72  Aligned_cols=194  Identities=16%  Similarity=0.213  Sum_probs=134.5

Q ss_pred             CCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccCcEEe
Q 042164            7 KGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINLQTLC   84 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L~~L~   84 (235)
                      ++++.++++++.+...+... .+++|+.|++ +.+..........+..+++|++|++++|.++. .+..+..+++|++|+
T Consensus        70 ~~l~~L~l~~n~l~~~~~~~~~~~~L~~L~L-~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~  148 (336)
T 2ast_B           70 QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDL-SNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLN  148 (336)
T ss_dssp             TTCSEEECTTCEECSCCCSCCCCBCCCEEEC-TTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEE
T ss_pred             ccceEEEcCCccccccchhhccCCCCCEEEc-cCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEE
Confidence            67788888888877554444 7888888888 54443333122345778888888888888774 566777888888888


Q ss_pred             ccCc-CCCC--c-cccCCCCCCcEEEecCC-CCCC--cchhhccCC-CCcEEcccCCc--CC-CCCchhhhcCCCCCcEE
Q 042164           85 LDWC-QLED--V-AAIGQLKKLEILSFRGS-NIKQ--LPLEIGQLT-RLQLLDLSNCW--SL-EVIPPNVISKLSRLEEL  153 (235)
Q Consensus        85 l~~~-~l~~--~-~~~~~l~~L~~L~l~~~-~~~~--~~~~~~~l~-~L~~L~l~~~~--~~-~~~~~~~l~~~~~L~~L  153 (235)
                      +++| .+++  + ..+..+++|++|++++| .++.  ++..+..++ +|++|++++|.  +. +.++. .+..+++|++|
T Consensus       149 L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~-~~~~~~~L~~L  227 (336)
T 2ast_B          149 LSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLST-LVRRCPNLVHL  227 (336)
T ss_dssp             CTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHH-HHHHCTTCSEE
T ss_pred             CCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHH-HHhhCCCCCEE
Confidence            8888 5663  4 44677888888888888 7773  566677888 88888888884  22 33343 36778888888


Q ss_pred             Eecccc-ccccccCCCCCccchhcccCCCccceeeecCC-CC-CCCccc-cccccceeEEE
Q 042164          154 YMDISF-SQWDKVEGGSNASLAELKGLSKLTTLNIQVPD-AQ-ILPQEW-VFVELQSYRIC  210 (235)
Q Consensus       154 ~l~~n~-~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~-~~-~~p~~~-~~~~L~~l~l~  210 (235)
                      ++++|. ++..        .+..+..+++|+.|++++|. +. .....+ .+++|+.|++.
T Consensus       228 ~l~~~~~l~~~--------~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~  280 (336)
T 2ast_B          228 DLSDSVMLKND--------CFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVF  280 (336)
T ss_dssp             ECTTCTTCCGG--------GGGGGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECT
T ss_pred             eCCCCCcCCHH--------HHHHHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCEEecc
Confidence            888887 4422        45566777888888888875 22 111122 67778888774

>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=99.80  E-value=1.8e-18  Score=131.11  Aligned_cols=150  Identities=16%  Similarity=0.258  Sum_probs=110.1

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCccc-chhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCcEEecc
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQI-SDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLD   86 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~-~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~~L~l~   86 (235)
                      -+.++++++.++.+|..+ ...++.|++  .++.+..+ +...|..+++|++|++++|.++.+++ .|..+++|++|+++
T Consensus        13 ~~~l~~s~n~l~~iP~~~-~~~~~~L~L--~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls   89 (220)
T 2v70_A           13 GTTVDCSNQKLNKIPEHI-PQYTAELRL--NNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLT   89 (220)
T ss_dssp             TTEEECCSSCCSSCCSCC-CTTCSEEEC--CSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC
T ss_pred             CCEeEeCCCCcccCccCC-CCCCCEEEc--CCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECC
Confidence            357888888888887765 455678888  44444444 44556788888888888888887654 67788888888888


Q ss_pred             CcCCCCc--cccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccc
Q 042164           87 WCQLEDV--AAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW  162 (235)
Q Consensus        87 ~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  162 (235)
                      +|.+..+  ..++.+++|++|++++|.++.+ |..+..+++|++|++++|. +..+++..+..+++|+.|++++|.+..
T Consensus        90 ~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~c  167 (220)
T 2v70_A           90 SNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQ-ITTVAPGAFDTLHSLSTLNLLANPFNC  167 (220)
T ss_dssp             SSCCCCCCGGGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTTSC-CCCBCTTTTTTCTTCCEEECCSCCEEC
T ss_pred             CCccCccCHhHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCCCc-CCEECHHHhcCCCCCCEEEecCcCCcC
Confidence            8888776  4577888888888888888865 4557778888888888887 444543447778888888888887763

>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=99.80  E-value=9.1e-19  Score=130.53  Aligned_cols=151  Identities=19%  Similarity=0.237  Sum_probs=116.4

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCC--ccccCCCCCCcE
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLED--VAAIGQLKKLEI  104 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~--~~~~~~l~~L~~  104 (235)
                      .+++|+.|++  .++.+..++ . +..+++|++|++++|.++.++ .+..+++|++|++++|.+..  ...++.+++|++
T Consensus        42 ~l~~L~~L~l--~~n~i~~l~-~-l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~  116 (197)
T 4ezg_A           42 QMNSLTYITL--ANINVTDLT-G-IEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTL  116 (197)
T ss_dssp             HHHTCCEEEE--ESSCCSCCT-T-GGGCTTCSEEEEESCCCSCCG-GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCE
T ss_pred             hcCCccEEec--cCCCccChH-H-HhcCCCCCEEEccCCCCCcch-hhhcCCCCCEEEeECCccCcccChhhcCCCCCCE
Confidence            5778888888  444455566 3 578888889999888776654 57788889999998888885  377888889999


Q ss_pred             EEecCCCCCC-cchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCcc
Q 042164          105 LSFRGSNIKQ-LPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLT  183 (235)
Q Consensus       105 L~l~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~  183 (235)
                      |++++|.++. .+..+..+++|++|++++|..++.++.  +..+++|++|++++|.++.          ...+..+++|+
T Consensus       117 L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~--l~~l~~L~~L~l~~n~i~~----------~~~l~~l~~L~  184 (197)
T 4ezg_A          117 LDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQFDGVHD----------YRGIEDFPKLN  184 (197)
T ss_dssp             EECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCGG--GGGCSSCCEEECTTBCCCC----------CTTGGGCSSCC
T ss_pred             EEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccHh--hcCCCCCCEEECCCCCCcC----------hHHhccCCCCC
Confidence            9999998884 566788889999999999875666763  7888999999999998872          23677888999


Q ss_pred             ceeeecCCCCC
Q 042164          184 TLNIQVPDAQI  194 (235)
Q Consensus       184 ~L~l~~n~~~~  194 (235)
                      .|++++|.+.+
T Consensus       185 ~L~l~~N~i~~  195 (197)
T 4ezg_A          185 QLYAFSQTIGG  195 (197)
T ss_dssp             EEEECBC----
T ss_pred             EEEeeCcccCC
Confidence            99999988753

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.80  E-value=2.4e-18  Score=143.85  Aligned_cols=118  Identities=16%  Similarity=0.233  Sum_probs=65.6

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .++++++|++++|.++.+|..  .++|+.|++  .++.+..++.  ++.+++|++|++++|.++.+|...   ++|++|+
T Consensus       151 ~l~~L~~L~l~~N~l~~lp~~--~~~L~~L~L--~~n~l~~l~~--~~~l~~L~~L~l~~N~l~~l~~~~---~~L~~L~  221 (454)
T 1jl5_A          151 NSSFLKIIDVDNNSLKKLPDL--PPSLEFIAA--GNNQLEELPE--LQNLPFLTAIYADNNSLKKLPDLP---LSLESIV  221 (454)
T ss_dssp             TCTTCCEEECCSSCCSCCCCC--CTTCCEEEC--CSSCCSSCCC--CTTCTTCCEEECCSSCCSSCCCCC---TTCCEEE
T ss_pred             CCCCCCEEECCCCcCcccCCC--cccccEEEC--cCCcCCcCcc--ccCCCCCCEEECCCCcCCcCCCCc---CcccEEE
Confidence            345677777777777666544  346777777  3333444542  466666666666666666554321   3556666


Q ss_pred             ccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCc
Q 042164           85 LDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCW  134 (235)
Q Consensus        85 l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~  134 (235)
                      +++|.+..++.++.+++|++|++++|.++.+|..   +++|+.|++++|.
T Consensus       222 l~~n~l~~lp~~~~l~~L~~L~l~~N~l~~l~~~---~~~L~~L~l~~N~  268 (454)
T 1jl5_A          222 AGNNILEELPELQNLPFLTTIYADNNLLKTLPDL---PPSLEALNVRDNY  268 (454)
T ss_dssp             CCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCSC---CTTCCEEECCSSC
T ss_pred             CcCCcCCcccccCCCCCCCEEECCCCcCCccccc---ccccCEEECCCCc
Confidence            6666555554455555566666655555544431   2344444444444

>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=99.79  E-value=3.5e-20  Score=151.96  Aligned_cols=200  Identities=16%  Similarity=0.123  Sum_probs=115.9

Q ss_pred             cCCCcEEecCCCCCCC-----CCCcC-CCCCccEEEeccCCC---CCcccchhh------hhCCCCCcEEeecCccCCC-
Q 042164            6 RKGPIAISLPQRDIQE-----LPERL-QCPNLQLFLLFREGN---GPMQISDHF------FEGTEELKVLDFTGIHFSS-   69 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~-----i~~~~-~l~~L~~L~l~~~~~---~~~~~~~~~------~~~~~~L~~L~l~~~~~~~-   69 (235)
                      .+++++|++++|.+..     ++..+ .+++|+.|++ +.+.   ....+|..+      +..+++|++|++++|.++. 
T Consensus        31 ~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~L-s~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~  109 (386)
T 2ca6_A           31 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEF-SDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  109 (386)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEEC-CSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             CCCccEEECCCCCCCHHHHHHHHHHHHhCCCccEEeC-cccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHH
Confidence            4567788888877762     23333 6777777777 3331   111223322      3567777777777777764 


Q ss_pred             ----CChhhcCCccCcEEeccCcCCCCc------cccCCC---------CCCcEEEecCCCCC--Ccc---hhhccCCCC
Q 042164           70 ----LPSSLGRLINLQTLCLDWCQLEDV------AAIGQL---------KKLEILSFRGSNIK--QLP---LEIGQLTRL  125 (235)
Q Consensus        70 ----~~~~l~~l~~L~~L~l~~~~l~~~------~~~~~l---------~~L~~L~l~~~~~~--~~~---~~~~~l~~L  125 (235)
                          ++..+..+++|++|++++|.+...      ..+..+         ++|++|++++|.++  .++   ..+..+++|
T Consensus       110 ~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L  189 (386)
T 2ca6_A          110 AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLL  189 (386)
T ss_dssp             THHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCc
Confidence                455667777777777777776522      222233         67777777777765  333   345566777


Q ss_pred             cEEcccCCcCCCC----CchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCC-----CC
Q 042164          126 QLLDLSNCWSLEV----IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQI-----LP  196 (235)
Q Consensus       126 ~~L~l~~~~~~~~----~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-----~p  196 (235)
                      ++|++++|.+...    +.+..+..+++|+.|++++|.++..    .....+..+..+++|+.|++++|.+..     ++
T Consensus       190 ~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~----g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~  265 (386)
T 2ca6_A          190 HTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHL----GSSALAIALKSWPNLRELGLNDCLLSARGAAAVV  265 (386)
T ss_dssp             CEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHH----HHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHH
T ss_pred             CEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcH----HHHHHHHHHccCCCcCEEECCCCCCchhhHHHHH
Confidence            7777777762211    1221256667777777777766411    001234455666667777777666653     23


Q ss_pred             ccc---cccccceeEEE
Q 042164          197 QEW---VFVELQSYRIC  210 (235)
Q Consensus       197 ~~~---~~~~L~~l~l~  210 (235)
                      ..+   .+++|+.|+++
T Consensus       266 ~~l~~~~~~~L~~L~L~  282 (386)
T 2ca6_A          266 DAFSKLENIGLQTLRLQ  282 (386)
T ss_dssp             HHHHTCSSCCCCEEECC
T ss_pred             HHHhhccCCCeEEEECc
Confidence            332   15666666663

>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=99.79  E-value=3.4e-20  Score=149.10  Aligned_cols=213  Identities=17%  Similarity=0.139  Sum_probs=161.0

Q ss_pred             CCCcEEecCCCCCCCCCCcC-CC--CCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC--CChhhcCCccCc
Q 042164            7 KGPIAISLPQRDIQELPERL-QC--PNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS--LPSSLGRLINLQ   81 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~-~l--~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~--~~~~l~~l~~L~   81 (235)
                      ...++++++++.+.  +..+ .+  ++++.+++  .++.+...+... ..+++|++|++++|.++.  ++..+..+++|+
T Consensus        47 ~~~~~l~l~~~~~~--~~~~~~~~~~~l~~L~l--~~n~l~~~~~~~-~~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~  121 (336)
T 2ast_B           47 SLWQTLDLTGKNLH--PDVTGRLLSQGVIAFRC--PRSFMDQPLAEH-FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQ  121 (336)
T ss_dssp             TTSSEEECTTCBCC--HHHHHHHHHTTCSEEEC--TTCEECSCCCSC-CCCBCCCEEECTTCEECHHHHHHHHTTBCCCS
T ss_pred             hhheeeccccccCC--HHHHHhhhhccceEEEc--CCccccccchhh-ccCCCCCEEEccCCCcCHHHHHHHHhhCCCCC
Confidence            34788999988776  2222 34  88999999  444444444443 578999999999999874  777789999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCC-CCC--CcchhhccCCCCcEEcccCC-cCCCC-CchhhhcCCC-CCcEE
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGS-NIK--QLPLEIGQLTRLQLLDLSNC-WSLEV-IPPNVISKLS-RLEEL  153 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~-~~~--~~~~~~~~l~~L~~L~l~~~-~~~~~-~~~~~l~~~~-~L~~L  153 (235)
                      +|++++|.+.+.  ..++.+++|++|++++| .++  .++..+..+++|++|++++| .+.+. ++. .+..++ +|++|
T Consensus       122 ~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~-~~~~l~~~L~~L  200 (336)
T 2ast_B          122 NLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQV-AVAHVSETITQL  200 (336)
T ss_dssp             EEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHH-HHHHSCTTCCEE
T ss_pred             EEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHH-HHHhcccCCCEE
Confidence            999999998743  77888999999999999 677  46777889999999999999 63332 333 478899 99999


Q ss_pred             Eecccc--ccccccCCCCCccchhcccCCCccceeeecCC-CC-CCCccc-cccccceeEEEecccccccchhhhhhhhh
Q 042164          154 YMDISF--SQWDKVEGGSNASLAELKGLSKLTTLNIQVPD-AQ-ILPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRL  228 (235)
Q Consensus       154 ~l~~n~--~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~-~~-~~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l  228 (235)
                      ++++|.  ++..       ..+..+..+++|+.|++++|. ++ ..+..+ .+++|+.|++..+....+.  ....++++
T Consensus       201 ~l~~~~~~~~~~-------~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~~~~--~~~~l~~~  271 (336)
T 2ast_B          201 NLSGYRKNLQKS-------DLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPE--TLLELGEI  271 (336)
T ss_dssp             ECCSCGGGSCHH-------HHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGG--GGGGGGGC
T ss_pred             EeCCCcccCCHH-------HHHHHHhhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCCCHH--HHHHHhcC
Confidence            999994  4311       345677789999999999999 55 555555 8899999999655433211  12356777


Q ss_pred             ccccCC
Q 042164          229 MKLQGL  234 (235)
Q Consensus       229 ~~L~~L  234 (235)
                      ++|+.|
T Consensus       272 ~~L~~L  277 (336)
T 2ast_B          272 PTLKTL  277 (336)
T ss_dssp             TTCCEE
T ss_pred             CCCCEE
Confidence            777765

>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=99.78  E-value=3.3e-18  Score=130.45  Aligned_cols=151  Identities=20%  Similarity=0.216  Sum_probs=120.7

Q ss_pred             CCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEE
Q 042164           29 PNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEIL  105 (235)
Q Consensus        29 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L  105 (235)
                      ...+.++.  .+..+..+|..   -.++|++|++++|.++.+ +..+..+++|++|++++|.+..+  ..+..+++|++|
T Consensus        19 Cs~~~v~c--~~~~l~~ip~~---~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L   93 (229)
T 3e6j_A           19 CSGTTVDC--RSKRHASVPAG---IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVL   93 (229)
T ss_dssp             EETTEEEC--TTSCCSSCCSC---CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEE
T ss_pred             EeCCEeEc--cCCCcCccCCC---CCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEE
Confidence            34556676  66666777764   348889999999999875 56688899999999999998877  557888999999


Q ss_pred             EecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccc
Q 042164          106 SFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTT  184 (235)
Q Consensus       106 ~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~  184 (235)
                      ++++|.++.++.. +..+++|++|++++|. +..+|.. +..+++|++|++++|.++..        ....+..+++|+.
T Consensus        94 ~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~N~-l~~lp~~-~~~l~~L~~L~L~~N~l~~~--------~~~~~~~l~~L~~  163 (229)
T 3e6j_A           94 DLGTNQLTVLPSAVFDRLVHLKELFMCCNK-LTELPRG-IERLTHLTHLALDQNQLKSI--------PHGAFDRLSSLTH  163 (229)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCSCCTT-GGGCTTCSEEECCSSCCCCC--------CTTTTTTCTTCCE
T ss_pred             ECCCCcCCccChhHhCcchhhCeEeccCCc-ccccCcc-cccCCCCCEEECCCCcCCcc--------CHHHHhCCCCCCE
Confidence            9999999877655 6788999999999998 6678776 68889999999999988733        2356777889999


Q ss_pred             eeeecCCCCC
Q 042164          185 LNIQVPDAQI  194 (235)
Q Consensus       185 L~l~~n~~~~  194 (235)
                      |++++|++..
T Consensus       164 L~l~~N~~~c  173 (229)
T 3e6j_A          164 AYLFGNPWDC  173 (229)
T ss_dssp             EECTTSCBCT
T ss_pred             EEeeCCCccC
Confidence            9999998873

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.78  E-value=3e-18  Score=128.69  Aligned_cols=150  Identities=21%  Similarity=0.275  Sum_probs=128.8

Q ss_pred             cccCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccC
Q 042164            4 TIRKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINL   80 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L   80 (235)
                      ..++++++|++++|.++.++...  .+++|+.|++  .++.+..++...|..+++|++|++++|.++.+++ .+..+++|
T Consensus        25 ~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l--~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L  102 (208)
T 2o6s_A           25 GIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYL--GGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQL  102 (208)
T ss_dssp             CCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEEC--CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTC
T ss_pred             CCCCCCcEEEcCCCccCcCChhhhcccccCcEEEC--CCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCC
Confidence            34578999999999999887754  8999999999  5566667787777899999999999999998765 46899999


Q ss_pred             cEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecc
Q 042164           81 QTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDI  157 (235)
Q Consensus        81 ~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~  157 (235)
                      ++|++++|.+..+  ..++.+++|++|++++|.++.++.. +..+++|++|++++|.+.        +.+++|+.++++.
T Consensus       103 ~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~--------~~~~~l~~L~~~~  174 (208)
T 2o6s_A          103 KELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWD--------CTCPGIRYLSEWI  174 (208)
T ss_dssp             CEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCSCCBC--------CCTTTTHHHHHHH
T ss_pred             CEEEcCCCcCcccCHhHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecCCCee--------cCCCCHHHHHHHH
Confidence            9999999999987  4578999999999999999987765 788999999999999632        4567799999999


Q ss_pred             cccccc
Q 042164          158 SFSQWD  163 (235)
Q Consensus       158 n~~~~~  163 (235)
                      |.+++.
T Consensus       175 n~~~g~  180 (208)
T 2o6s_A          175 NKHSGV  180 (208)
T ss_dssp             HHCTTT
T ss_pred             HhCCce
Confidence            988854

>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=99.78  E-value=1.3e-18  Score=140.82  Aligned_cols=210  Identities=19%  Similarity=0.151  Sum_probs=162.5

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CCh-hhcCCccCcE-Eecc
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPS-SLGRLINLQT-LCLD   86 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~-~l~~l~~L~~-L~l~   86 (235)
                      +.++.+++.+++||..+ .+++++|++  .++.+..++...|+.+++|++|+|++|.+.+ ++. .|..++++++ +...
T Consensus        12 ~~v~C~~~~Lt~iP~~l-~~~l~~L~L--s~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~   88 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL-PRNAIELRF--VLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK   88 (350)
T ss_dssp             TEEEEESTTCCSCCTTC-CTTCSEEEE--ESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEE
T ss_pred             CEEEecCCCCCccCcCc-CCCCCEEEc--cCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhccc
Confidence            67899999999999877 578999999  6677788998878999999999999999865 654 5788888776 4556


Q ss_pred             CcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCC-CCcEEEeccccccc
Q 042164           87 WCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLS-RLEELYMDISFSQW  162 (235)
Q Consensus        87 ~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~-~L~~L~l~~n~~~~  162 (235)
                      .|.+..+  ..++.+++|++|++++|.++.++.. +.....+..+++.++..+..++...+..+. .++.|++++|.++.
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~  168 (350)
T 4ay9_X           89 ANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQE  168 (350)
T ss_dssp             ETTCCEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCE
T ss_pred             CCcccccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccC
Confidence            6888877  6789999999999999999977654 556778889998775447777766566664 68999999999983


Q ss_pred             cccCCCCCccchhcccCCCccceeee-cCCCCCCCccc--cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          163 DKVEGGSNASLAELKGLSKLTTLNIQ-VPDAQILPQEW--VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~L~~L~l~-~n~~~~~p~~~--~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      .         ........+|++++++ +|.++.+|...  .+++|+.|+++ ++... .. .+.++.++++|..+
T Consensus       169 i---------~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs-~N~l~-~l-p~~~~~~L~~L~~l  231 (350)
T 4ay9_X          169 I---------HNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDIS-RTRIH-SL-PSYGLENLKKLRAR  231 (350)
T ss_dssp             E---------CTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECT-TSCCC-CC-CSSSCTTCCEEECT
T ss_pred             C---------ChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcC-CCCcC-cc-ChhhhccchHhhhc
Confidence            3         3333345689999997 57789999865  88999999995 55542 22 23456666666543

>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=99.78  E-value=7.2e-18  Score=140.99  Aligned_cols=102  Identities=23%  Similarity=0.318  Sum_probs=56.1

Q ss_pred             hhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcc
Q 042164           51 FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL  130 (235)
Q Consensus        51 ~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l  130 (235)
                      |+.+++|++|++++|.++.+|..   .++|++|++++|.+.+++.++.+++|++|++++|.++.+|..   .++|++|++
T Consensus       149 ~~~l~~L~~L~l~~N~l~~lp~~---~~~L~~L~L~~n~l~~l~~~~~l~~L~~L~l~~N~l~~l~~~---~~~L~~L~l  222 (454)
T 1jl5_A          149 LQNSSFLKIIDVDNNSLKKLPDL---PPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDL---PLSLESIVA  222 (454)
T ss_dssp             CTTCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSSCCCC---CTTCCEEEC
T ss_pred             cCCCCCCCEEECCCCcCcccCCC---cccccEEECcCCcCCcCccccCCCCCCEEECCCCcCCcCCCC---cCcccEEEC
Confidence            35555555555555555554432   135555555555555554455556666666666655554432   235666666


Q ss_pred             cCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          131 SNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       131 ~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      ++|. ...+|.  ++.+++|++|++++|.++
T Consensus       223 ~~n~-l~~lp~--~~~l~~L~~L~l~~N~l~  250 (454)
T 1jl5_A          223 GNNI-LEELPE--LQNLPFLTTIYADNNLLK  250 (454)
T ss_dssp             CSSC-CSSCCC--CTTCTTCCEEECCSSCCS
T ss_pred             cCCc-CCcccc--cCCCCCCCEEECCCCcCC
Confidence            6665 335552  566666666666666665

>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=99.78  E-value=2.1e-21  Score=166.33  Aligned_cols=190  Identities=21%  Similarity=0.237  Sum_probs=117.7

Q ss_pred             cCCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCC-------------CcccchhhhhCCCCCcEEe-ecCccCCCC
Q 042164            6 RKGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNG-------------PMQISDHFFEGTEELKVLD-FTGIHFSSL   70 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~-------------~~~~~~~~~~~~~~L~~L~-l~~~~~~~~   70 (235)
                      .+++++|++++|.++.+|+.+ .+++|+.|++  .++.             ....++..++.+++|+.|+ ++.|.+..+
T Consensus       348 ~~~L~~L~Ls~n~L~~Lp~~i~~l~~L~~L~l--~~n~~l~~l~~ll~~~~~~~~~~~~l~~l~~L~~L~~l~~n~~~~L  425 (567)
T 1dce_A          348 DEQLFRCELSVEKSTVLQSELESCKELQELEP--ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  425 (567)
T ss_dssp             TTTSSSCCCCHHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             CccceeccCChhhHHhhHHHHHHHHHHHHhcc--ccchhhhhHHHHHHhcccccCCHHHHHHHHhcccCcchhhcccchh
Confidence            456667777777777777666 6777777776  3332             1112222345566666666 444433322


Q ss_pred             Ch------hhcC--CccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchh
Q 042164           71 PS------SLGR--LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPN  142 (235)
Q Consensus        71 ~~------~l~~--l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~  142 (235)
                      +.      .+..  ...|+.|++++|.+++++.++.+++|+.|++++|.++.+|..++.+++|+.|++++|. +..+| .
T Consensus       426 ~~l~l~~n~i~~l~~~~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-l~~lp-~  503 (567)
T 1dce_A          426 RSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNA-LENVD-G  503 (567)
T ss_dssp             HHHHHHHHHHHHHHHTTCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSC-CCCCG-G
T ss_pred             hhhhhhcccccccCccCceEEEecCCCCCCCcCccccccCcEeecCcccccccchhhhcCCCCCEEECCCCC-CCCCc-c
Confidence            11      1111  1247777777777777755777777777777777777777777777777777777776 44465 3


Q ss_pred             hhcCCCCCcEEEeccccccccccCCCCCcc-chhcccCCCccceeeecCCCCCCCccc-----cccccceeE
Q 042164          143 VISKLSRLEELYMDISFSQWDKVEGGSNAS-LAELKGLSKLTTLNIQVPDAQILPQEW-----VFVELQSYR  208 (235)
Q Consensus       143 ~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~-~~~~~~~~~L~~L~l~~n~~~~~p~~~-----~~~~L~~l~  208 (235)
                       ++.+++|+.|++++|.+++.        . +..++.+++|+.|++++|.+..+|+..     .+++|+.|+
T Consensus       504 -l~~l~~L~~L~Ls~N~l~~~--------~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          504 -VANLPRLQELLLCNNRLQQS--------AAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             -GTTCSSCCEEECCSSCCCSS--------STTGGGGGCTTCCEEECTTSGGGGSSSCTTHHHHHCTTCSEEE
T ss_pred             -cCCCCCCcEEECCCCCCCCC--------CCcHHHhcCCCCCEEEecCCcCCCCccHHHHHHHHCcccCccC
Confidence             67777777777777777632        2 556677777777777777777665543     356666554

>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=99.77  E-value=3.9e-18  Score=129.30  Aligned_cols=148  Identities=19%  Similarity=0.250  Sum_probs=116.4

Q ss_pred             cEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEec
Q 042164           32 QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFR  108 (235)
Q Consensus        32 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~  108 (235)
                      +.++.  .++.+..+|..+   ...++.|++++|.++.+++ .+..+++|++|++++|.+..+  ..+..+++|++|+++
T Consensus        14 ~~v~c--~~~~l~~iP~~l---~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls   88 (220)
T 2v9t_B           14 NIVDC--RGKGLTEIPTNL---PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLY   88 (220)
T ss_dssp             TEEEC--TTSCCSSCCSSC---CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECC
T ss_pred             CEEEc--CCCCcCcCCCcc---CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECC
Confidence            45666  555666677643   3678899999998887654 678888999999999988876  778888999999999


Q ss_pred             CCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceee
Q 042164          109 GSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNI  187 (235)
Q Consensus       109 ~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l  187 (235)
                      +|.++.+|.. +..+++|++|++++|. +..+++..+..+++|+.|++++|.++..        ....+..+++|+.|++
T Consensus        89 ~N~l~~l~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------~~~~~~~l~~L~~L~L  159 (220)
T 2v9t_B           89 GNKITELPKSLFEGLFSLQLLLLNANK-INCLRVDAFQDLHNLNLLSLYDNKLQTI--------AKGTFSPLRAIQTMHL  159 (220)
T ss_dssp             SSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCSCC--------CTTTTTTCTTCCEEEC
T ss_pred             CCcCCccCHhHccCCCCCCEEECCCCC-CCEeCHHHcCCCCCCCEEECCCCcCCEE--------CHHHHhCCCCCCEEEe
Confidence            9998888765 6788899999999988 5555555588888999999999988744        3345777888999999


Q ss_pred             ecCCCC
Q 042164          188 QVPDAQ  193 (235)
Q Consensus       188 ~~n~~~  193 (235)
                      ++|++.
T Consensus       160 ~~N~~~  165 (220)
T 2v9t_B          160 AQNPFI  165 (220)
T ss_dssp             CSSCEE
T ss_pred             CCCCcC
Confidence            998875

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.77  E-value=4.6e-18  Score=145.29  Aligned_cols=165  Identities=19%  Similarity=0.202  Sum_probs=137.2

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .+++++.|++++|.++.+|  ..+++|+.|++  .++.+..+|.  +..  +|++|++++|.++.+|.   .+++|++|+
T Consensus        78 l~~~L~~L~Ls~N~l~~ip--~~l~~L~~L~L--s~N~l~~ip~--l~~--~L~~L~Ls~N~l~~lp~---~l~~L~~L~  146 (571)
T 3cvr_A           78 LPPQITVLEITQNALISLP--ELPASLEYLDA--CDNRLSTLPE--LPA--SLKHLDVDNNQLTMLPE---LPALLEYIN  146 (571)
T ss_dssp             CCTTCSEEECCSSCCSCCC--CCCTTCCEEEC--CSSCCSCCCC--CCT--TCCEEECCSSCCSCCCC---CCTTCCEEE
T ss_pred             HcCCCCEEECcCCCCcccc--cccCCCCEEEc--cCCCCCCcch--hhc--CCCEEECCCCcCCCCCC---cCccccEEe
Confidence            4578999999999999999  45899999999  4455555776  344  99999999999999887   789999999


Q ss_pred             ccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCC-------cEEEecc
Q 042164           85 LDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRL-------EELYMDI  157 (235)
Q Consensus        85 l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L-------~~L~l~~  157 (235)
                      +++|.+++++.  .+++|++|++++|.++.+|. +.  ++|+.|++++|. +..+|.  +..  +|       +.|++++
T Consensus       147 Ls~N~l~~lp~--~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~-L~~lp~--~~~--~L~~~~~~L~~L~Ls~  216 (571)
T 3cvr_A          147 ADNNQLTMLPE--LPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNL-LESLPA--VPV--RNHHSEETEIFFRCRE  216 (571)
T ss_dssp             CCSSCCSCCCC--CCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSC-CSSCCC--CC----------CCEEEECCS
T ss_pred             CCCCccCcCCC--cCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCC-CCchhh--HHH--hhhcccccceEEecCC
Confidence            99999998854  67899999999999999888 65  899999999998 667776  333  66       9999999


Q ss_pred             ccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccc
Q 042164          158 SFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW  199 (235)
Q Consensus       158 n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~  199 (235)
                      |.++         .++..+..+++|+.|++++|++. .+|..+
T Consensus       217 N~l~---------~lp~~l~~l~~L~~L~L~~N~l~~~~p~~l  250 (571)
T 3cvr_A          217 NRIT---------HIPENILSLDPTCTIILEDNPLSSRIRESL  250 (571)
T ss_dssp             SCCC---------CCCGGGGGSCTTEEEECCSSSCCHHHHHHH
T ss_pred             Ccce---------ecCHHHhcCCCCCEEEeeCCcCCCcCHHHH
Confidence            9998         34666777999999999999997 555544

>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=99.77  E-value=5.6e-18  Score=122.97  Aligned_cols=140  Identities=22%  Similarity=0.180  Sum_probs=119.0

Q ss_pred             CCCCCcEEeecCccCC--CCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCC-cchhhccCCCCcEEc
Q 042164           53 GTEELKVLDFTGIHFS--SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQ-LPLEIGQLTRLQLLD  129 (235)
Q Consensus        53 ~~~~L~~L~l~~~~~~--~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~l~~L~~L~  129 (235)
                      ..+.+++|++++|.++  .+|..+..+++|++|++++|.+..+..++.+++|++|++++|.++. +|..+..+++|++|+
T Consensus        22 ~~~~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           22 TPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLN  101 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEE
T ss_pred             CcccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEe
Confidence            4588999999999998  6888889999999999999999988888899999999999999997 777788899999999


Q ss_pred             ccCCcCCCCCch-hhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcc
Q 042164          130 LSNCWSLEVIPP-NVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQE  198 (235)
Q Consensus       130 l~~~~~~~~~~~-~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~  198 (235)
                      +++|. +..++. ..+..+++|++|++++|.+++.     .......+..+++|+.|++++|.+.++|..
T Consensus       102 Ls~N~-l~~~~~~~~l~~l~~L~~L~l~~N~l~~~-----~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~  165 (168)
T 2ell_A          102 LSGNK-LKDISTLEPLKKLECLKSLDLFNCEVTNL-----NDYRESVFKLLPQLTYLDGYDREDQEAPDS  165 (168)
T ss_dssp             CBSSS-CCSSGGGGGGSSCSCCCEEECCSSGGGTS-----TTHHHHHHTTCSSCCEETTEETTSCBCCSS
T ss_pred             ccCCc-cCcchhHHHHhcCCCCCEEEeeCCcCcch-----HHHHHHHHHhCccCcEecCCCCChhhcccc
Confidence            99998 566552 3488999999999999999833     000114788899999999999999888864

>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=99.77  E-value=1.9e-19  Score=147.56  Aligned_cols=204  Identities=18%  Similarity=0.231  Sum_probs=153.0

Q ss_pred             ccCCCcEEecCCCCCCCC----CCc--------CCCCCccEEEeccCCCCCc----ccchhhhhCCCCCcEEeecCccCC
Q 042164            5 IRKGPIAISLPQRDIQEL----PER--------LQCPNLQLFLLFREGNGPM----QISDHFFEGTEELKVLDFTGIHFS   68 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i----~~~--------~~l~~L~~L~l~~~~~~~~----~~~~~~~~~~~~L~~L~l~~~~~~   68 (235)
                      .+++|++|++++|.+..+    |..        ..+++|+.|++ +.+....    .++.. +..+++|++|++++|.++
T Consensus        58 ~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~L-s~n~l~~~~~~~l~~~-l~~~~~L~~L~L~~n~l~  135 (386)
T 2ca6_A           58 SKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRL-SDNAFGPTAQEPLIDF-LSKHTPLEHLYLHNNGLG  135 (386)
T ss_dssp             TCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEEC-CSCCCCTTTHHHHHHH-HHHCTTCCEEECCSSCCH
T ss_pred             hCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEEC-CCCcCCHHHHHHHHHH-HHhCCCCCEEECcCCCCC
Confidence            468899999999876533    332        26899999999 5554433    24433 578999999999999986


Q ss_pred             C-----CChhhcCC---------ccCcEEeccCcCCC--Cc----cccCCCCCCcEEEecCCCCC--C---cch-hhccC
Q 042164           69 S-----LPSSLGRL---------INLQTLCLDWCQLE--DV----AAIGQLKKLEILSFRGSNIK--Q---LPL-EIGQL  122 (235)
Q Consensus        69 ~-----~~~~l~~l---------~~L~~L~l~~~~l~--~~----~~~~~l~~L~~L~l~~~~~~--~---~~~-~~~~l  122 (235)
                      .     ++..+..+         ++|++|++++|.+.  .+    ..+..+++|++|++++|.++  .   +.+ .+..+
T Consensus       136 ~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~  215 (386)
T 2ca6_A          136 PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYC  215 (386)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGC
T ss_pred             HHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcC
Confidence            3     23334445         89999999999987  33    35667889999999999988  2   333 67889


Q ss_pred             CCCcEEcccCCcCC----CCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhc--ccCCCccceeeecCCCCC--
Q 042164          123 TRLQLLDLSNCWSL----EVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL--KGLSKLTTLNIQVPDAQI--  194 (235)
Q Consensus       123 ~~L~~L~l~~~~~~----~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~--  194 (235)
                      ++|++|++++|.+.    ..++.. +..+++|++|++++|.++..    .....+..+  +.+++|+.|++++|.+..  
T Consensus       216 ~~L~~L~Ls~n~l~~~g~~~l~~~-l~~~~~L~~L~L~~n~i~~~----~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g  290 (386)
T 2ca6_A          216 QELKVLDLQDNTFTHLGSSALAIA-LKSWPNLRELGLNDCLLSAR----GAAAVVDAFSKLENIGLQTLRLQYNEIELDA  290 (386)
T ss_dssp             TTCCEEECCSSCCHHHHHHHHHHH-GGGCTTCCEEECTTCCCCHH----HHHHHHHHHHTCSSCCCCEEECCSSCCBHHH
T ss_pred             CCccEEECcCCCCCcHHHHHHHHH-HccCCCcCEEECCCCCCchh----hHHHHHHHHhhccCCCeEEEECcCCcCCHHH
Confidence            99999999999842    445554 78999999999999998732    111123455  338999999999999986  


Q ss_pred             ---CCccc--cccccceeEEEeccccc
Q 042164          195 ---LPQEW--VFVELQSYRICIGNKWW  216 (235)
Q Consensus       195 ---~p~~~--~~~~L~~l~l~~~~~~~  216 (235)
                         +|..+  .+++|+.|++. ++.+.
T Consensus       291 ~~~l~~~l~~~l~~L~~L~l~-~N~l~  316 (386)
T 2ca6_A          291 VRTLKTVIDEKMPDLLFLELN-GNRFS  316 (386)
T ss_dssp             HHHHHHHHHHHCTTCCEEECT-TSBSC
T ss_pred             HHHHHHHHHhcCCCceEEEcc-CCcCC
Confidence               88776  47999999994 55553

>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=99.76  E-value=9.6e-18  Score=127.13  Aligned_cols=149  Identities=14%  Similarity=0.146  Sum_probs=121.8

Q ss_pred             ccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC--hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEE
Q 042164           31 LQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP--SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILS  106 (235)
Q Consensus        31 L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~--~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~  106 (235)
                      -+.+++  .++.+..+|..+   ...+++|++++|.++.++  ..+..+++|++|++++|.+..+  ..++.+++|++|+
T Consensus        13 ~~~l~~--s~n~l~~iP~~~---~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~   87 (220)
T 2v70_A           13 GTTVDC--SNQKLNKIPEHI---PQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEIL   87 (220)
T ss_dssp             TTEEEC--CSSCCSSCCSCC---CTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             CCEeEe--CCCCcccCccCC---CCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEE
Confidence            357777  666666777643   456789999999998763  3478999999999999999977  5789999999999


Q ss_pred             ecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccce
Q 042164          107 FRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTL  185 (235)
Q Consensus       107 l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L  185 (235)
                      +++|.++.++.. +..+++|++|++++|. +..+++..+..+++|++|++++|.+++.        .+..+..+++|+.|
T Consensus        88 Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~l~~~--------~~~~~~~l~~L~~L  158 (220)
T 2v70_A           88 LTSNRLENVQHKMFKGLESLKTLMLRSNR-ITCVGNDSFIGLSSVRLLSLYDNQITTV--------APGAFDTLHSLSTL  158 (220)
T ss_dssp             CCSSCCCCCCGGGGTTCSSCCEEECTTSC-CCCBCTTSSTTCTTCSEEECTTSCCCCB--------CTTTTTTCTTCCEE
T ss_pred             CCCCccCccCHhHhcCCcCCCEEECCCCc-CCeECHhHcCCCccCCEEECCCCcCCEE--------CHHHhcCCCCCCEE
Confidence            999999977654 8889999999999998 5555444588999999999999999844        45677888999999


Q ss_pred             eeecCCCC
Q 042164          186 NIQVPDAQ  193 (235)
Q Consensus       186 ~l~~n~~~  193 (235)
                      ++++|++.
T Consensus       159 ~L~~N~l~  166 (220)
T 2v70_A          159 NLLANPFN  166 (220)
T ss_dssp             ECCSCCEE
T ss_pred             EecCcCCc
Confidence            99999986

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.75  E-value=1.3e-17  Score=135.56  Aligned_cols=156  Identities=25%  Similarity=0.346  Sum_probs=132.8

Q ss_pred             cccCCCcEEecCCCCCCCCCCcC---CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCcc
Q 042164            4 TIRKGPIAISLPQRDIQELPERL---QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLIN   79 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~---~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~   79 (235)
                      ..++.++.|++++|.++.++...   .+++|+.|++  .++.+..++...|..+++|++|++++|.++.+++ .|..+++
T Consensus        36 ~~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L--~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~  113 (361)
T 2xot_A           36 SLPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLL--SHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQA  113 (361)
T ss_dssp             SCCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEEC--CSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTT
T ss_pred             cCCCCCCEEECCCCCCCccChhhhhhcccccCEEEC--CCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcC
Confidence            34567999999999999876654   7899999999  6666667777668999999999999999998654 6889999


Q ss_pred             CcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchhh----ccCCCCcEEcccCCcCCCCCchhhhcCCCC--Cc
Q 042164           80 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLEI----GQLTRLQLLDLSNCWSLEVIPPNVISKLSR--LE  151 (235)
Q Consensus        80 L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~~----~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~--L~  151 (235)
                      |++|++++|.+..+  ..+..+++|++|++++|.++.+|..+    ..+++|++|++++|. +..++...+..+++  ++
T Consensus       114 L~~L~L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L~L~~N~-l~~l~~~~~~~l~~~~l~  192 (361)
T 2xot_A          114 LEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNK-LKKLPLTDLQKLPAWVKN  192 (361)
T ss_dssp             CCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEEECCSSC-CCCCCHHHHHHSCHHHHT
T ss_pred             CCEEECCCCcccEECHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEEECCCCC-CCccCHHHhhhccHhhcc
Confidence            99999999999977  77899999999999999999988764    579999999999998 67788766788876  48


Q ss_pred             EEEeccccccc
Q 042164          152 ELYMDISFSQW  162 (235)
Q Consensus       152 ~L~l~~n~~~~  162 (235)
                      .|++++|.+..
T Consensus       193 ~l~l~~N~~~C  203 (361)
T 2xot_A          193 GLYLHNNPLEC  203 (361)
T ss_dssp             TEECCSSCEEC
T ss_pred             eEEecCCCccC
Confidence            89999998763

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=99.74  E-value=9.4e-20  Score=152.49  Aligned_cols=183  Identities=17%  Similarity=0.168  Sum_probs=107.0

Q ss_pred             ccCCCcEEecCCCCCC-----CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCC----CCcEEeecCccCCC-----
Q 042164            5 IRKGPIAISLPQRDIQ-----ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTE----ELKVLDFTGIHFSS-----   69 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~-----~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~----~L~~L~l~~~~~~~-----   69 (235)
                      .++++++|++++|.++     .++..+ .+++|++|++ +.+......+..++..+.    +|++|++++|.++.     
T Consensus        26 ~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~L-s~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~  104 (461)
T 1z7x_W           26 LLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNL-RSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGV  104 (461)
T ss_dssp             HHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEEC-TTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             hcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeC-CCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHH
Confidence            3567888888888776     334444 6788888888 443332223333334454    58888888887762     


Q ss_pred             CChhhcCCccCcEEeccCcCCCCc--c----c-cCCCCCCcEEEecCCCCCC-----cchhhccCCCCcEEcccCCcCCC
Q 042164           70 LPSSLGRLINLQTLCLDWCQLEDV--A----A-IGQLKKLEILSFRGSNIKQ-----LPLEIGQLTRLQLLDLSNCWSLE  137 (235)
Q Consensus        70 ~~~~l~~l~~L~~L~l~~~~l~~~--~----~-~~~l~~L~~L~l~~~~~~~-----~~~~~~~l~~L~~L~l~~~~~~~  137 (235)
                      ++..+..+++|++|++++|.+...  .    . ....++|++|++++|.++.     ++..+..+++|++|++++|. ++
T Consensus       105 l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~  183 (461)
T 1z7x_W          105 LSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNND-IN  183 (461)
T ss_dssp             HHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSB-CH
T ss_pred             HHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCC-cc
Confidence            456677788888888888876532  1    1 2234567777777777663     34445666777777777776 32


Q ss_pred             CCchhhhc-----CCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          138 VIPPNVIS-----KLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       138 ~~~~~~l~-----~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      ......+.     ..++|++|++++|.++..    ........+..+++|++|++++|.+.
T Consensus       184 ~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~----~~~~l~~~l~~~~~L~~L~Ls~n~l~  240 (461)
T 1z7x_W          184 EAGVRVLCQGLKDSPCQLEALKLESCGVTSD----NCRDLCGIVASKASLRELALGSNKLG  240 (461)
T ss_dssp             HHHHHHHHHHHHHSCCCCCEEECTTSCCBTT----HHHHHHHHHHHCTTCCEEECCSSBCH
T ss_pred             hHHHHHHHHHHhcCCCCceEEEccCCCCcHH----HHHHHHHHHHhCCCccEEeccCCcCC
Confidence            22111121     245677777777666522    00012334445556666666666554

>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=99.72  E-value=3.1e-19  Score=149.33  Aligned_cols=179  Identities=16%  Similarity=0.123  Sum_probs=95.0

Q ss_pred             CCcEEecCCCCCCC-----CCCcC-CCCCccEEEeccCCCCCcccchhhh-----hCCCCCcEEeecCccCCC-----CC
Q 042164            8 GPIAISLPQRDIQE-----LPERL-QCPNLQLFLLFREGNGPMQISDHFF-----EGTEELKVLDFTGIHFSS-----LP   71 (235)
Q Consensus         8 ~l~~L~l~~~~l~~-----i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~-----~~~~~L~~L~l~~~~~~~-----~~   71 (235)
                      ++++|++++|.++.     ++..+ .+++|+.|++ +.+ .+...+...+     ...+.|++|++++|.++.     ++
T Consensus       143 ~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L-~~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~  220 (461)
T 1z7x_W          143 RLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTV-SNN-DINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLC  220 (461)
T ss_dssp             CCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEEC-CSS-BCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTHHHHHH
T ss_pred             cceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEEC-cCC-CcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHHHHHHH
Confidence            46666666665542     12222 4566677776 333 3322211111     124567777777776664     34


Q ss_pred             hhhcCCccCcEEeccCcCCCCc------cc-cCCCCCCcEEEecCCCCCC-----cchhhccCCCCcEEcccCCcCCCCC
Q 042164           72 SSLGRLINLQTLCLDWCQLEDV------AA-IGQLKKLEILSFRGSNIKQ-----LPLEIGQLTRLQLLDLSNCWSLEVI  139 (235)
Q Consensus        72 ~~l~~l~~L~~L~l~~~~l~~~------~~-~~~l~~L~~L~l~~~~~~~-----~~~~~~~l~~L~~L~l~~~~~~~~~  139 (235)
                      ..+..+++|++|++++|.+...      .. +..+++|++|++++|.++.     ++..+..+++|++|++++|. ++..
T Consensus       221 ~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~  299 (461)
T 1z7x_W          221 GIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNE-LGDE  299 (461)
T ss_dssp             HHHHHCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCC-CHHH
T ss_pred             HHHHhCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCC-CchH
Confidence            4556677777777777766532      11 2246677777777777763     55556667777777777776 3221


Q ss_pred             chhhh-----cCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          140 PPNVI-----SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       140 ~~~~l-----~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      ....+     ...++|++|++++|.+++.    ........+..+++|++|++++|.+.
T Consensus       300 ~~~~l~~~l~~~~~~L~~L~L~~n~l~~~----~~~~l~~~l~~~~~L~~L~Ls~n~i~  354 (461)
T 1z7x_W          300 GARLLCETLLEPGCQLESLWVKSCSFTAA----CCSHFSSVLAQNRFLLELQISNNRLE  354 (461)
T ss_dssp             HHHHHHHHHTSTTCCCCEEECTTSCCBGG----GHHHHHHHHHHCSSCCEEECCSSBCH
T ss_pred             HHHHHHHHhccCCccceeeEcCCCCCchH----HHHHHHHHHhhCCCccEEEccCCccc
Confidence            11111     1224666666666665522    00112333444555566666555554

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

Probab=99.72  E-value=2e-18  Score=140.40  Aligned_cols=217  Identities=14%  Similarity=0.099  Sum_probs=148.7

Q ss_pred             EEecCCCCCCCC-CCcC-CCCCccEEEeccCCCCCcccch----hhhhCCC-CCcEEeecCccCCCC-ChhhcCC-----
Q 042164           11 AISLPQRDIQEL-PERL-QCPNLQLFLLFREGNGPMQISD----HFFEGTE-ELKVLDFTGIHFSSL-PSSLGRL-----   77 (235)
Q Consensus        11 ~L~l~~~~l~~i-~~~~-~l~~L~~L~l~~~~~~~~~~~~----~~~~~~~-~L~~L~l~~~~~~~~-~~~l~~l-----   77 (235)
                      ..+++.+.++.. |... ..++|+.|++  .++.+...+.    ..+..++ +|++|++++|.++.. +..+..+     
T Consensus         2 ~~~ls~n~~~~~~~~~~~~~~~L~~L~L--s~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~   79 (362)
T 3goz_A            2 NYKLTLHPGSNPVEEFTSIPHGVTSLDL--SLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIP   79 (362)
T ss_dssp             EEECCCCTTCCHHHHHHTSCTTCCEEEC--TTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSC
T ss_pred             ccccccccchHHHHHHHhCCCCceEEEc--cCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccC
Confidence            467888888754 4444 4555999999  5555665554    4567788 899999999999864 4455554     


Q ss_pred             ccCcEEeccCcCCCCc------cccCCC-CCCcEEEecCCCCCCcch-h----hcc-CCCCcEEcccCCcCCCCCch---
Q 042164           78 INLQTLCLDWCQLEDV------AAIGQL-KKLEILSFRGSNIKQLPL-E----IGQ-LTRLQLLDLSNCWSLEVIPP---  141 (235)
Q Consensus        78 ~~L~~L~l~~~~l~~~------~~~~~l-~~L~~L~l~~~~~~~~~~-~----~~~-l~~L~~L~l~~~~~~~~~~~---  141 (235)
                      ++|++|++++|.+...      ..+..+ ++|++|++++|.++..+. .    +.. .++|++|++++|.+......   
T Consensus        80 ~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~  159 (362)
T 3goz_A           80 ANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELI  159 (362)
T ss_dssp             TTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHH
T ss_pred             CCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHH
Confidence            9999999999998854      235555 899999999999985543 2    334 36999999999984332221   


Q ss_pred             hhhcCCC-CCcEEEeccccccccccCCCCCccchhcccC-CCccceeeecCCCCC-----CCccc-c-ccccceeEEEec
Q 042164          142 NVISKLS-RLEELYMDISFSQWDKVEGGSNASLAELKGL-SKLTTLNIQVPDAQI-----LPQEW-V-FVELQSYRICIG  212 (235)
Q Consensus       142 ~~l~~~~-~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~-~~L~~L~l~~n~~~~-----~p~~~-~-~~~L~~l~l~~~  212 (235)
                      ..+..++ +|++|++++|.++..    ........+..+ ++|+.|++++|.+..     ++..+ . .++|+.|+++ +
T Consensus       160 ~~l~~~~~~L~~L~Ls~n~l~~~----~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls-~  234 (362)
T 3goz_A          160 QILAAIPANVNSLNLRGNNLASK----NCAELAKFLASIPASVTSLDLSANLLGLKSYAELAYIFSSIPNHVVSLNLC-L  234 (362)
T ss_dssp             HHHHTSCTTCCEEECTTSCGGGS----CHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHHSCTTCCEEECC-S
T ss_pred             HHHhcCCccccEeeecCCCCchh----hHHHHHHHHHhCCCCCCEEECCCCCCChhHHHHHHHHHhcCCCCceEEECc-C
Confidence            1245565 999999999999744    111223355566 599999999999986     55554 3 4699999995 4


Q ss_pred             cccccc--chhhhhhhhhccccCC
Q 042164          213 NKWWSS--WSVKSGLSRLMKLQGL  234 (235)
Q Consensus       213 ~~~~~~--~~~~~~~~~l~~L~~L  234 (235)
                      +...+.  ......+..+++|+.|
T Consensus       235 N~l~~~~~~~l~~~~~~l~~L~~L  258 (362)
T 3goz_A          235 NCLHGPSLENLKLLKDSLKHLQTV  258 (362)
T ss_dssp             SCCCCCCHHHHHHTTTTTTTCSEE
T ss_pred             CCCCcHHHHHHHHHHhcCCCccEE
Confidence            444221  1112334455555544

>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=99.70  E-value=1e-16  Score=116.26  Aligned_cols=125  Identities=18%  Similarity=0.174  Sum_probs=56.7

Q ss_pred             cCCCcEEecCCCCCC--CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccCc
Q 042164            6 RKGPIAISLPQRDIQ--ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINLQ   81 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~--~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L~   81 (235)
                      ++++++|++++|.+.  .+|..+ .+++|+.|++ +.+. +..+  ..+..+++|++|++++|.++. +|..+..+++|+
T Consensus        23 ~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l-~~n~-l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~   98 (168)
T 2ell_A           23 PAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSL-INVG-LISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLT   98 (168)
T ss_dssp             TTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEE-ESSC-CCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCC
T ss_pred             cccCCEEECCCCCCChhhHHHHHHhCCCCCEEeC-cCCC-CCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCC
Confidence            344555555555554  444443 4455555555 2222 2222  113445555555555555544 343334455555


Q ss_pred             EEeccCcCCCCc---cccCCCCCCcEEEecCCCCCCcch----hhccCCCCcEEcccCCc
Q 042164           82 TLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPL----EIGQLTRLQLLDLSNCW  134 (235)
Q Consensus        82 ~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~~~~----~~~~l~~L~~L~l~~~~  134 (235)
                      +|++++|.+..+   ..++.+++|++|++++|.++.++.    .+..+++|++|++++|.
T Consensus        99 ~L~Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~  158 (168)
T 2ell_A           99 HLNLSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDRE  158 (168)
T ss_dssp             EEECBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETT
T ss_pred             EEeccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCC
Confidence            555555544433   234444444444444444443333    34444444444444443

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.70  E-value=7.4e-17  Score=114.71  Aligned_cols=130  Identities=19%  Similarity=0.147  Sum_probs=102.1

Q ss_pred             CCCCCcEEeecCccCC--CCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCC-cchhhccCCCCcEEc
Q 042164           53 GTEELKVLDFTGIHFS--SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQ-LPLEIGQLTRLQLLD  129 (235)
Q Consensus        53 ~~~~L~~L~l~~~~~~--~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~~l~~L~~L~  129 (235)
                      ..++++.|++++|.++  .+|..+..+++|++|++++|.+.++..++.+++|++|++++|.++. +|..+..+++|++|+
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~   94 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLN   94 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEE
T ss_pred             CCccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEE
Confidence            4577899999999988  6887788899999999999998877778888899999999998886 676677788999999


Q ss_pred             ccCCcCCCCCc-hhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeee
Q 042164          130 LSNCWSLEVIP-PNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ  188 (235)
Q Consensus       130 l~~~~~~~~~~-~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  188 (235)
                      +++|. +..++ ...++.+++|++|++++|.+++.     .......++.+++|+.|+++
T Consensus        95 ls~N~-i~~~~~~~~~~~l~~L~~L~l~~N~l~~~-----~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           95 LSGNK-IKDLSTIEPLKKLENLKSLDLFNCEVTNL-----NDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CTTSC-CCSHHHHGGGGGCTTCCEEECTTCGGGGS-----TTHHHHHHHHCTTCCEETTB
T ss_pred             CCCCc-CCChHHHHHHhhCCCCCEEeCcCCcccch-----HHHHHHHHHHCCCcccccCC
Confidence            99988 55543 13378888899999998888733     00011367778888888875

>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=99.69  E-value=1.3e-16  Score=116.63  Aligned_cols=136  Identities=15%  Similarity=0.168  Sum_probs=106.0

Q ss_pred             hhCCCCCcEEeecCccCCCCChhhcCC-ccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEE
Q 042164           51 FEGTEELKVLDFTGIHFSSLPSSLGRL-INLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLL  128 (235)
Q Consensus        51 ~~~~~~L~~L~l~~~~~~~~~~~l~~l-~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L  128 (235)
                      +..+.+|++|++++|.++.++. +..+ ++|++|++++|.+.++..++.+++|++|++++|.++.+|.. +..+++|++|
T Consensus        15 ~~~~~~L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L   93 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTEL   93 (176)
T ss_dssp             EECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEE
T ss_pred             cCCcCCceEEEeeCCCCchhHH-hhhcCCCCCEEECCCCCCCcccccccCCCCCEEECCCCcccccCcchhhcCCCCCEE
Confidence            4577888999999998888765 4444 48999999999988877888889999999999999877755 4888999999


Q ss_pred             cccCCcCCCCCch-hhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          129 DLSNCWSLEVIPP-NVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       129 ~l~~~~~~~~~~~-~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      ++++|. ++.++. ..+..+++|+.|++++|.+...     .......+..+++|+.||+++|...
T Consensus        94 ~L~~N~-i~~~~~~~~l~~l~~L~~L~l~~N~i~~~-----~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           94 ILTNNS-LVELGDLDPLASLKSLTYLCILRNPVTNK-----KHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             ECCSCC-CCCGGGGGGGGGCTTCCEEECCSSGGGGS-----TTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             ECCCCc-CCcchhhHhhhcCCCCCEEEecCCCCCCc-----HhHHHHHHHHCCccceeCCCcCCHH
Confidence            999998 566765 2378888999999999988732     0001124778889999999888765

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.68  E-value=2.5e-17  Score=145.02  Aligned_cols=154  Identities=18%  Similarity=0.203  Sum_probs=100.7

Q ss_pred             CCCcEEecCCCCCCCCCCcC-CCCCccEEEec---cCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcE
Q 042164            7 KGPIAISLPQRDIQELPERL-QCPNLQLFLLF---REGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQT   82 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~---~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~   82 (235)
                      +.++.|++.++.+..++... ....|..+.+.   ..++.+. ++...|..+..|+.|+|++|.+..+|..+..+++|++
T Consensus       173 ~~~~~l~L~~n~~~~~~~~~l~~l~Ls~~~i~~~~~~~n~~~-~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~  251 (727)
T 4b8c_D          173 PLTPKIELFANGKDEANQALLQHKKLSQYSIDEDDDIENRMV-MPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTR  251 (727)
T ss_dssp             --------------------------------------------------CCCCCCEEECTTSCCSCCCGGGGGCCSCSC
T ss_pred             CccceEEeeCCCCCcchhhHhhcCccCcccccCcccccccee-cChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCE
Confidence            35778888888887665554 44444444330   0222222 4455578899999999999999999988889999999


Q ss_pred             EeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           83 LCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        83 L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      |++++|.+..+ ..++.+++|++|++++|.++.+|..++.+++|++|++++|. ++.+|.. ++.+++|+.|++++|.++
T Consensus       252 L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~-l~~lp~~-~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          252 LYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNM-VTTLPWE-FGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             CBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSC-CCCCCSS-TTSCTTCCCEECTTSCCC
T ss_pred             EEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCC-CCccChh-hhcCCCccEEeCCCCccC
Confidence            99999999988 77899999999999999999999999999999999999998 6788887 899999999999999988


Q ss_pred             cc
Q 042164          162 WD  163 (235)
Q Consensus       162 ~~  163 (235)
                      +.
T Consensus       330 ~~  331 (727)
T 4b8c_D          330 KQ  331 (727)
T ss_dssp             SH
T ss_pred             CC
Confidence            44

>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=99.67  E-value=3.7e-16  Score=115.86  Aligned_cols=124  Identities=21%  Similarity=0.234  Sum_probs=65.5

Q ss_pred             cEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh--hcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEe
Q 042164           32 QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS--LGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  107 (235)
Q Consensus        32 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~--l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l  107 (235)
                      +.+++  .++.+..+|..+   ...+++|++++|.++.+++.  +..+++|++|++++|.++++  ..++.+++|++|++
T Consensus        11 ~~l~~--s~~~l~~ip~~~---~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L   85 (192)
T 1w8a_A           11 TTVDC--TGRGLKEIPRDI---PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TEEEC--TTSCCSSCCSCC---CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CEEEc--CCCCcCcCccCC---CCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEEC
Confidence            44555  334444455432   22556666666666554432  55566666666666665554  44555566666666


Q ss_pred             cCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          108 RGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       108 ~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      ++|.++.++.. +..+++|++|++++|.+.+..+. .+..+++|++|++++|.+.
T Consensus        86 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~-~~~~l~~L~~L~L~~N~l~  139 (192)
T 1w8a_A           86 GENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPG-SFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSCCCEECTT-SSTTCTTCCEEECTTCCBC
T ss_pred             CCCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHH-HhhcCCCCCEEEeCCCCcc
Confidence            66665544332 55555666666666553222222 2555555666666655554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.66  E-value=4.1e-16  Score=110.82  Aligned_cols=123  Identities=19%  Similarity=0.193  Sum_probs=75.0

Q ss_pred             ccCCCcEEecCCCCCC--CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccC
Q 042164            5 IRKGPIAISLPQRDIQ--ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINL   80 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~--~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L   80 (235)
                      .++++++|++++|.++  .+|..+ .+++|+.|++  .++.+..+  ..+..+++|++|++++|.++. +|..+..+++|
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l--~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L   90 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLST--INVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNL   90 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEEC--TTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTC
T ss_pred             CCccCeEEEccCCcCChhHHHHHHhhcCCCcEEEC--cCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCC
Confidence            3456777777777776  566654 6677777777  33333333  224666677777777776665 55555556666


Q ss_pred             cEEeccCcCCCCc---cccCCCCCCcEEEecCCCCCCcch----hhccCCCCcEEccc
Q 042164           81 QTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIKQLPL----EIGQLTRLQLLDLS  131 (235)
Q Consensus        81 ~~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~~~~~----~~~~l~~L~~L~l~  131 (235)
                      ++|++++|.+.++   ..++.+++|++|++++|.++.++.    .+..+++|++|+++
T Consensus        91 ~~L~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           91 THLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             CEEECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             CEEECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            6666666666654   455566666666666666665443    35556666666554

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.66  E-value=3.5e-16  Score=125.50  Aligned_cols=79  Identities=16%  Similarity=0.200  Sum_probs=47.7

Q ss_pred             cCCCcEEecCCCCCC--------------------CCCCcC--C--------CCCccEEEeccCCCCCcccchhhhhCCC
Q 042164            6 RKGPIAISLPQRDIQ--------------------ELPERL--Q--------CPNLQLFLLFREGNGPMQISDHFFEGTE   55 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~--------------------~i~~~~--~--------l~~L~~L~l~~~~~~~~~~~~~~~~~~~   55 (235)
                      +++|+.|++++|.+.                    .||+..  +        |++|+.+.+  .. .+..+++..|..+.
T Consensus        48 l~~L~~LdLs~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L--~~-~i~~I~~~aF~~~~  124 (329)
T 3sb4_A           48 FPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVIL--SE-KIKNIEDAAFKGCD  124 (329)
T ss_dssp             CTTCCEEEEEEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CB--CT-TCCEECTTTTTTCT
T ss_pred             hccCeEEecCcceeEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEEC--Cc-cccchhHHHhhcCc
Confidence            578999999999887                    233333  4        666666666  33 44556666666666


Q ss_pred             CCcEEeecCccCCCCC-hhhcCCccCcEEeccC
Q 042164           56 ELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDW   87 (235)
Q Consensus        56 ~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~   87 (235)
                      +|+.+++++|.+..++ ..|..+.++..+....
T Consensus       125 ~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~  157 (329)
T 3sb4_A          125 NLKICQIRKKTAPNLLPEALADSVTAIFIPLGS  157 (329)
T ss_dssp             TCCEEEBCCSSCCEECTTSSCTTTCEEEECTTC
T ss_pred             ccceEEcCCCCccccchhhhcCCCceEEecCcc
Confidence            6666666666655543 3345555555554443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.64  E-value=1.8e-15  Score=112.30  Aligned_cols=124  Identities=18%  Similarity=0.285  Sum_probs=90.2

Q ss_pred             cEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecC
Q 042164           32 QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRG  109 (235)
Q Consensus        32 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~  109 (235)
                      +.++.  .++.+..+|..+   ...+++|++++|.++.+|..+..+++|++|++++|.++.+  ..+..+++|++|++++
T Consensus        13 ~~l~~--~~~~l~~ip~~~---~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~   87 (193)
T 2wfh_A           13 TVVRC--SNKGLKVLPKGI---PRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY   87 (193)
T ss_dssp             TEEEC--TTSCCSSCCSCC---CTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CEEEc--CCCCCCcCCCCC---CCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC
Confidence            45565  555566666542   3577888888888877777777888888888888887766  5577778888888888


Q ss_pred             CCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          110 SNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       110 ~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      |.++.++. .+..+++|++|++++|. +..++...+..+++|+.+++++|.+.
T Consensus        88 N~l~~i~~~~f~~l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           88 NRLRCIPPRTFDGLKSLRLLSLHGND-ISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             SCCCBCCTTTTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CccCEeCHHHhCCCCCCCEEECCCCC-CCeeChhhhhcCccccEEEeCCCCee
Confidence            88776654 47777788888888877 55666655777777888888777775

>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=99.64  E-value=3.7e-15  Score=110.43  Aligned_cols=130  Identities=18%  Similarity=0.238  Sum_probs=111.3

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccch-hhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEecc
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLD   86 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~-~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~   86 (235)
                      -+.++++++.++.+|..+ ..+++.|++  .++.+..++. ..|..+++|++|++++|.++.+ |..+..+++|++|+++
T Consensus        10 ~~~l~~s~~~l~~ip~~~-~~~l~~L~l--~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls   86 (192)
T 1w8a_A           10 GTTVDCTGRGLKEIPRDI-PLHTTELLL--NDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG   86 (192)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEEC--CSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCEEEcCCCCcCcCccCC-CCCCCEEEC--CCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECC
Confidence            378999999999999876 349999999  5555665654 3578999999999999999986 6789999999999999


Q ss_pred             CcCCCCc--cccCCCCCCcEEEecCCCCCCc-chhhccCCCCcEEcccCCcCCCCCch
Q 042164           87 WCQLEDV--AAIGQLKKLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCWSLEVIPP  141 (235)
Q Consensus        87 ~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~~~~~~~~  141 (235)
                      +|.+.++  ..++.+++|++|++++|.++.+ |..+..+++|++|++++|.+.+..+.
T Consensus        87 ~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c~c~l  144 (192)
T 1w8a_A           87 ENKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHL  144 (192)
T ss_dssp             SCCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGGG
T ss_pred             CCcCCccCHHHhcCCCCCCEEECCCCcCCeeCHHHhhcCCCCCEEEeCCCCccCcCcc
Confidence            9999987  5688999999999999999965 66689999999999999986665543

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.64  E-value=4.3e-15  Score=110.19  Aligned_cols=123  Identities=21%  Similarity=0.378  Sum_probs=92.4

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCc
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWC   88 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~   88 (235)
                      +.++++++.++.+|..+ .++++.|++  .++.+..+|.. |..+++|++|++++|.++.++ ..|..+++|++|++++|
T Consensus        13 ~~l~~~~~~l~~ip~~~-~~~l~~L~L--~~n~i~~ip~~-~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N   88 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI-PRDVTELYL--DGNQFTLVPKE-LSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN   88 (193)
T ss_dssp             TEEECTTSCCSSCCSCC-CTTCCEEEC--CSSCCCSCCGG-GGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEEcCCCCCCcCCCCC-CCCCCEEEC--CCCcCchhHHH-hhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCC
Confidence            56788888888887665 467888888  55555566643 577888888888888888765 45778888888888888


Q ss_pred             CCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCC
Q 042164           89 QLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSL  136 (235)
Q Consensus        89 ~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~  136 (235)
                      .+..+  ..+..+++|++|++++|.++.++.. +..+++|++|++++|.+.
T Consensus        89 ~l~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A           89 RLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             CCCBCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             ccCEeCHHHhCCCCCCCEEECCCCCCCeeChhhhhcCccccEEEeCCCCee
Confidence            88876  4677888888888888888877664 777888888888887643

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.63  E-value=5.1e-15  Score=108.21  Aligned_cols=126  Identities=22%  Similarity=0.303  Sum_probs=64.7

Q ss_pred             CcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCC
Q 042164           57 LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNC  133 (235)
Q Consensus        57 L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~  133 (235)
                      .+.+++++++++.+|..+  .++|++|++++|.+.++  ..++.+++|++|++++|.++.++.. +..+++|++|++++|
T Consensus         9 ~~~l~~~~~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N   86 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVPTGI--PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHEN   86 (177)
T ss_dssp             TTEEECCSSCCSSCCTTC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEEEecCCCCccCCCCC--CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCC
Confidence            345555555555554322  24555555555555544  2345555555555555555544433 455555555555555


Q ss_pred             cCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          134 WSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       134 ~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      . +..++...+..+++|++|++++|.+++.        ....+..+++|+.|++++|++.
T Consensus        87 ~-l~~~~~~~~~~l~~L~~L~l~~N~l~~~--------~~~~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A           87 K-LQSLPNGVFDKLTQLKELALDTNQLKSV--------PDGIFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             C-CCCCCTTTTTTCTTCCEEECCSSCCSCC--------CTTTTTTCTTCCEEECCSSCBC
T ss_pred             C-ccccCHHHhhCCcccCEEECcCCcceEe--------CHHHhcCCcccCEEEecCCCee
Confidence            5 3344444345555566666655555522        1223344555666666666554

>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=99.62  E-value=1.6e-15  Score=110.80  Aligned_cols=130  Identities=16%  Similarity=0.137  Sum_probs=72.4

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cc-cCCCCCCcE
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AA-IGQLKKLEI  104 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~-~~~l~~L~~  104 (235)
                      .+.+|+.|++  .++.+..++. +....++|++|++++|.++.+ +.+..+++|++|++++|.+..+ .. ++.+++|++
T Consensus        17 ~~~~L~~L~l--~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l~~~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           17 NAVRDRELDL--RGYKIPVIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTE   92 (176)
T ss_dssp             CTTSCEEEEC--TTSCCCSCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCE
T ss_pred             CcCCceEEEe--eCCCCchhHH-hhhcCCCCCEEECCCCCCCcc-cccccCCCCCEEECCCCcccccCcchhhcCCCCCE
Confidence            5555666666  3333333432 222233666666666666555 3455666666666666666655 22 355666666


Q ss_pred             EEecCCCCCCcch--hhccCCCCcEEcccCCcCCCCCchh---hhcCCCCCcEEEecccccc
Q 042164          105 LSFRGSNIKQLPL--EIGQLTRLQLLDLSNCWSLEVIPPN---VISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       105 L~l~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~~~~---~l~~~~~L~~L~l~~n~~~  161 (235)
                      |++++|.++.+|.  .+..+++|++|++++|. +..++..   ++..+++|+.++++.|...
T Consensus        93 L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             EECCCCcCCcchhhHhhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCCcCCHH
Confidence            6666666665554  45666666666666665 3344432   3556666666666666543

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.62  E-value=9.7e-15  Score=106.69  Aligned_cols=105  Identities=24%  Similarity=0.437  Sum_probs=49.3

Q ss_pred             CCcEEeecCccCCCCCh-hhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEccc
Q 042164           56 ELKVLDFTGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLS  131 (235)
Q Consensus        56 ~L~~L~l~~~~~~~~~~-~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~  131 (235)
                      .++.|++++|.++.++. .+..+++|++|++++|.+..+  ..++.+++|++|++++|.++.++.. +..+++|++|+++
T Consensus        29 ~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~  108 (177)
T 2o6r_A           29 SATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALD  108 (177)
T ss_dssp             TCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEECc
Confidence            44444444444444332 234444444444444444433  2234444555555555555444332 3445555555555


Q ss_pred             CCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          132 NCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       132 ~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      +|. +..++...+..+++|+++++++|.+.
T Consensus       109 ~N~-l~~~~~~~~~~l~~L~~L~l~~N~~~  137 (177)
T 2o6r_A          109 TNQ-LKSVPDGIFDRLTSLQKIWLHTNPWD  137 (177)
T ss_dssp             SSC-CSCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CCc-ceEeCHHHhcCCcccCEEEecCCCee
Confidence            554 33444443445555555555555554

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.62  E-value=1.6e-16  Score=139.87  Aligned_cols=135  Identities=21%  Similarity=0.250  Sum_probs=110.7

Q ss_pred             CCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cccCCCC
Q 042164           23 PERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLK  100 (235)
Q Consensus        23 ~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l~  100 (235)
                      +..+ .+++|+.|++  .++.+..++..++ .++.|++|+|++|.++.+|..+..+++|++|++++|.+..+ ..++.++
T Consensus       217 ~~~~~~l~~L~~L~L--s~n~l~~l~~~~~-~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~  293 (727)
T 4b8c_D          217 KDSKYDDQLWHALDL--SNLQIFNISANIF-KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCF  293 (727)
T ss_dssp             -----CCCCCCEEEC--TTSCCSCCCGGGG-GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGT
T ss_pred             hhhhccCCCCcEEEC--CCCCCCCCChhhc-CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCC
Confidence            4444 8899999999  5556668888764 89999999999999999999999999999999999999988 7889999


Q ss_pred             CCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCC-CCcEEEecccccc
Q 042164          101 KLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLS-RLEELYMDISFSQ  161 (235)
Q Consensus       101 ~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~-~L~~L~l~~n~~~  161 (235)
                      +|++|++++|.++.+|..++.+++|++|++++|.+.+.+|.. +..+. ....+++++|.++
T Consensus       294 ~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~-~~~~~~~~~~l~l~~N~l~  354 (727)
T 4b8c_D          294 QLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKI-LTEKSVTGLIFYLRDNRPE  354 (727)
T ss_dssp             TCSEEECCSSCCCCCCSSTTSCTTCCCEECTTSCCCSHHHHH-HHHHHHHHHHHHHHHCCCC
T ss_pred             CCCEEECCCCCCCccChhhhcCCCccEEeCCCCccCCCChHH-HhhcchhhhHHhhccCccc
Confidence            999999999999999999999999999999999965555544 43322 1233567777776

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.60  E-value=1.4e-15  Score=130.88  Aligned_cols=150  Identities=13%  Similarity=0.078  Sum_probs=81.6

Q ss_pred             cCCCcEEecCCCCCCCCC-----CcC-CCCCccEEEeccCCCCCc---ccchhhhhCCCCCcEEeecCccCCCCChhhcC
Q 042164            6 RKGPIAISLPQRDIQELP-----ERL-QCPNLQLFLLFREGNGPM---QISDHFFEGTEELKVLDFTGIHFSSLPSSLGR   76 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~-----~~~-~l~~L~~L~l~~~~~~~~---~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~   76 (235)
                      +++|++|++++|.+....     ... .+++|+.|++ +.+....   .....++..+++|+.|++++|.+..++..+..
T Consensus       163 ~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L-~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~  241 (592)
T 3ogk_B          163 CRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNF-YMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKA  241 (592)
T ss_dssp             CTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEEC-TTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHH
T ss_pred             CCCCCEEECccccccCcchhHHHHHHhcCCCccEEEe-eccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHHHHhh
Confidence            456666666666554221     112 4666666666 3333220   11112235567777777777666666666666


Q ss_pred             CccCcEEeccCcCCC----Cc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCc
Q 042164           77 LINLQTLCLDWCQLE----DV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE  151 (235)
Q Consensus        77 l~~L~~L~l~~~~l~----~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~  151 (235)
                      +++|++++++.+...    .. ..++.+++|+.++++.+....+|..+..+++|++|++++|.+.+......+..+++|+
T Consensus       242 ~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~  321 (592)
T 3ogk_B          242 AANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLE  321 (592)
T ss_dssp             CTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCC
T ss_pred             hhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCC
Confidence            666776666542211    11 4445556666666666544455666666777777777776622222223345666666


Q ss_pred             EEEec
Q 042164          152 ELYMD  156 (235)
Q Consensus       152 ~L~l~  156 (235)
                      +|+++
T Consensus       322 ~L~L~  326 (592)
T 3ogk_B          322 VLETR  326 (592)
T ss_dssp             EEEEE
T ss_pred             EEecc
Confidence            66665

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=99.57  E-value=2.2e-15  Score=129.73  Aligned_cols=152  Identities=14%  Similarity=0.131  Sum_probs=81.4

Q ss_pred             cCCCcEEecCCCCCCCC-----CCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecC---------------
Q 042164            6 RKGPIAISLPQRDIQEL-----PERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG---------------   64 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i-----~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~---------------   64 (235)
                      +++|++|+++++.++.+     +... .+++|+.|++ .. +....++. .+..+++|+.|+++.               
T Consensus       191 ~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L-~~-~~~~~l~~-~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~  267 (592)
T 3ogk_B          191 NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKV-GD-FEILELVG-FFKAAANLEEFCGGSLNEDIGMPEKYMNLV  267 (592)
T ss_dssp             CCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEEC-SS-CBGGGGHH-HHHHCTTCCEEEECBCCCCTTCTTSSSCCC
T ss_pred             CCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEec-cC-ccHHHHHH-HHhhhhHHHhhcccccccccchHHHHHHhh
Confidence            56788888888877633     2222 6778888887 33 33333442 245556666666542               


Q ss_pred             ------------ccCCCCChhhcCCccCcEEeccCcCCCCc---cccCCCCCCcEEEecCCCCC--CcchhhccCCCCcE
Q 042164           65 ------------IHFSSLPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNIK--QLPLEIGQLTRLQL  127 (235)
Q Consensus        65 ------------~~~~~~~~~l~~l~~L~~L~l~~~~l~~~---~~~~~l~~L~~L~l~~~~~~--~~~~~~~~l~~L~~  127 (235)
                                  +....+|..+..+++|++|++++|.+...   ..++.+++|++|+++ +.+.  .++.....+++|++
T Consensus       268 ~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~-~~~~~~~l~~~~~~~~~L~~  346 (592)
T 3ogk_B          268 FPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETR-NVIGDRGLEVLAQYCKQLKR  346 (592)
T ss_dssp             CCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEE-GGGHHHHHHHHHHHCTTCCE
T ss_pred             ccccccccCccccchhHHHHHHhhcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEecc-CccCHHHHHHHHHhCCCCCE
Confidence                        22223444455666777777777765422   334566666666666 3332  23333445666666


Q ss_pred             EcccC----------CcCCCCC-chhhhcCCCCCcEEEecccccc
Q 042164          128 LDLSN----------CWSLEVI-PPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       128 L~l~~----------~~~~~~~-~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      |++++          +...+.. ...+...+++|++|+++.+.++
T Consensus       347 L~L~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~L~l~~~~l~  391 (592)
T 3ogk_B          347 LRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDIT  391 (592)
T ss_dssp             EEEECCCCSSTTSSTTCCCCHHHHHHHHHHCTTCSEEEEEESCCC
T ss_pred             EEeecCccccccccccCccCHHHHHHHHhhCccCeEEEeecCCcc
Confidence            66662          2112211 1122344566666666555554

>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=99.55  E-value=2.6e-17  Score=122.68  Aligned_cols=111  Identities=23%  Similarity=0.237  Sum_probs=55.9

Q ss_pred             hhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcE
Q 042164           73 SLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEE  152 (235)
Q Consensus        73 ~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~  152 (235)
                      .+..+++|++|++++|.+.+++.++.+++|++|++++|.++.+|..+..+++|++|++++|. +..++ . +..+++|++
T Consensus        43 ~~~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~-l~~l~-~-~~~l~~L~~  119 (198)
T 1ds9_A           43 TLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQ-IASLS-G-IEKLVNLRV  119 (198)
T ss_dssp             HHHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEE-CCCHH-H-HHHHHHSSE
T ss_pred             HHhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCc-CCcCC-c-cccCCCCCE
Confidence            45555555555555555554444445555555555555555555444445555555555554 33333 2 445555555


Q ss_pred             EEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          153 LYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       153 L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      |++++|.++..       .....+..+++|+.|++++|++.
T Consensus       120 L~l~~N~i~~~-------~~~~~l~~l~~L~~L~l~~N~l~  153 (198)
T 1ds9_A          120 LYMSNNKITNW-------GEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             EEESEEECCCH-------HHHHHHTTTTTCSEEEECSCHHH
T ss_pred             EECCCCcCCch-------hHHHHHhcCCCCCEEEecCCccc
Confidence            55555555421       01124445555555555555554

>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=99.55  E-value=2.7e-14  Score=122.29  Aligned_cols=125  Identities=19%  Similarity=0.211  Sum_probs=106.4

Q ss_pred             CCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCC
Q 042164           55 EELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNC  133 (235)
Q Consensus        55 ~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~  133 (235)
                      ..|+.|++++|.++.+|. +..+++|++|++++|.+..+ ..++.+++|++|++++|.++.+| .++.+++|+.|++++|
T Consensus       441 ~~L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          441 ADVRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNN  518 (567)
T ss_dssp             TTCSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSS
T ss_pred             cCceEEEecCCCCCCCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCCC
Confidence            358999999999999987 99999999999999999988 88999999999999999999988 8999999999999999


Q ss_pred             cCCCCC-chhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceee
Q 042164          134 WSLEVI-PPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNI  187 (235)
Q Consensus       134 ~~~~~~-~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l  187 (235)
                      .+.+.. |.. ++.+++|+.|++++|.+++.     .+.....+..+|+|+.|++
T Consensus       519 ~l~~~~~p~~-l~~l~~L~~L~L~~N~l~~~-----~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          519 RLQQSAAIQP-LVSCPRLVLLNLQGNSLCQE-----EGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             CCCSSSTTGG-GGGCTTCCEEECTTSGGGGS-----SSCTTHHHHHCTTCSEEEC
T ss_pred             CCCCCCCcHH-HhcCCCCCEEEecCCcCCCC-----ccHHHHHHHHCcccCccCC
Confidence            844433 555 89999999999999999844     1122334556889998864

>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=99.54  E-value=3.8e-16  Score=116.37  Aligned_cols=145  Identities=21%  Similarity=0.210  Sum_probs=105.6

Q ss_pred             CcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhcc
Q 042164           43 PMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQ  121 (235)
Q Consensus        43 ~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~  121 (235)
                      +..++.. +..+++|++|++++|.++.+| .+..+++|++|++++|.+..+ ..+..+++|++|++++|.++.+| .+..
T Consensus        37 l~~l~~~-~~~l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~  113 (198)
T 1ds9_A           37 IEKMDAT-LSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEK  113 (198)
T ss_dssp             CCCCHHH-HHHTTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHH-HHHH
T ss_pred             HhhhhHH-HhcCCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCC-cccc
Confidence            3344444 578888999999988888887 788888999999999888877 55556688999999999888876 5778


Q ss_pred             CCCCcEEcccCCcCCCCCch-hhhcCCCCCcEEEeccccccccccCCC--CCccchhcccCCCccceeeecCCCC
Q 042164          122 LTRLQLLDLSNCWSLEVIPP-NVISKLSRLEELYMDISFSQWDKVEGG--SNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       122 l~~L~~L~l~~~~~~~~~~~-~~l~~~~~L~~L~l~~n~~~~~~~~~~--~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      +++|++|++++|. +..++. ..+..+++|+++++++|.+.+......  .......+..+++|+.||  ++.+.
T Consensus       114 l~~L~~L~l~~N~-i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld--~~~i~  185 (198)
T 1ds9_A          114 LVNLRVLYMSNNK-ITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD--GMPVD  185 (198)
T ss_dssp             HHHSSEEEESEEE-CCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTTHHHHHHHHHHHCSSCSEEC--CGGGT
T ss_pred             CCCCCEEECCCCc-CCchhHHHHHhcCCCCCEEEecCCccccccccccchHHHHHHHHHhCCCcEEEC--CcccC
Confidence            8899999999988 555544 347888999999999998863311000  001122367788888776  66554

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=99.51  E-value=2.5e-14  Score=114.72  Aligned_cols=213  Identities=11%  Similarity=0.084  Sum_probs=145.7

Q ss_pred             cCCCcEEecCCCCCC-CCCCcC-CCCCccEEEeccCCCCC-------------------cccchhhhhC--------CCC
Q 042164            6 RKGPIAISLPQRDIQ-ELPERL-QCPNLQLFLLFREGNGP-------------------MQISDHFFEG--------TEE   56 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-~i~~~~-~l~~L~~L~l~~~~~~~-------------------~~~~~~~~~~--------~~~   56 (235)
                      +.++++|.++++--. .+.... .+++|+.|+| +.+...                   ..+++..|.+        +.+
T Consensus        24 ~~~l~~L~l~g~i~~~~~~~l~~~l~~L~~LdL-s~n~i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~  102 (329)
T 3sb4_A           24 ANSITHLTLTGKLNAEDFRHLRDEFPSLKVLDI-SNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQT  102 (329)
T ss_dssp             HHHCSEEEEEEEECHHHHHHHHHSCTTCCEEEE-EEEEECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTT
T ss_pred             hCceeEEEEeccccHHHHHHHHHhhccCeEEec-CcceeEEecCccccccccccccccccccCHHHhcccccccccccCC
Confidence            446788888764210 111111 2888999999 444332                   0467777888        999


Q ss_pred             CcEEeecCccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCC-------C-------------
Q 042164           57 LKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNI-------K-------------  113 (235)
Q Consensus        57 L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~-------~-------------  113 (235)
                      |+.|++.+ .++.++ ..|..|++|+.++++.|.+..+  .+|..+.++..+....+..       .             
T Consensus       103 L~~l~L~~-~i~~I~~~aF~~~~~L~~l~l~~n~i~~i~~~aF~~~~~l~~l~~~~~~~~~~~~~i~~~~f~~~~~L~~~  181 (329)
T 3sb4_A          103 LEKVILSE-KIKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALADSVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETT  181 (329)
T ss_dssp             CCC-CBCT-TCCEECTTTTTTCTTCCEEEBCCSSCCEECTTSSCTTTCEEEECTTCTHHHHTSTTTTTSCEEESCCCEEE
T ss_pred             CcEEECCc-cccchhHHHhhcCcccceEEcCCCCccccchhhhcCCCceEEecCcchhhhhcccccccccccccccccee
Confidence            99999998 788776 4688999999999999988765  6666666666665544110       0             


Q ss_pred             -------Ccch---------------------------hh-ccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164          114 -------QLPL---------------------------EI-GQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus       114 -------~~~~---------------------------~~-~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                             .++.                           .+ ..+++|+.+++++|. +..++..++..|++|+++++..|
T Consensus       182 i~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~l~~~~~~L~~l~L~~n~-i~~I~~~aF~~~~~L~~l~l~~n  260 (329)
T 3sb4_A          182 IQVGAMGKLEDEIMKAGLQPRDINFLTIEGKLDNADFKLIRDYMPNLVSLDISKTN-ATTIPDFTFAQKKYLLKIKLPHN  260 (329)
T ss_dssp             EEECTTCCHHHHHHHTTCCGGGCSEEEEEECCCHHHHHHHHHHCTTCCEEECTTBC-CCEECTTTTTTCTTCCEEECCTT
T ss_pred             EEecCCCcHHHHHhhcccCccccceEEEeeeecHHHHHHHHHhcCCCeEEECCCCC-cceecHhhhhCCCCCCEEECCcc
Confidence                   0000                           00 137889999999887 77888888999999999999887


Q ss_pred             cccccccCCCCCccchhcccCCCcc-ceeeecCCCCCCCccc--cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          159 FSQWDKVEGGSNASLAELKGLSKLT-TLNIQVPDAQILPQEW--VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~L~-~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                       ++.+        ...+|.++++|+ .+++.. .++.++...  .+++|+.+++. .+..  .......|.++++|+.+
T Consensus       261 -i~~I--------~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF~~c~~L~~l~l~-~n~i--~~I~~~aF~~~~~L~~l  326 (329)
T 3sb4_A          261 -LKTI--------GQRVFSNCGRLAGTLELPA-SVTAIEFGAFMGCDNLRYVLAT-GDKI--TTLGDELFGNGVPSKLI  326 (329)
T ss_dssp             -CCEE--------CTTTTTTCTTCCEEEEECT-TCCEECTTTTTTCTTEEEEEEC-SSCC--CEECTTTTCTTCCCCEE
T ss_pred             -ccee--------hHHHhhCChhccEEEEEcc-cceEEchhhhhCCccCCEEEeC-CCcc--CccchhhhcCCcchhhh
Confidence             5533        456788889998 999988 777776554  77888888873 4444  22234578888888754

>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=99.48  E-value=3e-13  Score=98.20  Aligned_cols=103  Identities=22%  Similarity=0.339  Sum_probs=69.1

Q ss_pred             CCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccC
Q 042164           56 ELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSN  132 (235)
Q Consensus        56 ~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~  132 (235)
                      ..+.++++++.++.+|..+  .++|++|++++|.+.++  ..++.+++|++|++++|.++.++.. +..+++|++|++++
T Consensus        10 ~~~~l~~s~n~l~~ip~~~--~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~   87 (170)
T 3g39_A           10 SGTTVDCSGKSLASVPTGI--PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND   87 (170)
T ss_dssp             ETTEEECTTSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCCEEEeCCCCcCccCccC--CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC
Confidence            4566777777777776544  36677777777777766  4566677777777777777766554 56677777777777


Q ss_pred             CcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          133 CWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       133 ~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      |. +..+++..+..+++|+.|++++|.++
T Consensus        88 N~-l~~~~~~~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           88 NQ-LKSIPRGAFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             SC-CCCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             Cc-cCEeCHHHhcCCCCCCEEEeCCCCCC
Confidence            76 45555554666777777777777665

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.47  E-value=1.4e-14  Score=124.70  Aligned_cols=224  Identities=19%  Similarity=0.104  Sum_probs=139.1

Q ss_pred             cCCCcEEecCCCCC-C---CCCCc------------C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCc-cC
Q 042164            6 RKGPIAISLPQRDI-Q---ELPER------------L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGI-HF   67 (235)
Q Consensus         6 ~~~l~~L~l~~~~l-~---~i~~~------------~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~~   67 (235)
                      +++++.|+++++.. .   -.|..            . .+++|+.|++ +.+......+..+...+++|++|++++| .+
T Consensus        65 ~~~L~~L~L~~~~~~~~~~l~~~~~~~~~~~~l~~l~~~~~~L~~L~L-~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~  143 (594)
T 2p1m_B           65 FPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRL-KRMVVTDDCLELIAKSFKNFKVLVLSSCEGF  143 (594)
T ss_dssp             CTTCCEEEEECSCGGGGGTCSCTTSCCBCHHHHHHHHHHCTTCCEEEE-ESCBCCHHHHHHHHHHCTTCCEEEEESCEEE
T ss_pred             CCCceEEeccCCCchhhcccccccccchhhHHHHHHHHhCCCCCeEEe-eCcEEcHHHHHHHHHhCCCCcEEeCCCcCCC
Confidence            57889999988752 2   11211            1 5789999999 6555444444443336889999999988 55


Q ss_pred             CC--CChhhcCCccCcEEeccCcCCCCc------cccCCCCCCcEEEecCCC--CC--CcchhhccCCCCcEEcccCCcC
Q 042164           68 SS--LPSSLGRLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRGSN--IK--QLPLEIGQLTRLQLLDLSNCWS  135 (235)
Q Consensus        68 ~~--~~~~l~~l~~L~~L~l~~~~l~~~------~~~~~l~~L~~L~l~~~~--~~--~~~~~~~~l~~L~~L~l~~~~~  135 (235)
                      +.  ++..+..+++|++|++++|.+.+.      .....+++|++|+++.+.  ++  .++.....+++|++|++++|..
T Consensus       144 ~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~  223 (594)
T 2p1m_B          144 STDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVP  223 (594)
T ss_dssp             EHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSC
T ss_pred             CHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCc
Confidence            53  455556789999999999886532      223367789999999886  32  2333345678999999998843


Q ss_pred             CCCCchhhhcCCCCCcEEEeccccc-------ccc--------------cc-CCCCCccchhcccCCCccceeeecCCCC
Q 042164          136 LEVIPPNVISKLSRLEELYMDISFS-------QWD--------------KV-EGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       136 ~~~~~~~~l~~~~~L~~L~l~~n~~-------~~~--------------~~-~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      .+.++. .+..+++|+++++..+..       .+.              .. ..........+..+++|++|++++|.+.
T Consensus       224 ~~~l~~-~~~~~~~L~~L~l~~~~~~~~~~~~~~l~~~l~~~~~L~~Ls~~~~~~~~~l~~~~~~~~~L~~L~L~~~~l~  302 (594)
T 2p1m_B          224 LEKLAT-LLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQ  302 (594)
T ss_dssp             HHHHHH-HHHHCTTCSEEECSBCCCCCCHHHHHHHHHHHHTCTTCCEEECCBTCCGGGGGGGHHHHTTCCEEECTTCCCC
T ss_pred             HHHHHH-HHhcCCcceEcccccccCccchhhHHHHHHHHhcCCCcccccCCcccchhhHHHHHHhhCCCCEEEccCCCCC
Confidence            444444 367778888887654421       000              00 0011122333446789999999999876


Q ss_pred             C--CCccc-cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          194 I--LPQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       194 ~--~p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      .  ++... .+++|+.|++..+  .. ..........+++|+.|
T Consensus       303 ~~~l~~~~~~~~~L~~L~l~~~--~~-~~~l~~l~~~~~~L~~L  343 (594)
T 2p1m_B          303 SYDLVKLLCQCPKLQRLWVLDY--IE-DAGLEVLASTCKDLREL  343 (594)
T ss_dssp             HHHHHHHHTTCTTCCEEEEEGG--GH-HHHHHHHHHHCTTCCEE
T ss_pred             HHHHHHHHhcCCCcCEEeCcCc--cC-HHHHHHHHHhCCCCCEE
Confidence            2  22222 7899999999643  21 11122233346666654

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.46  E-value=4.7e-13  Score=97.52  Aligned_cols=101  Identities=24%  Similarity=0.423  Sum_probs=59.4

Q ss_pred             cEEeecCccCCCCChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCc
Q 042164           58 KVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCW  134 (235)
Q Consensus        58 ~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~  134 (235)
                      +.++++++.++.+|..+.  ++|++|++++|.+.++  ..++.+++|++|++++|.++.+|.. +..+++|++|++++|.
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 TLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCc
Confidence            556666666666665432  5666666666666655  4455666666666666666655543 4556666666666665


Q ss_pred             CCCCCchhhhcCCCCCcEEEecccccc
Q 042164          135 SLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       135 ~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                       +..++...+..+++|+.|++++|.+.
T Consensus        93 -l~~l~~~~~~~l~~L~~L~L~~N~~~  118 (174)
T 2r9u_A           93 -LKSIPRGAFDNLKSLTHIYLYNNPWD  118 (174)
T ss_dssp             -CCCCCTTTTTTCTTCSEEECCSSCBC
T ss_pred             -cceeCHHHhccccCCCEEEeCCCCcc
Confidence             44455444555666666666666554

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=99.46  E-value=1.1e-14  Score=125.40  Aligned_cols=33  Identities=15%  Similarity=0.196  Sum_probs=21.6

Q ss_pred             cCCCccceeeecCCCCC-CCccc--cccccceeEEE
Q 042164          178 GLSKLTTLNIQVPDAQI-LPQEW--VFVELQSYRIC  210 (235)
Q Consensus       178 ~~~~L~~L~l~~n~~~~-~p~~~--~~~~L~~l~l~  210 (235)
                      .+++|+.|++.+|.+.. .+..+  .+++|+.|++.
T Consensus       370 ~~~~L~~L~~~~~~l~~~~~~~l~~~~~~L~~L~L~  405 (594)
T 2p1m_B          370 GCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLC  405 (594)
T ss_dssp             HCTTCCEEEEEESCCCHHHHHHHHHHCTTCCEEEEE
T ss_pred             hchhHHHHHHhcCCcCHHHHHHHHhhCCCcceeEee
Confidence            46777777777777652 22222  47788888886

>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=99.42  E-value=2.1e-12  Score=93.62  Aligned_cols=102  Identities=20%  Similarity=0.326  Sum_probs=60.6

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChh-hcCCccCcEEeccC
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSS-LGRLINLQTLCLDW   87 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-l~~l~~L~~L~l~~   87 (235)
                      .++++++++.++.+|..+ .++++.|++  .++.+..+++..|..+++|++|++++|.++.+++. |..+++|++|++++
T Consensus        11 ~~~l~~s~n~l~~ip~~~-~~~l~~L~L--~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~   87 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGI-PTTTQVLYL--YDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND   87 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEEC--CSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEeCCCCcCccCccC-CCCCcEEEc--CCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC
Confidence            456677777776666554 366666666  44444444444456666666666666666665443 45666666666666


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCC
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIK  113 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~  113 (235)
                      |.+..+  ..+..+++|++|++++|.+.
T Consensus        88 N~l~~~~~~~~~~l~~L~~L~L~~N~~~  115 (170)
T 3g39_A           88 NQLKSIPRGAFDNLKSLTHIWLLNNPWD  115 (170)
T ss_dssp             SCCCCCCTTTTTTCTTCCEEECCSSCBC
T ss_pred             CccCEeCHHHhcCCCCCCEEEeCCCCCC
Confidence            666655  33555666666666666554

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.42  E-value=2.1e-12  Score=94.05  Aligned_cols=80  Identities=23%  Similarity=0.356  Sum_probs=39.4

Q ss_pred             CCCcEEeecCccCCCC-ChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcc
Q 042164           55 EELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDL  130 (235)
Q Consensus        55 ~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l  130 (235)
                      ..|++|++++|.++.+ |..+..+++|++|++++|.+..+  ..+..+++|++|++++|.++.+|.. +..+++|++|++
T Consensus        33 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L  112 (174)
T 2r9u_A           33 TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL  112 (174)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEEC
T ss_pred             CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCccceeCHHHhccccCCCEEEe
Confidence            4444455555554443 23344455555555555554444  2234455555555555555544443 445555555555


Q ss_pred             cCCc
Q 042164          131 SNCW  134 (235)
Q Consensus       131 ~~~~  134 (235)
                      ++|.
T Consensus       113 ~~N~  116 (174)
T 2r9u_A          113 YNNP  116 (174)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            5554

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.40  E-value=3.3e-12  Score=104.94  Aligned_cols=142  Identities=15%  Similarity=0.184  Sum_probs=76.6

Q ss_pred             CCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEecc
Q 042164            8 GPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLD   86 (235)
Q Consensus         8 ~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~   86 (235)
                      +++.+.+..+ ++.|+... .-.+|+.+.+  .+ .+..++...|..+.+|+.+++.+|.++.++.....+.+|+.+.+.
T Consensus       136 ~L~~i~l~~~-i~~I~~~aF~~~~L~~i~l--p~-~l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp  211 (401)
T 4fdw_A          136 QIAKVVLNEG-LKSIGDMAFFNSTVQEIVF--PS-TLEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLP  211 (401)
T ss_dssp             CCSEEECCTT-CCEECTTTTTTCCCCEEEC--CT-TCCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECC
T ss_pred             CccEEEeCCC-ccEECHHhcCCCCceEEEe--CC-CccEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEEEeC
Confidence            4556665543 55555444 2245777777  33 445566666777777777777777776665433335667777666


Q ss_pred             CcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164           87 WCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus        87 ~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      .+ +..+  .+|..+++|+.+++..+ ++.++.. |.. .+|+.+.+..+  +..++..++..|++|+.+.+..+
T Consensus       212 ~~-l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i~lp~~--i~~I~~~aF~~c~~L~~l~l~~~  281 (401)
T 4fdw_A          212 VT-LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTVKLPNG--VTNIASRAFYYCPELAEVTTYGS  281 (401)
T ss_dssp             TT-CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEEEEETT--CCEECTTTTTTCTTCCEEEEESS
T ss_pred             Cc-hheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCccEEEeCCC--ccEEChhHhhCCCCCCEEEeCCc
Confidence            33 4444  55666666666666553 3333222 222 34444444322  33344444445555555554444

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=99.40  E-value=9.9e-12  Score=102.13  Aligned_cols=185  Identities=12%  Similarity=0.196  Sum_probs=116.7

Q ss_pred             CCCcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCCh-hhcCCccCcEEe
Q 042164            7 KGPIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPS-SLGRLINLQTLC   84 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~-~l~~l~~L~~L~   84 (235)
                      .+|+.+++..+.++.++... .+.+|+.+.+  ..+ +..++...|..+.+|+.+++..+ ++.++. .|.. .+|+.+.
T Consensus       180 ~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~l--p~~-l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i~  254 (401)
T 4fdw_A          180 YNLKKADLSKTKITKLPASTFVYAGIEEVLL--PVT-LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTVK  254 (401)
T ss_dssp             TTCCEEECTTSCCSEECTTTTTTCCCSEEEC--CTT-CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEEE
T ss_pred             ccCCeeecCCCcceEechhhEeecccCEEEe--CCc-hheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCccEEE
Confidence            34555555555555555444 4455555555  222 44555555666666666666653 444432 3333 5666666


Q ss_pred             ccCcCCCCc--cccCCCCCCcEEEecCCCCC-----Ccc-hhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEec
Q 042164           85 LDWCQLEDV--AAIGQLKKLEILSFRGSNIK-----QLP-LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD  156 (235)
Q Consensus        85 l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~-----~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~  156 (235)
                      +. +.+..+  .+|..+++|+.+.+..+.+.     .++ ..|..|++|+.+.+..+  +..++..++.+|.+|+.+.+.
T Consensus       255 lp-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~~~--i~~I~~~aF~~c~~L~~l~lp  331 (401)
T 4fdw_A          255 LP-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEGCPKLARFEIPES--IRILGQGLLGGNRKVTQLTIP  331 (401)
T ss_dssp             EE-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTTCTTCCEECCCTT--CCEECTTTTTTCCSCCEEEEC
T ss_pred             eC-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhCCccCCeEEeCCc--eEEEhhhhhcCCCCccEEEEC
Confidence            63 334444  66777888888888777654     344 34778888888888743  566776678888888888885


Q ss_pred             cccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cc-cccceeEE
Q 042164          157 ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VF-VELQSYRI  209 (235)
Q Consensus       157 ~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~-~~L~~l~l  209 (235)
                      .+ ++.+        ...+|.++ +|+.+++++|....++...  .+ .+++.+.+
T Consensus       332 ~~-l~~I--------~~~aF~~~-~L~~l~l~~n~~~~l~~~~F~~~~~~l~~l~v  377 (401)
T 4fdw_A          332 AN-VTQI--------NFSAFNNT-GIKEVKVEGTTPPQVFEKVWYGFPDDITVIRV  377 (401)
T ss_dssp             TT-CCEE--------CTTSSSSS-CCCEEEECCSSCCBCCCSSCCCSCTTCCEEEE
T ss_pred             cc-ccEE--------cHHhCCCC-CCCEEEEcCCCCcccccccccCCCCCccEEEe
Confidence            54 4422        35577788 8999999988877666554  44 35677777

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

Probab=99.37  E-value=8.5e-14  Score=113.35  Aligned_cols=134  Identities=13%  Similarity=0.119  Sum_probs=76.2

Q ss_pred             CCCcEEeecCccCCC--CChhhcCCccCcEEeccCcCCCCc--cc----c-CCCCCCcEEEecCCCCCC-----cchhhc
Q 042164           55 EELKVLDFTGIHFSS--LPSSLGRLINLQTLCLDWCQLEDV--AA----I-GQLKKLEILSFRGSNIKQ-----LPLEIG  120 (235)
Q Consensus        55 ~~L~~L~l~~~~~~~--~~~~l~~l~~L~~L~l~~~~l~~~--~~----~-~~l~~L~~L~l~~~~~~~-----~~~~~~  120 (235)
                      ..|++|++++|.++.  +......+++|++|++++|.+...  ..    + ...++|++|++++|.++.     ++..+.
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~  180 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLA  180 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHh
Confidence            567777777776653  212223345677777777766532  22    2 235667777777776652     334445


Q ss_pred             cCCCCcEEcccCCcCCCCCc----hhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          121 QLTRLQLLDLSNCWSLEVIP----PNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       121 ~l~~L~~L~l~~~~~~~~~~----~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      .+++|++|++++|. ++...    .+.+..+++|++|++++|.++..    ........+..+++|+.|+|++|.+.
T Consensus       181 ~~~~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          181 GNTSVTHLSLLHTG-LGDEGLELLAAQLDRNRQLQELNVAYNGAGDT----AALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             TCSSCCEEECTTSS-CHHHHHHHHHHHGGGCSCCCEEECCSSCCCHH----HHHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             cCCCcCEEeCCCCC-CCcHHHHHHHHHHhcCCCcCeEECCCCCCCHH----HHHHHHHHHHhCCCCCEEeccCCCCC
Confidence            66677777777776 33221    12245566777777777766532    11122334445677777777777765

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

Probab=99.31  E-value=4.1e-13  Score=109.32  Aligned_cols=157  Identities=12%  Similarity=0.021  Sum_probs=116.1

Q ss_pred             ccCCCcEEecCCCCCCC-----CCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-----Ch
Q 042164            5 IRKGPIAISLPQRDIQE-----LPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-----PS   72 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~-----i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-----~~   72 (235)
                      .++.++.|++++|.++.     +....  ..++|+.|++ +.|.........++..+.+|+.|++++|.++..     ..
T Consensus        70 ~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~L-s~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~  148 (372)
T 3un9_A           70 VLSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNL-ASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRD  148 (372)
T ss_dssp             HHTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEEC-TTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHH
T ss_pred             HHhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEe-cCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHH
Confidence            35789999999999873     22222  3479999999 555543333334445567899999999999742     22


Q ss_pred             hh-cCCccCcEEeccCcCCCCc------cccCCCCCCcEEEecCCCCCC-----cchhhccCCCCcEEcccCCcCCCCCc
Q 042164           73 SL-GRLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRGSNIKQ-----LPLEIGQLTRLQLLDLSNCWSLEVIP  140 (235)
Q Consensus        73 ~l-~~l~~L~~L~l~~~~l~~~------~~~~~l~~L~~L~l~~~~~~~-----~~~~~~~l~~L~~L~l~~~~~~~~~~  140 (235)
                      .+ ...++|++|++++|.+...      ..+...++|++|++++|.++.     ++..+..+++|+.|++++|. ++...
T Consensus       149 ~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~-i~~~g  227 (372)
T 3un9_A          149 LLLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNG-AGDTA  227 (372)
T ss_dssp             HHHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC-CCHHH
T ss_pred             HHHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC-CCHHH
Confidence            23 3578999999999998742      455788999999999999872     35567788899999999998 44332


Q ss_pred             h----hhhcCCCCCcEEEecccccccc
Q 042164          141 P----NVISKLSRLEELYMDISFSQWD  163 (235)
Q Consensus       141 ~----~~l~~~~~L~~L~l~~n~~~~~  163 (235)
                      .    ..+..+++|++|++++|.++..
T Consensus       228 ~~~l~~~L~~~~~L~~L~Ls~N~i~~~  254 (372)
T 3un9_A          228 ALALARAAREHPSLELLHLYFNELSSE  254 (372)
T ss_dssp             HHHHHHHHHHCSSCCEEECTTSSCCHH
T ss_pred             HHHHHHHHHhCCCCCEEeccCCCCCHH
Confidence            1    2255678999999999998733

>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=99.22  E-value=5.1e-11  Score=95.99  Aligned_cols=92  Identities=24%  Similarity=0.166  Sum_probs=58.1

Q ss_pred             CCcccchhhhhCCCCCcEEeecC-ccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcch
Q 042164           42 GPMQISDHFFEGTEELKVLDFTG-IHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPL  117 (235)
Q Consensus        42 ~~~~~~~~~~~~~~~L~~L~l~~-~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~  117 (235)
                      .+..+|.  +..+.+|++|+|++ |.++.++ ..|..+++|++|++++|.++++  ..|+.+++|++|++++|.++.+|.
T Consensus        20 ~l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~   97 (347)
T 2ifg_A           20 ALDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSW   97 (347)
T ss_dssp             CCTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCS
T ss_pred             CCCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCccceeCH
Confidence            4555665  46666777777764 6666654 4566677777777777776655  456667777777777777766655


Q ss_pred             hhccCCCCcEEcccCCcC
Q 042164          118 EIGQLTRLQLLDLSNCWS  135 (235)
Q Consensus       118 ~~~~l~~L~~L~l~~~~~  135 (235)
                      .+.....|+.|++.+|.+
T Consensus        98 ~~~~~~~L~~l~l~~N~~  115 (347)
T 2ifg_A           98 KTVQGLSLQELVLSGNPL  115 (347)
T ss_dssp             TTTCSCCCCEEECCSSCC
T ss_pred             HHcccCCceEEEeeCCCc
Confidence            432222377777776663

>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=99.14  E-value=3e-10  Score=91.44  Aligned_cols=102  Identities=17%  Similarity=0.226  Sum_probs=87.3

Q ss_pred             cEEecCCC-CCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEecc
Q 042164           10 IAISLPQR-DIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLD   86 (235)
Q Consensus        10 ~~L~l~~~-~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~   86 (235)
                      ..++++++ .+..||. + .+.+|+.|+| +.++.+..++...|..+.+|++|+|++|.++.++ ..|..+++|++|+++
T Consensus        11 ~~v~~~~~n~l~~ip~-l~~~~~L~~L~l-~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           11 SGLRCTRDGALDSLHH-LPGAENLTELYI-ENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             SCEECCSSCCCTTTTT-SCSCSCCSEEEC-CSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CEEEcCCCCCCCccCC-CCCCCCeeEEEc-cCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            46799998 8999999 6 8899999999 4347788888777899999999999999999865 568999999999999


Q ss_pred             CcCCCCc--cccCCCCCCcEEEecCCCCCC
Q 042164           87 WCQLEDV--AAIGQLKKLEILSFRGSNIKQ  114 (235)
Q Consensus        87 ~~~l~~~--~~~~~l~~L~~L~l~~~~~~~  114 (235)
                      +|.+..+  ..+..+. |+.|++.+|.+..
T Consensus        89 ~N~l~~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           89 FNALESLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             SSCCSCCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             CCccceeCHHHcccCC-ceEEEeeCCCccC
Confidence            9999988  3444454 9999999999874

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

Probab=98.90  E-value=1e-09  Score=88.81  Aligned_cols=138  Identities=18%  Similarity=0.200  Sum_probs=71.1

Q ss_pred             hhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCC--ccccC--CCCCCcEEEecCC--C------CCCcch
Q 042164           50 FFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLED--VAAIG--QLKKLEILSFRGS--N------IKQLPL  117 (235)
Q Consensus        50 ~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~--~~~~~--~l~~L~~L~l~~~--~------~~~~~~  117 (235)
                      ++..++.|+.|.++++.-..++. + .+++|++|++..|.+..  +..+.  .+++|++|+++.+  .      +..+..
T Consensus       167 ll~~~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~  244 (362)
T 2ra8_A          167 VLDAMPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP  244 (362)
T ss_dssp             HHHTCTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGG
T ss_pred             HHhcCCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHH
Confidence            34566777777776663123333 2 36677777777666552  23332  5667777776421  1      111112


Q ss_pred             hh--ccCCCCcEEcccCCcCCCCCchhhh--cCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          118 EI--GQLTRLQLLDLSNCWSLEVIPPNVI--SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       118 ~~--~~l~~L~~L~l~~~~~~~~~~~~~l--~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      .+  ..+++|++|++++|.+.......+.  ..+++|++|+++.|.+...    ........+..+++|+.|++++|.+.
T Consensus       245 ~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~n~L~d~----G~~~L~~~L~~l~~L~~L~L~~n~i~  320 (362)
T 2ra8_A          245 LFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDE----GARLLLDHVDKIKHLKFINMKYNYLS  320 (362)
T ss_dssp             GSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHH----HHHHHHTTHHHHTTCSEEECCSBBCC
T ss_pred             HHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChH----HHHHHHhhcccCCcceEEECCCCcCC
Confidence            22  2356777777776653222221111  2456677777777666522    00112223345667777777777654

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

Probab=98.80  E-value=2.1e-09  Score=78.80  Aligned_cols=80  Identities=14%  Similarity=0.138  Sum_probs=39.0

Q ss_pred             hhCCCCCcEEeecCc-cCCC-----CChhhcCCccCcEEeccCcCCCCc------cccCCCCCCcEEEecCCCCCC----
Q 042164           51 FEGTEELKVLDFTGI-HFSS-----LPSSLGRLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRGSNIKQ----  114 (235)
Q Consensus        51 ~~~~~~L~~L~l~~~-~~~~-----~~~~l~~l~~L~~L~l~~~~l~~~------~~~~~l~~L~~L~l~~~~~~~----  114 (235)
                      +...+.|++|++++| .++.     +...+...++|++|++++|.+..-      ..+...++|++|++++|.++.    
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~  111 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL  111 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHH
Confidence            345566666666666 5542     223344455566666666655421      333334455555555555541    


Q ss_pred             -cchhhccCCCCcEEcc
Q 042164          115 -LPLEIGQLTRLQLLDL  130 (235)
Q Consensus       115 -~~~~~~~l~~L~~L~l  130 (235)
                       +...+...++|++|++
T Consensus       112 ~l~~~L~~n~~L~~L~L  128 (185)
T 1io0_A          112 ALVEALQSNTSLIELRI  128 (185)
T ss_dssp             HHHHGGGGCSSCCEEEC
T ss_pred             HHHHHHHhCCCceEEEe
Confidence             2233344444555554

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

Probab=98.75  E-value=6.8e-09  Score=76.08  Aligned_cols=117  Identities=11%  Similarity=0.050  Sum_probs=84.7

Q ss_pred             hhhcCCccCcEEeccCc-CCCC-----c-cccCCCCCCcEEEecCCCCC-----CcchhhccCCCCcEEcccCCcCCCCC
Q 042164           72 SSLGRLINLQTLCLDWC-QLED-----V-AAIGQLKKLEILSFRGSNIK-----QLPLEIGQLTRLQLLDLSNCWSLEVI  139 (235)
Q Consensus        72 ~~l~~l~~L~~L~l~~~-~l~~-----~-~~~~~l~~L~~L~l~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~~~~  139 (235)
                      ..+...++|++|++++| .+..     + ..+...++|++|++++|.+.     .+...+...++|++|++++|. ++..
T Consensus        30 ~~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~-i~~~  108 (185)
T 1io0_A           30 RIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNF-ISGS  108 (185)
T ss_dssp             HHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSC-CCHH
T ss_pred             HHHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCc-CCHH
Confidence            44667888999999998 7762     2 66677788999999999887     244556677889999999987 4432


Q ss_pred             c----hhhhcCCCCCcEEEe--ccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          140 P----PNVISKLSRLEELYM--DISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       140 ~----~~~l~~~~~L~~L~l--~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      .    .+.+...++|++|++  ++|.+...    ........+...+.|++|++++|.+.
T Consensus       109 g~~~l~~~L~~n~~L~~L~L~~~~N~i~~~----g~~~l~~~L~~n~~L~~L~L~~n~i~  164 (185)
T 1io0_A          109 GILALVEALQSNTSLIELRIDNQSQPLGNN----VEMEIANMLEKNTTLLKFGYHFTQQG  164 (185)
T ss_dssp             HHHHHHHGGGGCSSCCEEECCCCSSCCCHH----HHHHHHHHHHHCSSCCEEECCCSSHH
T ss_pred             HHHHHHHHHHhCCCceEEEecCCCCCCCHH----HHHHHHHHHHhCCCcCEEeccCCCCC
Confidence            1    223667788999999  77888633    11224456667788999999998875

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

Probab=98.72  E-value=1.5e-08  Score=82.02  Aligned_cols=156  Identities=17%  Similarity=0.048  Sum_probs=103.0

Q ss_pred             hCCCCCcEEeecCccCC----------CCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCC-cchhhc
Q 042164           52 EGTEELKVLDFTGIHFS----------SLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQ-LPLEIG  120 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~----------~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~-~~~~~~  120 (235)
                      ..+++|+.|.+.+....          .+...+..+|+|+.|++++|.-..+..+. +++|++|++..+.+.. ....+.
T Consensus       136 ~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~l~~~~-~~~L~~L~L~~~~l~~~~l~~l~  214 (362)
T 2ra8_A          136 EKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGKKP-RPNLKSLEIISGGLPDSVVEDIL  214 (362)
T ss_dssp             HHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCBCCSCB-CTTCSEEEEECSBCCHHHHHHHH
T ss_pred             hhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCceecccc-CCCCcEEEEecCCCChHHHHHHH
Confidence            45789999988754331          24455678899999999887422333343 7899999999888762 222333


Q ss_pred             --cCCCCcEEcccCC--cCCCC-----Cchhhh--cCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeec
Q 042164          121 --QLTRLQLLDLSNC--WSLEV-----IPPNVI--SKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQV  189 (235)
Q Consensus       121 --~l~~L~~L~l~~~--~~~~~-----~~~~~l--~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  189 (235)
                        .+++|++|+++.+  ...+.     +... +  ..+++|+.|++.+|.+....     .........+++|+.|+|+.
T Consensus       215 ~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~-l~~~~~p~Lr~L~L~~~~i~~~~-----~~~la~a~~~~~L~~LdLs~  288 (362)
T 2ra8_A          215 GSDLPNLEKLVLYVGVEDYGFDGDMNVFRPL-FSKDRFPNLKWLGIVDAEEQNVV-----VEMFLESDILPQLETMDISA  288 (362)
T ss_dssp             HSBCTTCCEEEEECBCGGGTCCSCGGGTGGG-SCTTTCTTCCEEEEESCTTHHHH-----HHHHHHCSSGGGCSEEECCS
T ss_pred             HccCCCCcEEEEeccccccccchhHHHHHHH-HhcCCCCCcCEEeCCCCCCchHH-----HHHHHhCccCCCCCEEECCC
Confidence              7899999998632  11111     1111 2  35789999999999886320     01122223578999999999


Q ss_pred             CCCCC-----CCccc-cccccceeEEEecccc
Q 042164          190 PDAQI-----LPQEW-VFVELQSYRICIGNKW  215 (235)
Q Consensus       190 n~~~~-----~p~~~-~~~~L~~l~l~~~~~~  215 (235)
                      |.+..     ++..+ .+++|+.|++. .+.+
T Consensus       289 n~L~d~G~~~L~~~L~~l~~L~~L~L~-~n~i  319 (362)
T 2ra8_A          289 GVLTDEGARLLLDHVDKIKHLKFINMK-YNYL  319 (362)
T ss_dssp             SCCBHHHHHHHHTTHHHHTTCSEEECC-SBBC
T ss_pred             CCCChHHHHHHHhhcccCCcceEEECC-CCcC
Confidence            99874     34433 67899999995 4433

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.61  E-value=8.1e-07  Score=72.68  Aligned_cols=79  Identities=14%  Similarity=0.154  Sum_probs=42.8

Q ss_pred             hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcc
Q 042164          119 IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQE  198 (235)
Q Consensus       119 ~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~  198 (235)
                      +.++..|+.+.+...  ...++..++..|.+|+.+.+..+ ++.+        ...+|.++.+|+.+.+..+ ++.+...
T Consensus       284 F~~c~~L~~i~l~~~--i~~I~~~aF~~c~~L~~i~lp~~-v~~I--------~~~aF~~C~~L~~i~ip~s-v~~I~~~  351 (394)
T 4gt6_A          284 FMNCPALQDIEFSSR--ITELPESVFAGCISLKSIDIPEG-ITQI--------LDDAFAGCEQLERIAIPSS-VTKIPES  351 (394)
T ss_dssp             TTTCTTCCEEECCTT--CCEECTTTTTTCTTCCEEECCTT-CCEE--------CTTTTTTCTTCCEEEECTT-CCBCCGG
T ss_pred             cccccccccccCCCc--ccccCceeecCCCCcCEEEeCCc-ccEe--------hHhHhhCCCCCCEEEECcc-cCEEhHh
Confidence            334444444444321  33444555666666666666433 2211        2446667777777777543 5556554


Q ss_pred             c--cccccceeEE
Q 042164          199 W--VFVELQSYRI  209 (235)
Q Consensus       199 ~--~~~~L~~l~l  209 (235)
                      .  .|.+|+.+++
T Consensus       352 aF~~C~~L~~i~~  364 (394)
T 4gt6_A          352 AFSNCTALNNIEY  364 (394)
T ss_dssp             GGTTCTTCCEEEE
T ss_pred             HhhCCCCCCEEEE
Confidence            3  6677777776

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.52  E-value=7.1e-07  Score=73.00  Aligned_cols=98  Identities=9%  Similarity=0.109  Sum_probs=66.5

Q ss_pred             hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcc
Q 042164          119 IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQE  198 (235)
Q Consensus       119 ~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~  198 (235)
                      +..+.+|+.+.+.++  ...++..++..|.+|+.+.+..+ ++.+        ...+|.++.+|+.+++..+ ++.+...
T Consensus       293 F~~~~~L~~i~l~~~--i~~I~~~aF~~c~~L~~i~lp~~-v~~I--------~~~aF~~c~~L~~i~lp~~-l~~I~~~  360 (394)
T 4fs7_A          293 FYGCSSLTEVKLLDS--VKFIGEEAFESCTSLVSIDLPYL-VEEI--------GKRSFRGCTSLSNINFPLS-LRKIGAN  360 (394)
T ss_dssp             TTTCTTCCEEEECTT--CCEECTTTTTTCTTCCEECCCTT-CCEE--------CTTTTTTCTTCCEECCCTT-CCEECTT
T ss_pred             ccccccccccccccc--cceechhhhcCCCCCCEEEeCCc-ccEE--------hHHhccCCCCCCEEEECcc-ccEehHH
Confidence            556667777776654  45566666888888888888643 4422        3567888999999999766 7666665


Q ss_pred             c--cccccceeEEEecccccccchhhhhhhhhccccC
Q 042164          199 W--VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQG  233 (235)
Q Consensus       199 ~--~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~  233 (235)
                      .  .|.+|+.+++. .+..  ..  ...+.++++|++
T Consensus       361 aF~~C~~L~~i~lp-~~~~--~~--~~~F~~c~~L~~  392 (394)
T 4fs7_A          361 AFQGCINLKKVELP-KRLE--QY--RYDFEDTTKFKW  392 (394)
T ss_dssp             TBTTCTTCCEEEEE-GGGG--GG--GGGBCTTCEEEE
T ss_pred             HhhCCCCCCEEEEC-CCCE--Eh--hheecCCCCCcE
Confidence            4  77899999884 3222  11  246888888764

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=98.49  E-value=2e-06  Score=70.27  Aligned_cols=146  Identities=12%  Similarity=0.113  Sum_probs=93.5

Q ss_pred             chhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcch-hhccCCCC
Q 042164           47 SDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRL  125 (235)
Q Consensus        47 ~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L  125 (235)
                      +...|..+..++.+.+..+...--...+..+..++.+......+.+ ..+..+.+|+.+.+..+ ++.++. +|.++.+|
T Consensus       245 ~~~~f~~~~~l~~~~~~~~~~~i~~~~F~~~~~l~~~~~~~~~i~~-~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L  322 (394)
T 4fs7_A          245 GKSVFYGCTDLESISIQNNKLRIGGSLFYNCSGLKKVIYGSVIVPE-KTFYGCSSLTEVKLLDS-VKFIGEEAFESCTSL  322 (394)
T ss_dssp             CSSTTTTCSSCCEEEECCTTCEECSCTTTTCTTCCEEEECSSEECT-TTTTTCTTCCEEEECTT-CCEECTTTTTTCTTC
T ss_pred             ccccccccccceeEEcCCCcceeeccccccccccceeccCceeecc-ccccccccccccccccc-cceechhhhcCCCCC
Confidence            3334555566666666544222122345556666666554433221 45667788899888765 565544 48889999


Q ss_pred             cEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-ccccc
Q 042164          126 QLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVEL  204 (235)
Q Consensus       126 ~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L  204 (235)
                      +.+++..+  ...+...++.+|.+|+.+.+..+ ++.+        ...+|.++++|+.+++..+ +..+.... .+++|
T Consensus       323 ~~i~lp~~--v~~I~~~aF~~c~~L~~i~lp~~-l~~I--------~~~aF~~C~~L~~i~lp~~-~~~~~~~F~~c~~L  390 (394)
T 4fs7_A          323 VSIDLPYL--VEEIGKRSFRGCTSLSNINFPLS-LRKI--------GANAFQGCINLKKVELPKR-LEQYRYDFEDTTKF  390 (394)
T ss_dssp             CEECCCTT--CCEECTTTTTTCTTCCEECCCTT-CCEE--------CTTTBTTCTTCCEEEEEGG-GGGGGGGBCTTCEE
T ss_pred             CEEEeCCc--ccEEhHHhccCCCCCCEEEECcc-ccEe--------hHHHhhCCCCCCEEEECCC-CEEhhheecCCCCC
Confidence            99999764  66777777999999999998765 4422        3568889999999999764 33333322 44555


Q ss_pred             ce
Q 042164          205 QS  206 (235)
Q Consensus       205 ~~  206 (235)
                      +.
T Consensus       391 ~~  392 (394)
T 4fs7_A          391 KW  392 (394)
T ss_dssp             EE
T ss_pred             cE
Confidence            44

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.41  E-value=4.1e-07  Score=70.23  Aligned_cols=78  Identities=19%  Similarity=0.280  Sum_probs=40.6

Q ss_pred             CCccCcEEeccCcCCCCcc----ccCCCCCCcEEEecCCCCCCcchhhccCC--CCcEEcccCCcCCCCCc------hhh
Q 042164           76 RLINLQTLCLDWCQLEDVA----AIGQLKKLEILSFRGSNIKQLPLEIGQLT--RLQLLDLSNCWSLEVIP------PNV  143 (235)
Q Consensus        76 ~l~~L~~L~l~~~~l~~~~----~~~~l~~L~~L~l~~~~~~~~~~~~~~l~--~L~~L~l~~~~~~~~~~------~~~  143 (235)
                      .+++|+.|++++|.+.++.    .++.+++|+.|++++|.++.+. .+..+.  +|++|++++|.+.+.++      ..+
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~-~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~i  246 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAI  246 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGG-GGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCch-hhhhcccCCcceEEccCCcCccccCcchhHHHHH
Confidence            4556666666666655442    2235566666666666665441 122222  66666666666443333      123


Q ss_pred             hcCCCCCcEEE
Q 042164          144 ISKLSRLEELY  154 (235)
Q Consensus       144 l~~~~~L~~L~  154 (235)
                      +..+++|+.|+
T Consensus       247 l~~~P~L~~LD  257 (267)
T 3rw6_A          247 RERFPKLLRLD  257 (267)
T ss_dssp             HHHCTTCCEES
T ss_pred             HHHCcccCeEC
Confidence            55566666654

>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=98.32  E-value=4.6e-07  Score=65.28  Aligned_cols=32  Identities=9%  Similarity=0.074  Sum_probs=15.6

Q ss_pred             cCcEEeccCcCCCC--ccccCCCCCCcEEEecCC
Q 042164           79 NLQTLCLDWCQLED--VAAIGQLKKLEILSFRGS  110 (235)
Q Consensus        79 ~L~~L~l~~~~l~~--~~~~~~l~~L~~L~l~~~  110 (235)
                      +|+.+++++|.++.  +..+..+++|++|++++|
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C   95 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKC   95 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESC
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCC
Confidence            45555555555442  244444455555555544

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=98.31  E-value=3.9e-06  Score=68.57  Aligned_cols=124  Identities=15%  Similarity=0.140  Sum_probs=75.8

Q ss_pred             hhcCCccCcEEeccCcCCC-CccccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCC
Q 042164           73 SLGRLINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRL  150 (235)
Q Consensus        73 ~l~~l~~L~~L~l~~~~l~-~~~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L  150 (235)
                      .|..+.+|+.+.+..+... +-.++..+..|+.+.+. +.++.++. .|..|.+|+.+.+..+  +..+...++.+|.+|
T Consensus       260 aF~~c~~L~~i~lp~~~~~I~~~aF~~c~~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~lp~~--v~~I~~~aF~~C~~L  336 (394)
T 4gt6_A          260 AFDSCAYLASVKMPDSVVSIGTGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDIPEG--ITQILDDAFAGCEQL  336 (394)
T ss_dssp             TTTTCSSCCEEECCTTCCEECTTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTC
T ss_pred             eeeecccccEEecccccceecCcccccccccccccCC-CcccccCceeecCCCCcCEEEeCCc--ccEehHhHhhCCCCC
Confidence            4667777888777655432 22667777778887775 34555544 3777788888887654  455666667788888


Q ss_pred             cEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEE
Q 042164          151 EELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRI  209 (235)
Q Consensus       151 ~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l  209 (235)
                      +.+.+..+ ++.+        ...+|.++++|+.+++.++... +-....+.+|+.+.+
T Consensus       337 ~~i~ip~s-v~~I--------~~~aF~~C~~L~~i~~~~~~~~-~~~~~~~~~L~~i~i  385 (394)
T 4gt6_A          337 ERIAIPSS-VTKI--------PESAFSNCTALNNIEYSGSRSQ-WNAISTDSGLQNLPV  385 (394)
T ss_dssp             CEEEECTT-CCBC--------CGGGGTTCTTCCEEEESSCHHH-HHTCBCCCCC-----
T ss_pred             CEEEECcc-cCEE--------hHhHhhCCCCCCEEEECCceee-hhhhhccCCCCEEEe
Confidence            88887543 4322        3557777888888888776432 111125566776666

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.18  E-value=2.7e-06  Score=65.61  Aligned_cols=110  Identities=20%  Similarity=0.143  Sum_probs=71.7

Q ss_pred             hcCCccCcE--EeccCcCCCCc----c-ccCCCCCCcEEEecCCCCCCcc---hhhccCCCCcEEcccCCcCCCCCch-h
Q 042164           74 LGRLINLQT--LCLDWCQLEDV----A-AIGQLKKLEILSFRGSNIKQLP---LEIGQLTRLQLLDLSNCWSLEVIPP-N  142 (235)
Q Consensus        74 l~~l~~L~~--L~l~~~~l~~~----~-~~~~l~~L~~L~l~~~~~~~~~---~~~~~l~~L~~L~l~~~~~~~~~~~-~  142 (235)
                      +...+.|..  ++++.|....+    . ....+++|+.|++++|.++.++   ..+..+++|+.|++++|. +..+.. .
T Consensus       137 l~~dp~L~~~~l~l~~N~~~~~~~~l~i~~~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~-i~~~~~l~  215 (267)
T 3rw6_A          137 LRSDPDLVAQNIDVVLNRRSCMAATLRIIEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSERELD  215 (267)
T ss_dssp             GGGCHHHHHTTCCCCTTSHHHHHHHHHHHHHHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSC-CCSGGGGG
T ss_pred             cCCCcchhhcCccccCCHHHHHHHHHHHHHhhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCc-cCCchhhh
Confidence            444455554  55666653322    1 1246789999999999998654   556789999999999998 444421 1


Q ss_pred             hhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCcccee
Q 042164          143 VISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLN  186 (235)
Q Consensus       143 ~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~  186 (235)
                      .+..+ +|++|++++|.+.+.. +.........+..+|+|+.||
T Consensus       216 ~l~~l-~L~~L~L~~Npl~~~~-~~~~~y~~~il~~~P~L~~LD  257 (267)
T 3rw6_A          216 KIKGL-KLEELWLDGNSLCDTF-RDQSTYISAIRERFPKLLRLD  257 (267)
T ss_dssp             GGTTS-CCSEEECTTSTTGGGC-SSHHHHHHHHHHHCTTCCEES
T ss_pred             hcccC-CcceEEccCCcCcccc-CcchhHHHHHHHHCcccCeEC
Confidence            23334 8999999999987320 000011234677889999876

>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=98.14  E-value=2.2e-06  Score=61.74  Aligned_cols=34  Identities=18%  Similarity=0.284  Sum_probs=15.1

Q ss_pred             CCcEEEecCCCCCCc-chhhccCCCCcEEcccCCc
Q 042164          101 KLEILSFRGSNIKQL-PLEIGQLTRLQLLDLSNCW  134 (235)
Q Consensus       101 ~L~~L~l~~~~~~~~-~~~~~~l~~L~~L~l~~~~  134 (235)
                      .|+.||++++.++.. -..+..+++|++|++++|.
T Consensus        62 ~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~   96 (176)
T 3e4g_A           62 KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCH   96 (176)
T ss_dssp             CEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCT
T ss_pred             eEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCC
Confidence            345555555544411 1223444555555555543

>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=98.06  E-value=5.9e-05  Score=61.12  Aligned_cols=134  Identities=15%  Similarity=0.211  Sum_probs=81.0

Q ss_pred             hhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCC
Q 042164           49 HFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTR  124 (235)
Q Consensus        49 ~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~  124 (235)
                      ..|..+..++.+.+..+ +..++ ..+..+..|+.+.+..+ +..+  .++..+.+++.+.+..+ +..++. .|..+.+
T Consensus       211 ~~f~~~~~l~~i~~~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~  287 (379)
T 4h09_A          211 YGFSYGKNLKKITITSG-VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSN  287 (379)
T ss_dssp             TTTTTCSSCSEEECCTT-CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTT
T ss_pred             cccccccccceeeeccc-eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccc
Confidence            33556677777766544 33332 34566777777777654 4444  56666777777777543 444443 3667777


Q ss_pred             CcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCC
Q 042164          125 LQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILP  196 (235)
Q Consensus       125 L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p  196 (235)
                      |+.+.+.++. +..++..++.+|.+|+.+.+..+ ++.+        ...+|.++++|+.+.+..+ ++.+.
T Consensus       288 L~~i~l~~~~-i~~I~~~aF~~c~~L~~i~lp~~-l~~I--------~~~aF~~C~~L~~i~ip~~-v~~I~  348 (379)
T 4h09_A          288 LTKVVMDNSA-IETLEPRVFMDCVKLSSVTLPTA-LKTI--------QVYAFKNCKALSTISYPKS-ITLIE  348 (379)
T ss_dssp             CCEEEECCTT-CCEECTTTTTTCTTCCEEECCTT-CCEE--------CTTTTTTCTTCCCCCCCTT-CCEEC
T ss_pred             cccccccccc-cceehhhhhcCCCCCCEEEcCcc-ccEE--------HHHHhhCCCCCCEEEECCc-cCEEc
Confidence            7777776665 55566666777777777777543 3322        2456677777777776543 44443

>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=98.00  E-value=5.9e-05  Score=61.12  Aligned_cols=125  Identities=18%  Similarity=0.154  Sum_probs=95.9

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEeccCcCCCCc--cccCCCCCCc
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLE  103 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~  103 (235)
                      .+.+++.+.+  ... +..++...|..+..|+.+.+..+ ++.+. ..+..+.+|+.+.+..+ +..+  ..+..+.+|+
T Consensus       215 ~~~~l~~i~~--~~~-~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~  289 (379)
T 4h09_A          215 YGKNLKKITI--TSG-VTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLT  289 (379)
T ss_dssp             TCSSCSEEEC--CTT-CCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCC
T ss_pred             cccccceeee--ccc-eeEEccccccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccc
Confidence            6788888887  333 34566666788999999999765 55554 45778889999988654 4444  7788899999


Q ss_pred             EEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164          104 ILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus       104 ~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      .+.+..+.++.++. .|.+|.+|+.+.+..+  ...+...++.+|.+|+.+.+..+
T Consensus       290 ~i~l~~~~i~~I~~~aF~~c~~L~~i~lp~~--l~~I~~~aF~~C~~L~~i~ip~~  343 (379)
T 4h09_A          290 KVVMDNSAIETLEPRVFMDCVKLSSVTLPTA--LKTIQVYAFKNCKALSTISYPKS  343 (379)
T ss_dssp             EEEECCTTCCEECTTTTTTCTTCCEEECCTT--CCEECTTTTTTCTTCCCCCCCTT
T ss_pred             cccccccccceehhhhhcCCCCCCEEEcCcc--ccEEHHHHhhCCCCCCEEEECCc
Confidence            99998888887754 4888999999999764  56677777899999999888654

>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=97.74  E-value=6.2e-05  Score=55.15  Aligned_cols=81  Identities=15%  Similarity=0.180  Sum_probs=40.1

Q ss_pred             hCCCCCcEEeecCc-cCCC-----CChhhcCCccCcEEeccCcCCCCc------cccCCCCCCcEEEecCCCCC-----C
Q 042164           52 EGTEELKVLDFTGI-HFSS-----LPSSLGRLINLQTLCLDWCQLEDV------AAIGQLKKLEILSFRGSNIK-----Q  114 (235)
Q Consensus        52 ~~~~~L~~L~l~~~-~~~~-----~~~~l~~l~~L~~L~l~~~~l~~~------~~~~~l~~L~~L~l~~~~~~-----~  114 (235)
                      ..-+.|++|+|+++ .+..     +...+..-+.|+.|++++|.+...      ..+..-++|++|+++.|.++     .
T Consensus        38 ~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~Ga~a  117 (197)
T 1pgv_A           38 EDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLAR  117 (197)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHH
T ss_pred             hcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHHHHHH
Confidence            34456666666653 5541     223344455566666666665521      33334455555555555554     1


Q ss_pred             cchhhccCCCCcEEcccC
Q 042164          115 LPLEIGQLTRLQLLDLSN  132 (235)
Q Consensus       115 ~~~~~~~l~~L~~L~l~~  132 (235)
                      +...+.....|++|++++
T Consensus       118 la~aL~~N~tL~~L~L~n  135 (197)
T 1pgv_A          118 LLRSTLVTQSIVEFKADN  135 (197)
T ss_dssp             HHHHTTTTCCCSEEECCC
T ss_pred             HHHHHhhCCceeEEECCC
Confidence            223333444455555543

>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=97.68  E-value=3.2e-05  Score=56.70  Aligned_cols=117  Identities=13%  Similarity=0.070  Sum_probs=72.0

Q ss_pred             hcCCccCcEEeccCc-CCCC-----c-cccCCCCCCcEEEecCCCCC-----CcchhhccCCCCcEEcccCCcCCCCCch
Q 042164           74 LGRLINLQTLCLDWC-QLED-----V-AAIGQLKKLEILSFRGSNIK-----QLPLEIGQLTRLQLLDLSNCWSLEVIPP  141 (235)
Q Consensus        74 l~~l~~L~~L~l~~~-~l~~-----~-~~~~~l~~L~~L~l~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~~~~~~  141 (235)
                      +..-+.|+.|+++++ .+..     + ..+..-.+|+.|++++|.+.     .+...+...+.|++|+++.|. ++.-..
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~-Ig~~Ga  115 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNF-LTPELL  115 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSB-CCHHHH
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCc-CCHHHH
Confidence            344567888888875 6652     2 66667778888888888887     344556667788888888887 443221


Q ss_pred             ----hhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCC
Q 042164          142 ----NVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDA  192 (235)
Q Consensus       142 ----~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~  192 (235)
                          +++..-+.|++|+++++..... .......+...+...+.|+.|+++.|..
T Consensus       116 ~ala~aL~~N~tL~~L~L~n~~~~~i-g~~g~~~ia~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          116 ARLLRSTLVTQSIVEFKADNQRQSVL-GNQVEMDMMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             HHHHHHTTTTCCCSEEECCCCSSCCC-CHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             HHHHHHHhhCCceeEEECCCCcCcCc-CHHHHHHHHHHHHhCCCcCeEeccCCCc
Confidence                2255566788888875432100 0001113445566667777777766543

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=97.15  E-value=0.0011  Score=45.27  Aligned_cols=54  Identities=13%  Similarity=0.271  Sum_probs=24.9

Q ss_pred             EEecCCCCCC--CCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccC
Q 042164           11 AISLPQRDIQ--ELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHF   67 (235)
Q Consensus        11 ~L~l~~~~l~--~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~   67 (235)
                      +++.+++.++  .+|..+ .++++.|+|  .++.+..++...|..++.|+.|+|.+|.+
T Consensus        12 ~v~Cs~~~L~~~~vP~~l-p~~l~~L~L--s~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAF-PVDTTELVL--TGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSCC-CTTCSEEEC--TTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCCC-CcCCCEEEC--CCCcCCccChhhhhhccccCEEEecCCCe
Confidence            4555555554  555432 233444454  33444444444444444444444444433

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=97.00  E-value=0.0014  Score=44.69  Aligned_cols=55  Identities=16%  Similarity=0.250  Sum_probs=31.9

Q ss_pred             EEEecCCCCC--CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          104 ILSFRGSNIK--QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       104 ~L~l~~~~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      .++.+++.++  .+|..+  .++|++|++++|. +..++..++..+++|+.|++++|.+.
T Consensus        12 ~v~Cs~~~L~~~~vP~~l--p~~l~~L~Ls~N~-l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTAF--PVDTTELVLTGNN-LTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSCCCTTTSCSCC--CTTCSEEECTTSC-CSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCCCccccCCCCC--CcCCCEEECCCCc-CCccChhhhhhccccCEEEecCCCee
Confidence            4555555555  555432  2356666666665 55566555666666666666666554

---

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	235
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-09
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	7e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.002
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	3e-05
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	0.001
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	7e-05
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	1e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-04
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	3e-04
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	0.004
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	5e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	7e-04
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	8e-04
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.001

>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 = 54.2 bits (129), Expect = 3e-09
 Identities = 19/89 (21%), Positives = 34/89 (38%), Gaps = 2/89 (2%)

Query: 44  MQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 103
                      + L  L     + S +   +  L  LQ L     ++ DV+++  L  + 
Sbjct: 296 QLEDISPISNLKNLTYLTLYFNNISDISP-VSSLTKLQRLFFANNKVSDVSSLANLTNIN 354

Query: 104 ILSFRGSNIKQLPLEIGQLTRLQLLDLSN 132
            LS   + I  L   +  LTR+  L L++
Sbjct: 355 WLSAGHNQISDLT-PLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 51.2 bits (121), Expect = 2e-08
 Identities = 18/80 (22%), Positives = 39/80 (48%), Gaps = 4/80 (5%)

Query: 77  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSL 136
           L NL  L L +  + D++ +  L KL+ L F  + +  +   +  LT +  L   +   +
Sbjct: 306 LKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHN-QI 363

Query: 137 EVIPPNVISKLSRLEELYMD 156
             + P  ++ L+R+ +L ++
Sbjct: 364 SDLTP--LANLTRITQLGLN 381

>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 = 43.5 bits (101), Expect = 1e-05
 Identities = 42/178 (23%), Positives = 72/178 (40%), Gaps = 21/178 (11%)

Query: 12  ISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISD-HFFEGTEELKVLDFTGIHFSSL 70
           +SL    ++++       NL    L        QIS+     G  +L  L       S++
Sbjct: 224 LSLNGNQLKDIGTLASLTNLTDLDLAN-----NQISNLAPLSGLTKLTELKLGANQISNI 278

Query: 71  PSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL 130
              L  L  L  L L+  QLED++ I  LK L  L+   +NI  +   +  LT+LQ L  
Sbjct: 279 SP-LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDIS-PVSSLTKLQRLFF 336

Query: 131 SNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQ 188
           +N   +  +    ++ L+ +  L      +Q         + L  L  L+++T L + 
Sbjct: 337 ANN-KVSDVSS--LANLTNINWL--SAGHNQI--------SDLTPLANLTRITQLGLN 381

>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 = 40.0 bits (92), Expect = 1e-04
 Identities = 16/92 (17%), Positives = 35/92 (38%), Gaps = 1/92 (1%)

Query: 43  PMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 102
              I+  F +     K+    G    +   S   L  + TL  D   ++ +  +  L  L
Sbjct: 9   DTPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNL 68

Query: 103 EILSFRGSNIKQLPLEIGQLTRLQLLDLSNCW 134
             ++F  + +  +   +  LT+L  + ++N  
Sbjct: 69  TQINFSNNQLTDIT-PLKNLTKLVDILMNNNQ 99

>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 = 2e-04
 Identities = 17/86 (19%), Positives = 32/86 (37%), Gaps = 4/86 (4%)

Query: 77  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSL 136
           L       L    + D  +   L ++  L      IK +   +  L  L  ++ SN   L
Sbjct: 21  LAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNN-QL 78

Query: 137 EVIPPNVISKLSRLEELYMDISFSQW 162
             I P  +  L++L ++ M+ +    
Sbjct: 79  TDITP--LKNLTKLVDILMNNNQIAD 102

>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 = 44.0 bits (102), Expect = 7e-06
 Identities = 12/82 (14%), Positives = 30/82 (36%), Gaps = 5/82 (6%)

Query: 46  ISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEIL 105
                 +    L+ L+ +      LP+       L+ L   +  L +V  +   + L+ L
Sbjct: 275 EIRSLCDLPPSLEELNVSNNKLIELPALPP---RLERLIASFNHLAEVPEL--PQNLKQL 329

Query: 106 SFRGSNIKQLPLEIGQLTRLQL 127
               + +++ P     +  L++
Sbjct: 330 HVEYNPLREFPDIPESVEDLRM 351

>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 = 36.3 bits (82), Expect = 0.002
 Identities = 15/80 (18%), Positives = 33/80 (41%), Gaps = 10/80 (12%)

Query: 77  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSL 136
             +L+ L +   +L ++ A+    +LE L    +++ ++P     L +L    +     L
Sbjct: 283 PPSLEELNVSNNKLIELPAL--PPRLERLIASFNHLAEVPELPQNLKQL---HVEYN-PL 336

Query: 137 EVIPPNVISKLSRLEELYMD 156
              P         +E+L M+
Sbjct: 337 REFPDI----PESVEDLRMN 352

>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 = 41.6 bits (96), Expect = 3e-05
 Identities = 27/141 (19%), Positives = 48/141 (34%), Gaps = 8/141 (5%)

Query: 81  QTLCLDWCQLEDVAAIGQLKKLEILSFR--GSNIKQLPLEIGQLTRLQLLDLSNCWSLEV 138
           QTL L    L      G+L    +++FR   S + Q   E     R+Q +DLSN      
Sbjct: 3   QTLDLTGKNLHP-DVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVS 61

Query: 139 IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQE 198
               ++S+ S+L+ L +     +  ++      +LA+   L +L            L   
Sbjct: 62  TLHGILSQCSKLQNLSL-----EGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTL 116

Query: 199 WVFVELQSYRICIGNKWWSSW 219
                            ++  
Sbjct: 117 LSSCSRLDELNLSWCFDFTEK 137

>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 = 37.0 bits (84), Expect = 0.001
 Identities = 14/89 (15%), Positives = 27/89 (30%), Gaps = 4/89 (4%)

Query: 57  LKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV---AAIGQLKKLEILSFRGSNI- 112
           +              +       +Q + L    +E       + Q  KL+ LS  G  + 
Sbjct: 25  VIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLS 84

Query: 113 KQLPLEIGQLTRLQLLDLSNCWSLEVIPP 141
             +   + + + L  L+LS C        
Sbjct: 85  DPIVNTLAKNSNLVRLNLSGCSGFSEFAL 113

>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 = 38.9 bits (90), Expect = 7e-05
 Identities = 28/128 (21%), Positives = 50/128 (39%), Gaps = 5/128 (3%)

Query: 58  KVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLED-VAAIGQLKKLEILSFRGSNIKQLP 116
           +VL       + L   L +L+ +  L L   +L     A+  L+ LE+L    + ++ + 
Sbjct: 1   RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 117 LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAEL 176
             +  L RLQ L L N    +      +    RL  L  ++  +   + EG        L
Sbjct: 60  -GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLL--NLQGNSLCQEEGIQERLAEML 116

Query: 177 KGLSKLTT 184
             +S + T
Sbjct: 117 PSVSSILT 124

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

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]

 Score = 39.0 bits (90), Expect = 1e-04
 Identities = 16/90 (17%), Positives = 30/90 (33%), Gaps = 1/90 (1%)

Query: 67  FSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQ 126
              L   + +  +     LD   L     +       +L+ R S    L +    +  L 
Sbjct: 9   VEQLKLIMSKRYDGSQQALDLKGLRSDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELL 68

Query: 127 LLDLSNCW-SLEVIPPNVISKLSRLEELYM 155
            L+LSN          +++ K   L+ L +
Sbjct: 69  SLNLSNNRLYRLDDMSSIVQKAPNLKILNL 98

>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 = 1e-04
 Identities = 41/211 (19%), Positives = 72/211 (34%), Gaps = 11/211 (5%)

Query: 17  RDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLG 75
             ++++P+ L  P+  L  L  + N   +I D  F+  + L  L       S + P +  
Sbjct: 20  LGLEKVPKDLP-PDTALLDL--QNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFA 76

Query: 76  RLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCW- 134
            L+ L+ L L   QL+++         E+        K        L ++ +++L     
Sbjct: 77  PLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPL 136

Query: 135 SLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQI 194
               I       + +L   Y+ I+ +    +  G   SL EL     L    I   DA  
Sbjct: 137 KSSGIENGAFQGMKKLS--YIRIADTNITTIPQGLPPSLTEL----HLDGNKITKVDAAS 190

Query: 195 LPQEWVFVELQSYRICIGNKWWSSWSVKSGL 225
           L       +L      I      S +    L
Sbjct: 191 LKGLNNLAKLGLSFNSISAVDNGSLANTPHL 221

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

 Score = 38.1 bits (87), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 56  ELKVLDFTGI--HFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSF 107
           E + ++  G+      + ++L  L   + L L    +E ++++  ++ L ILS 
Sbjct: 24  EAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSL 77

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

 Score = 34.7 bits (78), Expect = 0.004
 Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 105 LSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW 162
           L      I+++   +  L   + L LS   ++E I    +S +  L  L +  +  + 
Sbjct: 30  LHGMIPPIEKMDATLSTLKACKHLALST-NNIEKISS--LSGMENLRILSLGRNLIKK 84

>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 = 5e-04
 Identities = 9/44 (20%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 69  SLPSSLGRLINLQTLCLDWCQLE-DVAAIGQLKKLEILSFRGSN 111
           +LP  L +L  L +L + +  L  ++   G L++ ++ ++  + 
Sbjct: 259 TLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNK 302

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.0 bits (86), Expect = 7e-04
 Identities = 10/97 (10%), Positives = 36/97 (37%), Gaps = 12/97 (12%)

Query: 78  INLQTLCLDWCQLEDVAA---IGQLKKLEILSFRGSNI-----KQLPLEIGQLTRLQLLD 129
           +++Q+L +   +L D      +  L++ +++      +     K +   +     L  L+
Sbjct: 2   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 61

Query: 130 LSNC----WSLEVIPPNVISKLSRLEELYMDISFSQW 162
           L +       +  +   + +   ++++L +       
Sbjct: 62  LRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTG 98

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

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]

 Score = 36.9 bits (84), Expect = 8e-04
 Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 77  LINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSN 132
           L  L TL L+  Q+ D+  +  L KL+ L    ++I  L   +  L  L +L+L +
Sbjct: 155 LTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFS 209

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 36.9 bits (84), Expect = 0.001
 Identities = 13/66 (19%), Positives = 21/66 (31%), Gaps = 1/66 (1%)

Query: 43  PMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 102
                        +L  L       S +   L  L NL  + L   Q+ DV+ +     L
Sbjct: 161 AQVSDLTPLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISDVSPLANTSNL 219

Query: 103 EILSFR 108
            I++  
Sbjct: 220 FIVTLT 225

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	235
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.92
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.89
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.88
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.85
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.85
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.84
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.83
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.83
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.83
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.83
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.82
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.82
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.82
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.81
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.77
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.77
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.74
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.74
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.72
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.7
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.7
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.66
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.65
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.63
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.57
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.56
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.54
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.52
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.48
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.44
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.32
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.3
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.28
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.25
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.59
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.58
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.4
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.33
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	98.23
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	98.17
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.75
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.75

>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=99.92  E-value=4.5e-24  Score=164.80  Aligned_cols=197  Identities=24%  Similarity=0.268  Sum_probs=170.9

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      ...++.+++.+++.++++|+.+ .++++.|++  .++.+..++...|..+++|++|++++|.++.++. +..+++|++|+
T Consensus         8 ~~~~~~~v~C~~~~L~~iP~~l-p~~l~~L~L--s~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~   83 (266)
T d1p9ag_           8 KVASHLEVNCDKRNLTALPPDL-PKDTTILHL--SENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLD   83 (266)
T ss_dssp             CSTTCCEEECTTSCCSSCCSCC-CTTCCEEEC--TTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEE
T ss_pred             ccCCCeEEEccCCCCCeeCcCc-CcCCCEEEC--cCCcCCCcCHHHhhcccccccccccccccccccc-ccccccccccc
Confidence            3456778999999999999876 478999999  6667777887778999999999999999998764 57899999999


Q ss_pred             ccCcCCCCc-cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccc
Q 042164           85 LDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQW  162 (235)
Q Consensus        85 l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~  162 (235)
                      +++|.+... ..+..+++|++++++.+.+..++. .+..+.++++|++++|. +..++...+..+++++.+++++|.++.
T Consensus        84 Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~-l~~l~~~~~~~l~~l~~l~l~~N~l~~  162 (266)
T d1p9ag_          84 LSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANNNLTE  162 (266)
T ss_dssp             CCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCCSC
T ss_pred             cccccccccccccccccccccccccccccceeeccccccccccccccccccc-cceeccccccccccchhcccccccccc
Confidence            999999977 778899999999999999987654 47788999999999998 777887778889999999999999984


Q ss_pred             cccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEEecccc
Q 042164          163 DKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGNKW  215 (235)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~~~  215 (235)
                      .        ....+..+++|++|+|++|.++.+|..+ .+++|+.|++ .+|.|
T Consensus       163 ~--------~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L-~~Np~  207 (266)
T d1p9ag_         163 L--------PAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFL-HGNPW  207 (266)
T ss_dssp             C--------CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEEC-CSCCB
T ss_pred             c--------CccccccccccceeecccCCCcccChhHCCCCCCCEEEe-cCCCC
Confidence            4        4456788999999999999999999887 8889999999 57776

>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=99.89  E-value=3.5e-22  Score=154.05  Aligned_cols=176  Identities=19%  Similarity=0.217  Sum_probs=152.8

Q ss_pred             cccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCc
Q 042164            4 TIRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQ   81 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~   81 (235)
                      ..++++++|++++|.|++++.. + .+++|+.|++  .++.+..++.  ++.+++|++|++++|.++..+..+..+++|+
T Consensus        28 ~lp~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L--~~N~l~~l~~--~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~  103 (266)
T d1p9ag_          28 DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNL--DRAELTKLQV--DGTLPVLGTLDLSHNQLQSLPLLGQTLPALT  103 (266)
T ss_dssp             CCCTTCCEEECTTSCCSEEEGGGGTTCTTCCEEEC--TTSCCCEEEC--CSCCTTCCEEECCSSCCSSCCCCTTTCTTCC
T ss_pred             CcCcCCCEEECcCCcCCCcCHHHhhcccccccccc--cccccccccc--ccccccccccccccccccccccccccccccc
Confidence            3457899999999999988765 3 8999999999  5556666765  5789999999999999998888899999999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccc
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDIS  158 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n  158 (235)
                      +++++++.+..+  ..+..+.+++++++.+|.++.++.. +..++.++.+++++|+ +..++.+.+..+++|++|++++|
T Consensus       104 ~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~-l~~~~~~~~~~l~~L~~L~Ls~N  182 (266)
T d1p9ag_         104 VLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN-LTELPAGLLNGLENLDTLLLQEN  182 (266)
T ss_dssp             EEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC-CSCCCTTTTTTCTTCCEEECCSS
T ss_pred             cccccccccceeeccccccccccccccccccccceeccccccccccchhccccccc-ccccCccccccccccceeecccC
Confidence            999999998876  7778899999999999999988765 6778999999999998 66677766899999999999999


Q ss_pred             cccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          159 FSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      +++         .++..+..+++|+.|+|++|++.
T Consensus       183 ~L~---------~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         183 SLY---------TIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             CCC---------CCCTTTTTTCCCSEEECCSCCBC
T ss_pred             CCc---------ccChhHCCCCCCCEEEecCCCCC
Confidence            998         34556667899999999999875

>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=99.88  E-value=1.5e-21  Score=151.88  Aligned_cols=201  Identities=25%  Similarity=0.373  Sum_probs=167.2

Q ss_pred             cccCCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeec-CccCCCC-ChhhcCCcc
Q 042164            4 TIRKGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFT-GIHFSSL-PSSLGRLIN   79 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~-~~~~~~~-~~~l~~l~~   79 (235)
                      ..++++++|++++|.|+.+|+..  ++++|+.+++  .++.+..++...+..+..++.++.. .+.++.+ +..+..+++
T Consensus        29 ~ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~l--s~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~  106 (284)
T d1ozna_          29 GIPAASQRIFLHGNRISHVPAASFRACRNLTILWL--HSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR  106 (284)
T ss_dssp             TCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEEC--CSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTT
T ss_pred             CCCCCCCEEECcCCcCCCCCHHHhhcccccccccc--ccccccccccccccccccccccccccccccccccchhhccccc
Confidence            34567899999999999888653  8899999999  6666666777667788888888775 4556665 456889999


Q ss_pred             CcEEeccCcCCCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEec
Q 042164           80 LQTLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMD  156 (235)
Q Consensus        80 L~~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~  156 (235)
                      |+++++++|.+..+  ..+....+|+.+++++|.++.++. .+..+++|++|++++|. +..+++.++..+++|+.++++
T Consensus       107 L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~-l~~l~~~~f~~l~~L~~l~l~  185 (284)
T d1ozna_         107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPERAFRGLHSLDRLLLH  185 (284)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCc-ccccchhhhccccccchhhhh
Confidence            99999999998866  677788999999999999998864 58889999999999998 667777778999999999999


Q ss_pred             cccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--cccccceeEEEeccccc
Q 042164          157 ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--VFVELQSYRICIGNKWW  216 (235)
Q Consensus       157 ~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~~  216 (235)
                      +|.+++.        .+..+..+++|+.|++++|.+..++...  .+++|+.+++ .+|.|.
T Consensus       186 ~N~l~~i--------~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l-~~N~l~  238 (284)
T d1ozna_         186 QNRVAHV--------HPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL-NDNPWV  238 (284)
T ss_dssp             SSCCCEE--------CTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEEC-CSSCEE
T ss_pred             hcccccc--------ChhHhhhhhhcccccccccccccccccccccccccCEEEe-cCCCCC
Confidence            9999844        4677888999999999999999887755  8889999999 466663

>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=99.85  E-value=4.1e-20  Score=139.05  Aligned_cols=186  Identities=19%  Similarity=0.246  Sum_probs=145.5

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      +.+++.|++.+|.++.++....+++|+.|++  .++.+..+.+  +..++.++.+++++|.++.++ .+..+++|+++.+
T Consensus        40 l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~l--s~n~i~~~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l~l  114 (227)
T d1h6ua2          40 LDGITTLSAFGTGVTTIEGVQYLNNLIGLEL--KDNQITDLAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDL  114 (227)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEEC--CSSCCCCCGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEEC
T ss_pred             cCCcCEEECCCCCCCcchhHhcCCCCcEeec--CCceeecccc--ccccccccccccccccccccc-ccccccccccccc
Confidence            4678899999999888865448999999999  4444444443  678889999999988888775 4778889999999


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      +++....+..+...+.+..+.++.+.+.... .+..+++|++|++++|. ....+.  ++++++|++|++++|.++.   
T Consensus       115 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~L~~L~l~~n~-~~~~~~--l~~l~~L~~L~Ls~n~l~~---  187 (227)
T d1h6ua2         115 TSTQITDVTPLAGLSNLQVLYLDLNQITNIS-PLAGLTNLQYLSIGNAQ-VSDLTP--LANLSKLTTLKADDNKISD---  187 (227)
T ss_dssp             TTSCCCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCC---
T ss_pred             ccccccccchhccccchhhhhchhhhhchhh-hhccccccccccccccc-cccchh--hcccccceecccCCCccCC---
Confidence            8888777777777888888888888776543 35677889999999887 444443  7888999999999988872   


Q ss_pred             CCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEE
Q 042164          166 EGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRIC  210 (235)
Q Consensus       166 ~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~  210 (235)
                             ...++.+++|+.|++++|++++++.--.+++|+.|+++
T Consensus       188 -------l~~l~~l~~L~~L~Ls~N~lt~i~~l~~l~~L~~L~ls  225 (227)
T d1h6ua2         188 -------ISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT  225 (227)
T ss_dssp             -------CGGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEEEEE
T ss_pred             -------ChhhcCCCCCCEEECcCCcCCCCcccccCCCCCEEEee
Confidence                   34477888999999999998888764488888888885

>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=99.85  E-value=3.2e-21  Score=142.30  Aligned_cols=178  Identities=19%  Similarity=0.281  Sum_probs=116.2

Q ss_pred             EEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCC
Q 042164           11 AISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQL   90 (235)
Q Consensus        11 ~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l   90 (235)
                      ...+..+.++.++....+.+++.|++  .++.+..+..  ++.+++|++|++++|.++.+++ +..+++|+++++++|.+
T Consensus        22 ~~~l~~~~~~~~~~~~~l~~l~~L~l--~~~~i~~l~~--l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~   96 (199)
T d2omxa2          22 KTVLGKTNVTDTVSQTDLDQVTTLQA--DRLGIKSIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQI   96 (199)
T ss_dssp             HHHTTCSSTTSEECHHHHTTCCEEEC--TTSCCCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCC
T ss_pred             HHHhCCCCCCCccCHHHhcCCCEEEC--CCCCCCCccc--cccCCCcCcCccccccccCccc-ccCCccccccccccccc
Confidence            34455555554433335677777777  4444444433  4667777777777777776654 67777777777777777


Q ss_pred             CCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCC
Q 042164           91 EDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSN  170 (235)
Q Consensus        91 ~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~  170 (235)
                      ..+..++.+++|+.++++++.....+ .+..+++|+.+++++|. +..++.  +..+++++++++.+|.++         
T Consensus        97 ~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~l~~L~~L~l~~n~-l~~~~~--l~~~~~L~~L~l~~n~l~---------  163 (199)
T d2omxa2          97 ADITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELSSNT-ISDISA--LSGLTSLQQLNFSSNQVT---------  163 (199)
T ss_dssp             CCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSC-CCCCGG--GTTCTTCSEEECCSSCCC---------
T ss_pred             cccccccccccccccccccccccccc-ccchhhhhHHhhhhhhh-hccccc--cccccccccccccccccc---------
Confidence            76666777777777777777666543 35667777777777776 444443  667777777777777776         


Q ss_pred             ccchhcccCCCccceeeecCCCCCCCcccccccccee
Q 042164          171 ASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSY  207 (235)
Q Consensus       171 ~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l  207 (235)
                       ....++++++|++|++++|++++++.-..+++|+.|
T Consensus       164 -~l~~l~~l~~L~~L~ls~N~i~~i~~l~~L~~L~~L  199 (199)
T d2omxa2         164 -DLKPLANLTTLERLDISSNKVSDISVLAKLTNLESL  199 (199)
T ss_dssp             -CCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEE
T ss_pred             -CCccccCCCCCCEEECCCCCCCCCccccCCCCCCcC
Confidence             223466777777777777777766543355555543

>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=99.84  E-value=6e-20  Score=142.66  Aligned_cols=210  Identities=22%  Similarity=0.276  Sum_probs=170.4

Q ss_pred             cEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEecc-C
Q 042164           10 IAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLD-W   87 (235)
Q Consensus        10 ~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~-~   87 (235)
                      ..++.+++.++.+|..+ .+.+++|++  .++.+..++...|..++.|++|++++|.+..++ ..+..++.++.+.+. .
T Consensus        14 ~~v~c~~~~L~~iP~~i-p~~~~~L~L--s~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~   90 (284)
T d1ozna_          14 VTTSCPQQGLQAVPVGI-PAASQRIFL--HGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDN   90 (284)
T ss_dssp             CEEECCSSCCSSCCTTC-CTTCSEEEC--TTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSC
T ss_pred             eEEEcCCCCCCccCCCC-CCCCCEEEC--cCCcCCCCCHHHhhccccccccccccccccccccccccccccccccccccc
Confidence            46788888899998876 467899999  566777888887899999999999999998754 456778889998775 4


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      +.+..+  ..++.+++|++|+++.|.+..++. .+....+|+.+++++|. ++.++..++..+++|++|++++|.++.. 
T Consensus        91 ~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~-l~~i~~~~f~~~~~L~~L~l~~N~l~~l-  168 (284)
T d1ozna_          91 AQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRISSV-  168 (284)
T ss_dssp             TTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSSCCCEE-
T ss_pred             cccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhcccc-ccccChhHhccccchhhcccccCccccc-
Confidence            556666  778899999999999999986654 47778899999999998 6778777788999999999999999844 


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCCC-Cccc-cccccceeEEEecccccccchhhhhhhhhccccCC
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQIL-PQEW-VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~-p~~~-~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L  234 (235)
                             ....+..+++|+.+++++|.+..+ |..+ .+++|+.|+++ .+...  ...+.++.++++|++|
T Consensus       169 -------~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~-~N~i~--~~~~~~~~~~~~L~~L  230 (284)
T d1ozna_         169 -------PERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLF-ANNLS--ALPTEALAPLRALQYL  230 (284)
T ss_dssp             -------CTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECC-SSCCS--CCCHHHHTTCTTCCEE
T ss_pred             -------chhhhccccccchhhhhhccccccChhHhhhhhhccccccc-ccccc--cccccccccccccCEE
Confidence                   456778899999999999999866 4444 88899999994 55552  2334678888887765

>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=99.83  E-value=5.8e-20  Score=136.59  Aligned_cols=179  Identities=20%  Similarity=0.276  Sum_probs=133.1

Q ss_pred             ecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCC
Q 042164           13 SLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLED   92 (235)
Q Consensus        13 ~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~   92 (235)
                      ++....+........+.+++.|++  .++.+..++.  ++.+++|++|++++|.++.+++ +..+++|++|++++|.+++
T Consensus        30 ~l~~~~~~~~~~~~~L~~L~~L~l--~~~~i~~l~~--l~~l~~L~~L~L~~n~i~~l~~-~~~l~~L~~L~l~~n~i~~  104 (210)
T d1h6ta2          30 NLKKKSVTDAVTQNELNSIDQIIA--NNSDIKSVQG--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKD  104 (210)
T ss_dssp             HTTCSCTTSEECHHHHHTCCEEEC--TTSCCCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCC
T ss_pred             HhCcCccCCccCHHHhcCccEEEC--cCCCCCCchh--HhhCCCCCEEeCCCccccCccc-cccCccccccccccccccc
Confidence            344444443322225677888888  5555555543  5778888999998888888764 6788889999998888888


Q ss_pred             ccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCcc
Q 042164           93 VAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNAS  172 (235)
Q Consensus        93 ~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~  172 (235)
                      ++.+..+++|+.+++++|.+..++ .+..++.++.+++++|. +...+.  ...+++|+++++++|.+++          
T Consensus       105 l~~l~~l~~L~~L~l~~~~~~~~~-~l~~l~~l~~l~~~~n~-l~~~~~--~~~l~~L~~l~l~~n~l~~----------  170 (210)
T d1h6ta2         105 LSSLKDLKKLKSLSLEHNGISDIN-GLVHLPQLESLYLGNNK-ITDITV--LSRLTKLDTLSLEDNQISD----------  170 (210)
T ss_dssp             GGGGTTCTTCCEEECTTSCCCCCG-GGGGCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECCSSCCCC----------
T ss_pred             cccccccccccccccccccccccc-ccccccccccccccccc-cccccc--ccccccccccccccccccc----------
Confidence            877888888899998888877654 46778888888888887 444443  5778889999998888872          


Q ss_pred             chhcccCCCccceeeecCCCCCCCccccccccceeEEE
Q 042164          173 LAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRIC  210 (235)
Q Consensus       173 ~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~  210 (235)
                      ...++.+++|++|++++|.++++|.-..+++|+.|+++
T Consensus       171 i~~l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         171 IVPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELF  208 (210)
T ss_dssp             CGGGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEEEEE
T ss_pred             cccccCCCCCCEEECCCCCCCCChhhcCCCCCCEEEcc
Confidence            23477888899999999888888753378888888885

>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=99.83  E-value=1.1e-19  Score=135.02  Aligned_cols=165  Identities=25%  Similarity=0.367  Sum_probs=142.0

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      +.++++|++++|.++.++....+++|++|++  .++.+..+++  ++.+++|++|++++|.++.++ .+..+++|+.+++
T Consensus        45 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  119 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFL--NGNKLTDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSL  119 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEEC--CSSCCCCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEEC
T ss_pred             hcCccEEECcCCCCCCchhHhhCCCCCEEeC--CCccccCccc--cccCccccccccccccccccc-ccccccccccccc
Confidence            4579999999999998876558999999999  5555665664  578999999999999999887 4889999999999


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      .+|.+..+..+..++.++.++++.|.++..+ .+..+++|+.+++++|. +..+++  +..+++|++|++++|.++    
T Consensus       120 ~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n~-l~~i~~--l~~l~~L~~L~Ls~N~i~----  191 (210)
T d1h6ta2         120 EHNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQ-ISDIVP--LAGLTKLQNLYLSKNHIS----  191 (210)
T ss_dssp             TTSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCC----
T ss_pred             ccccccccccccccccccccccccccccccc-ccccccccccccccccc-cccccc--ccCCCCCCEEECCCCCCC----
Confidence            9999988888889999999999999988654 46789999999999998 556654  789999999999999987    


Q ss_pred             CCCCCccchhcccCCCccceeeec
Q 042164          166 EGGSNASLAELKGLSKLTTLNIQV  189 (235)
Q Consensus       166 ~~~~~~~~~~~~~~~~L~~L~l~~  189 (235)
                            ....+..+++|+.|+|++
T Consensus       192 ------~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         192 ------DLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             ------BCGGGTTCTTCSEEEEEE
T ss_pred             ------CChhhcCCCCCCEEEccC
Confidence                  234688899999999975

>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=99.83  E-value=1.3e-20  Score=148.37  Aligned_cols=212  Identities=19%  Similarity=0.259  Sum_probs=162.0

Q ss_pred             CCcEEecCCCCCC---CCCCcC-CCCCccEEEeccC-CCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccCc
Q 042164            8 GPIAISLPQRDIQ---ELPERL-QCPNLQLFLLFRE-GNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINLQ   81 (235)
Q Consensus         8 ~l~~L~l~~~~l~---~i~~~~-~l~~L~~L~l~~~-~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L~   81 (235)
                      +++.|+++++.+.   .+|+.+ .+++|++|++ +. +...+.+|+. ++.+++|++|++++|.+.. .+..+..+++|+
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~L-s~~N~l~g~iP~~-i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYI-GGINNLVGPIPPA-IAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEE-EEETTEESCCCGG-GGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             EEEEEECCCCCCCCCCCCChHHhcCcccccccc-ccccccccccccc-cccccccchhhhccccccccccccccchhhhc
Confidence            5889999999887   477777 8999999999 55 4556678877 5899999999999999987 456688899999


Q ss_pred             EEeccCcCCCCc--cccCCCCCCcEEEecCCCCC-CcchhhccCCCC-cEEcccCCcCCCCCchh---------------
Q 042164           82 TLCLDWCQLEDV--AAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRL-QLLDLSNCWSLEVIPPN---------------  142 (235)
Q Consensus        82 ~L~l~~~~l~~~--~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L-~~L~l~~~~~~~~~~~~---------------  142 (235)
                      ++++++|.+...  ..++.++.++++++++|.+. .+|..+..+..+ +.+++++|.+.+..+..               
T Consensus       129 ~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~  208 (313)
T d1ogqa_         129 TLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNM  208 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSE
T ss_pred             ccccccccccccCchhhccCcccceeeccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999986644  77889999999999999887 677777777664 77777777543332221               


Q ss_pred             -------hhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccc-cccccceeEEEecc
Q 042164          143 -------VISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEW-VFVELQSYRICIGN  213 (235)
Q Consensus       143 -------~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~-~~~~L~~l~l~~~~  213 (235)
                             .+..+++++.++++++.+.+         .+..++.+++|+.|++++|.++ .+|..+ .+++|+.|+++ .|
T Consensus       209 ~~~~~~~~~~~~~~l~~l~~~~~~l~~---------~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls-~N  278 (313)
T d1ogqa_         209 LEGDASVLFGSDKNTQKIHLAKNSLAF---------DLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVS-FN  278 (313)
T ss_dssp             EEECCGGGCCTTSCCSEEECCSSEECC---------BGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECC-SS
T ss_pred             ccccccccccccccccccccccccccc---------cccccccccccccccCccCeecccCChHHhCCCCCCEEECc-CC
Confidence                   14455666666666666652         3456778899999999999998 899988 88999999995 66


Q ss_pred             cccccchhhhhhhhhccccCC
Q 042164          214 KWWSSWSVKSGLSRLMKLQGL  234 (235)
Q Consensus       214 ~~~~~~~~~~~~~~l~~L~~L  234 (235)
                      .+.|..+   .+.++++|+.+
T Consensus       279 ~l~g~iP---~~~~L~~L~~l  296 (313)
T d1ogqa_         279 NLCGEIP---QGGNLQRFDVS  296 (313)
T ss_dssp             EEEEECC---CSTTGGGSCGG
T ss_pred             cccccCC---CcccCCCCCHH
Confidence            6655554   24556666543

>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=99.83  E-value=2.2e-20  Score=147.03  Aligned_cols=197  Identities=17%  Similarity=0.176  Sum_probs=152.7

Q ss_pred             ccCCCcEEecCC-CCCC-CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccC
Q 042164            5 IRKGPIAISLPQ-RDIQ-ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINL   80 (235)
Q Consensus         5 ~~~~l~~L~l~~-~~l~-~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L   80 (235)
                      .+++|++|++++ |.+. .+|+.+ .+++|++|++ +.+.... .+...+..+..|+.+++++|.+.. +|..+..++++
T Consensus        74 ~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~L-s~N~l~~-~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L  151 (313)
T d1ogqa_          74 NLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYI-THTNVSG-AIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNL  151 (313)
T ss_dssp             GCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEE-EEECCEE-ECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTC
T ss_pred             cCccccccccccccccccccccccccccccchhhh-ccccccc-cccccccchhhhcccccccccccccCchhhccCccc
Confidence            468999999987 6776 788877 9999999999 5554444 444446889999999999988764 78889999999


Q ss_pred             cEEeccCcCCCC-c-cccCCCCCC-cEEEecCCCCC------------------------CcchhhccCCCCcEEcccCC
Q 042164           81 QTLCLDWCQLED-V-AAIGQLKKL-EILSFRGSNIK------------------------QLPLEIGQLTRLQLLDLSNC  133 (235)
Q Consensus        81 ~~L~l~~~~l~~-~-~~~~~l~~L-~~L~l~~~~~~------------------------~~~~~~~~l~~L~~L~l~~~  133 (235)
                      +++++++|.+.+ + ..+..+..+ +.++++.|+++                        .+|..+..+++++.++++++
T Consensus       152 ~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~  231 (313)
T d1ogqa_         152 VGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKN  231 (313)
T ss_dssp             CEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSS
T ss_pred             ceeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999998763 3 445555444 55555555432                        33445667788999999998


Q ss_pred             cCCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC-CCCccccccccceeEEEec
Q 042164          134 WSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ-ILPQEWVFVELQSYRICIG  212 (235)
Q Consensus       134 ~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~-~~p~~~~~~~L~~l~l~~~  212 (235)
                      .+.+.++ . ++.+++++.|++++|.+++.        ++..++.+++|++|+|++|.++ .+|....+++|+.+++. +
T Consensus       232 ~l~~~~~-~-~~~~~~L~~L~Ls~N~l~g~--------iP~~l~~L~~L~~L~Ls~N~l~g~iP~~~~L~~L~~l~l~-~  300 (313)
T d1ogqa_         232 SLAFDLG-K-VGLSKNLNGLDLRNNRIYGT--------LPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYA-N  300 (313)
T ss_dssp             EECCBGG-G-CCCCTTCCEEECCSSCCEEC--------CCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTC-S
T ss_pred             ccccccc-c-cccccccccccCccCeeccc--------CChHHhCCCCCCEEECcCCcccccCCCcccCCCCCHHHhC-C
Confidence            8555444 4 78899999999999999844        6778999999999999999998 78865578888888885 4


Q ss_pred             cc
Q 042164          213 NK  214 (235)
Q Consensus       213 ~~  214 (235)
                      |+
T Consensus       301 N~  302 (313)
T d1ogqa_         301 NK  302 (313)
T ss_dssp             SS
T ss_pred             Cc
Confidence            44

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.82  E-value=3.3e-19  Score=139.70  Aligned_cols=195  Identities=19%  Similarity=0.205  Sum_probs=143.7

Q ss_pred             ccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcE
Q 042164            5 IRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQT   82 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~   82 (235)
                      .++++++|++++|.|+++|+. + .+++|++|++  ..+.+..+++..|..++.|++|++++|.++.+|..  ..+.++.
T Consensus        29 l~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l--~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~--~~~~l~~  104 (305)
T d1xkua_          29 LPPDTALLDLQNNKITEIKDGDFKNLKNLHTLIL--INNKISKISPGAFAPLVKLERLYLSKNQLKELPEK--MPKTLQE  104 (305)
T ss_dssp             CCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC--CSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSS--CCTTCCE
T ss_pred             CCCCCCEEECcCCcCCCcChhHhhcccccccccc--ccccccccchhhhhCCCccCEecccCCccCcCccc--hhhhhhh
Confidence            467899999999999999864 4 8899999999  55555566666678999999999999988877643  2234555


Q ss_pred             EeccCcCCCCc----------------------------cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCc
Q 042164           83 LCLDWCQLEDV----------------------------AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCW  134 (235)
Q Consensus        83 L~l~~~~l~~~----------------------------~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~  134 (235)
                      +....|.+..+                            ..+..+++|+.++++.|.+..++..  .+++|+.|++++|.
T Consensus       105 L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~--~~~~L~~L~l~~n~  182 (305)
T d1xkua_         105 LRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQG--LPPSLTELHLDGNK  182 (305)
T ss_dssp             EECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSS--CCTTCSEEECTTSC
T ss_pred             hhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccccCcc--cCCccCEEECCCCc
Confidence            55444443322                            2344556777888888877776653  35678888888877


Q ss_pred             CCCCCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc-cccccceeEEEecc
Q 042164          135 SLEVIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW-VFVELQSYRICIGN  213 (235)
Q Consensus       135 ~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~-~~~~L~~l~l~~~~  213 (235)
                      ..+..+ ..+..++.++.|++++|.+++.        ....+..+++|++|+|++|.++.+|..+ .+++|+.|+++ ++
T Consensus       183 ~~~~~~-~~~~~~~~l~~L~~s~n~l~~~--------~~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls-~N  252 (305)
T d1xkua_         183 ITKVDA-ASLKGLNNLAKLGLSFNSISAV--------DNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLH-NN  252 (305)
T ss_dssp             CCEECT-GGGTTCTTCCEEECCSSCCCEE--------CTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECC-SS
T ss_pred             CCCCCh-hHhhcccccccccccccccccc--------ccccccccccceeeecccccccccccccccccCCCEEECC-CC
Confidence            444433 3478888888898888888744        3556778899999999999999999877 78999999995 44


Q ss_pred             cc
Q 042164          214 KW  215 (235)
Q Consensus       214 ~~  215 (235)
                      ..
T Consensus       253 ~i  254 (305)
T d1xkua_         253 NI  254 (305)
T ss_dssp             CC
T ss_pred             cc
Confidence            44

>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=99.82  E-value=4e-19  Score=143.10  Aligned_cols=186  Identities=19%  Similarity=0.249  Sum_probs=127.2

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      +++++.++++++.++.+++...+++|+.+++  .++.+..++.  +..+++|+.|++++|.++.+++ +..+++|+++++
T Consensus       196 l~~~~~l~l~~n~i~~~~~~~~~~~L~~L~l--~~n~l~~~~~--l~~l~~L~~L~l~~n~l~~~~~-~~~~~~L~~L~l  270 (384)
T d2omza2         196 LTNLESLIATNNQISDITPLGILTNLDELSL--NGNQLKDIGT--LASLTNLTDLDLANNQISNLAP-LSGLTKLTELKL  270 (384)
T ss_dssp             CTTCSEEECCSSCCCCCGGGGGCTTCCEEEC--CSSCCCCCGG--GGGCTTCSEEECCSSCCCCCGG-GTTCTTCSEEEC
T ss_pred             ccccceeeccCCccCCCCcccccCCCCEEEC--CCCCCCCcch--hhcccccchhccccCccCCCCc-ccccccCCEeec
Confidence            4567777777777776665556677777777  4444444432  4677777777777777776653 667777777777


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      +++.+.++..+..++.++.+.+..|.++.++ .+..++++++|++++|. +..+++  +..+++|++|++++|.++.   
T Consensus       271 ~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~~-~~~~~~~l~~L~ls~n~-l~~l~~--l~~l~~L~~L~L~~n~l~~---  343 (384)
T d2omza2         271 GANQISNISPLAGLTALTNLELNENQLEDIS-PISNLKNLTYLTLYFNN-ISDISP--VSSLTKLQRLFFANNKVSD---  343 (384)
T ss_dssp             CSSCCCCCGGGTTCTTCSEEECCSSCCSCCG-GGGGCTTCSEEECCSSC-CSCCGG--GGGCTTCCEEECCSSCCCC---
T ss_pred             cCcccCCCCcccccccccccccccccccccc-ccchhcccCeEECCCCC-CCCCcc--cccCCCCCEEECCCCCCCC---
Confidence            7777777766677777777777777776543 35667777777777776 444543  5677777777777777762   


Q ss_pred             CCCCCccchhcccCCCccceeeecCCCCCCCccccccccceeEEE
Q 042164          166 EGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRIC  210 (235)
Q Consensus       166 ~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~  210 (235)
                             +..++.+++|+.|++++|+++++++...+++|+.|+++
T Consensus       344 -------l~~l~~l~~L~~L~l~~N~l~~l~~l~~l~~L~~L~L~  381 (384)
T d2omza2         344 -------VSSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLN  381 (384)
T ss_dssp             -------CGGGGGCTTCCEEECCSSCCCBCGGGTTCTTCSEEECC
T ss_pred             -------ChhHcCCCCCCEEECCCCcCCCChhhccCCCCCEeeCC
Confidence                   23466777777777777777776654467777777763

>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=99.82  E-value=5.7e-19  Score=130.08  Aligned_cols=161  Identities=20%  Similarity=0.266  Sum_probs=137.8

Q ss_pred             cCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEec
Q 042164            6 RKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCL   85 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l   85 (235)
                      +++++.|+++++.+..++....+++|++|++  .++.+..+++  ++.+++|++|++++|.+..+++ +..+++|+++++
T Consensus        39 l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~L--s~N~l~~~~~--l~~l~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~l  113 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSIDGVEYLNNLTQINF--SNNQLTDITP--LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTL  113 (199)
T ss_dssp             HTTCCEEECTTSCCCCCTTGGGCTTCCEEEC--CSSCCCCCGG--GTTCTTCCEEECCSSCCCCCGG-GTTCTTCSEEEC
T ss_pred             hcCCCEEECCCCCCCCccccccCCCcCcCcc--ccccccCccc--ccCCcccccccccccccccccc-cccccccccccc
Confidence            5789999999999998876558999999999  4455655654  6899999999999999888764 889999999999


Q ss_pred             cCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccccc
Q 042164           86 DWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKV  165 (235)
Q Consensus        86 ~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~  165 (235)
                      +++....+..+..+++|+.+++++|.+..++ .+..+++|+.|++.+|. +..+++  ++++++|++|++++|.++.   
T Consensus       114 ~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~n~-l~~l~~--l~~l~~L~~L~ls~N~i~~---  186 (199)
T d2omxa2         114 FNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSNQ-VTDLKP--LANLTTLERLDISSNKVSD---  186 (199)
T ss_dssp             CSSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSC-CCCCGG--GTTCTTCCEEECCSSCCCC---
T ss_pred             cccccccccccchhhhhHHhhhhhhhhcccc-ccccccccccccccccc-ccCCcc--ccCCCCCCEEECCCCCCCC---
Confidence            9999888877889999999999999998765 57889999999999998 566664  8899999999999999882   


Q ss_pred             CCCCCccchhcccCCCccce
Q 042164          166 EGGSNASLAELKGLSKLTTL  185 (235)
Q Consensus       166 ~~~~~~~~~~~~~~~~L~~L  185 (235)
                             ...++.+++|+.|
T Consensus       187 -------i~~l~~L~~L~~L  199 (199)
T d2omxa2         187 -------ISVLAKLTNLESL  199 (199)
T ss_dssp             -------CGGGGGCTTCSEE
T ss_pred             -------CccccCCCCCCcC
Confidence                   3456778888765

>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=99.81  E-value=8.2e-20  Score=137.39  Aligned_cols=203  Identities=21%  Similarity=0.247  Sum_probs=160.0

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCc
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWC   88 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~   88 (235)
                      +..+++..+.+..+....++.+|+.|++  .++.+..++.  ++.+++|++|++++|.++.+++ +..+++++++++++|
T Consensus        21 ~~~~~l~~~~~~d~~~~~~l~~L~~L~l--~~~~i~~l~~--l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n   95 (227)
T d1h6ua2          21 AIKIAAGKSNVTDTVTQADLDGITTLSA--FGTGVTTIEG--VQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGN   95 (227)
T ss_dssp             HHHHHTTCSSTTSEECHHHHHTCCEEEC--TTSCCCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSC
T ss_pred             HHHHHhCCCCcCCcCCHHHcCCcCEEEC--CCCCCCcchh--HhcCCCCcEeecCCceeecccc-ccccccccccccccc
Confidence            3445666666665544447899999999  5555666643  6899999999999999988764 899999999999999


Q ss_pred             CCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccccCCC
Q 042164           89 QLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDKVEGG  168 (235)
Q Consensus        89 ~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~  168 (235)
                      .++.+..+..+++|+.++++.+....++ .+...+.++.+.++.+. ......  +..+++|+++++++|.+.       
T Consensus        96 ~~~~i~~l~~l~~L~~l~l~~~~~~~~~-~~~~~~~~~~l~~~~~~-~~~~~~--~~~~~~L~~L~l~~n~~~-------  164 (227)
T d1h6ua2          96 PLKNVSAIAGLQSIKTLDLTSTQITDVT-PLAGLSNLQVLYLDLNQ-ITNISP--LAGLTNLQYLSIGNAQVS-------  164 (227)
T ss_dssp             CCSCCGGGTTCTTCCEEECTTSCCCCCG-GGTTCTTCCEEECCSSC-CCCCGG--GGGCTTCCEEECCSSCCC-------
T ss_pred             cccccccccccccccccccccccccccc-hhccccchhhhhchhhh-hchhhh--hccccccccccccccccc-------
Confidence            9998888999999999999998877554 35667899999998887 333333  678899999999999887       


Q ss_pred             CCccchhcccCCCccceeeecCCCCCCCccccccccceeEEEecccccccchhhhhhhhhccccCCC
Q 042164          169 SNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE  235 (235)
Q Consensus       169 ~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L~  235 (235)
                         ....++.+++|++|++++|.+++++.-..+++|++|+++ ++... ..   ..++++++|+.|+
T Consensus       165 ---~~~~l~~l~~L~~L~Ls~n~l~~l~~l~~l~~L~~L~Ls-~N~lt-~i---~~l~~l~~L~~L~  223 (227)
T d1h6ua2         165 ---DLTPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLK-NNQIS-DV---SPLANTSNLFIVT  223 (227)
T ss_dssp             ---CCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECT-TSCCC-BC---GGGTTCTTCCEEE
T ss_pred             ---cchhhcccccceecccCCCccCCChhhcCCCCCCEEECc-CCcCC-CC---cccccCCCCCEEE
Confidence               234578899999999999999988764488999999995 44553 22   2477788877653

>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=99.77  E-value=6.2e-18  Score=136.03  Aligned_cols=169  Identities=23%  Similarity=0.277  Sum_probs=145.3

Q ss_pred             cccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            4 TIRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         4 ~~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      ...++++++++++|.++.++....+++|+.+.+  ..+.+..+++  +..+++|++|+++++.++.+++ +..++.++.+
T Consensus       216 ~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l--~~n~l~~~~~--~~~~~~L~~L~l~~~~l~~~~~-~~~~~~l~~l  290 (384)
T d2omza2         216 GILTNLDELSLNGNQLKDIGTLASLTNLTDLDL--ANNQISNLAP--LSGLTKLTELKLGANQISNISP-LAGLTALTNL  290 (384)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGGGCTTCSEEEC--CSSCCCCCGG--GTTCTTCSEEECCSSCCCCCGG-GTTCTTCSEE
T ss_pred             cccCCCCEEECCCCCCCCcchhhcccccchhcc--ccCccCCCCc--ccccccCCEeeccCcccCCCCc-cccccccccc
Confidence            346789999999999998876668999999999  4445555554  6889999999999999988764 7889999999


Q ss_pred             eccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccccc
Q 042164           84 CLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWD  163 (235)
Q Consensus        84 ~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~  163 (235)
                      .+..|.+.++..+..+++++.+++++|+++.++ .+..+++|+.|++++|+ ++.++.  ++.+++|++|++++|.+++.
T Consensus       291 ~~~~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         291 ELNENQLEDISPISNLKNLTYLTLYFNNISDIS-PVSSLTKLQRLFFANNK-VSDVSS--LANLTNINWLSAGHNQISDL  366 (384)
T ss_dssp             ECCSSCCSCCGGGGGCTTCSEEECCSSCCSCCG-GGGGCTTCCEEECCSSC-CCCCGG--GGGCTTCCEEECCSSCCCBC
T ss_pred             cccccccccccccchhcccCeEECCCCCCCCCc-ccccCCCCCEEECCCCC-CCCChh--HcCCCCCCEEECCCCcCCCC
Confidence            999999998888889999999999999999875 37889999999999998 666663  88999999999999999833


Q ss_pred             ccCCCCCccchhcccCCCccceeeecCC
Q 042164          164 KVEGGSNASLAELKGLSKLTTLNIQVPD  191 (235)
Q Consensus       164 ~~~~~~~~~~~~~~~~~~L~~L~l~~n~  191 (235)
                                ..+.++++|+.|+|++|+
T Consensus       367 ----------~~l~~l~~L~~L~L~~Na  384 (384)
T d2omza2         367 ----------TPLANLTRITQLGLNDQA  384 (384)
T ss_dssp             ----------GGGTTCTTCSEEECCCEE
T ss_pred             ----------hhhccCCCCCEeeCCCCc
Confidence                      348889999999999874

>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=99.77  E-value=2.4e-17  Score=129.01  Aligned_cols=197  Identities=13%  Similarity=0.150  Sum_probs=144.8

Q ss_pred             ccCCCcEEecCCCCCCCCCCc-C-CCCCccEEEeccCCCCCcccchh---------------------hhhCCCCCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPER-L-QCPNLQLFLLFREGNGPMQISDH---------------------FFEGTEELKVLD   61 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~-~-~l~~L~~L~l~~~~~~~~~~~~~---------------------~~~~~~~L~~L~   61 (235)
                      .+++|++|++++|.+..+++. + .+++|+.+++  .++.+..++..                     .+.....+..++
T Consensus        53 ~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l--~~n~l~~l~~~~~~~l~~L~~~~n~l~~l~~~~~~~~~~~~~l~  130 (305)
T d1xkua_          53 NLKNLHTLILINNKISKISPGAFAPLVKLERLYL--SKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVE  130 (305)
T ss_dssp             TCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC--CSSCCSBCCSSCCTTCCEEECCSSCCCBBCHHHHTTCTTCCEEE
T ss_pred             ccccccccccccccccccchhhhhCCCccCEecc--cCCccCcCccchhhhhhhhhccccchhhhhhhhhhccccccccc
Confidence            457888999999998877554 4 7888888888  44444444432                     222333334444


Q ss_pred             ecCccCCC---CChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCC-CcchhhccCCCCcEEcccCCcCCC
Q 042164           62 FTGIHFSS---LPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIK-QLPLEIGQLTRLQLLDLSNCWSLE  137 (235)
Q Consensus        62 l~~~~~~~---~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~-~~~~~~~~l~~L~~L~l~~~~~~~  137 (235)
                      ...+....   .+..+..+++|+++++.+|.+..++. ..++++++|++++|..+ ..+..+..++.++.|++++|. +.
T Consensus       131 ~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~-~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~-l~  208 (305)
T d1xkua_         131 LGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQ-GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-IS  208 (305)
T ss_dssp             CCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCS-SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSC-CC
T ss_pred             cccccccccCCCccccccccccCccccccCCccccCc-ccCCccCEEECCCCcCCCCChhHhhcccccccccccccc-cc
Confidence            44333221   23346677889999999998887722 23678999999999888 445668899999999999998 66


Q ss_pred             CCchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCccc--------cccccceeEE
Q 042164          138 VIPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEW--------VFVELQSYRI  209 (235)
Q Consensus       138 ~~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~--------~~~~L~~l~l  209 (235)
                      .++...+..+++|++|++++|.++         .++..+..+++|++|++++|.++.++...        ..++|+.+++
T Consensus       209 ~~~~~~~~~l~~L~~L~L~~N~L~---------~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~f~~~~~~~~~~~L~~L~L  279 (305)
T d1xkua_         209 AVDNGSLANTPHLRELHLNNNKLV---------KVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSL  279 (305)
T ss_dssp             EECTTTGGGSTTCCEEECCSSCCS---------SCCTTTTTCSSCCEEECCSSCCCCCCTTSSSCSSCCTTSCCCSEEEC
T ss_pred             ccccccccccccceeeeccccccc---------ccccccccccCCCEEECCCCccCccChhhccCcchhcccCCCCEEEC
Confidence            666666899999999999999988         34567888999999999999999887543        3467888888


Q ss_pred             Eecccc
Q 042164          210 CIGNKW  215 (235)
Q Consensus       210 ~~~~~~  215 (235)
                       .++.|
T Consensus       280 -~~N~~  284 (305)
T d1xkua_         280 -FSNPV  284 (305)
T ss_dssp             -CSSSS
T ss_pred             -CCCcC
Confidence             46666

>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=99.74  E-value=8e-18  Score=123.12  Aligned_cols=171  Identities=13%  Similarity=0.157  Sum_probs=121.8

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCC-ChhhcCCccCcEEeccC
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSL-PSSLGRLINLQTLCLDW   87 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-~~~l~~l~~L~~L~l~~   87 (235)
                      .++++++++++++||..+ .++++.|++ +.+.....++...|..+++|++|++++|.+..+ +..+..+++|++|++++
T Consensus        10 ~~~v~Cs~~~L~~iP~~l-p~~l~~L~L-s~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          10 GTTVDCTGRGLKEIPRDI-PLHTTELLL-NDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEEC-CSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEEeCCCcCccCCCC-CCCCCEEEe-CCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecc
Confidence            457899999999998876 478899999 444443456666678899999999999988875 45677888999999999


Q ss_pred             cCCCCc--cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEeccccccccc
Q 042164           88 CQLEDV--AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQWDK  164 (235)
Q Consensus        88 ~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~~~~  164 (235)
                      |++..+  ..|..+++|++|++++|+++.+++. |..+++|+++++++|.+........+.  ..++...+..+.++.. 
T Consensus        88 N~l~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~~~~~~~~--~~l~~~~l~~~~~~c~-  164 (192)
T d1w8aa_          88 NKIKEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFA--EWLRKKSLNGGAARCG-  164 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCSGGGHHHH--HHHHHHCCSGGGCBBC-
T ss_pred             ccccccCHHHHhCCCcccccccCCccccccCHHHhcCCcccccccccccccccccchHHHh--hhhhhhcccCCCeEeC-
Confidence            998877  6688889999999999998877654 778888999999888744433322121  1233344444444411 


Q ss_pred             cCCCCCccchhcccCCCccceeeecCCCCC
Q 042164          165 VEGGSNASLAELKGLSKLTTLNIQVPDAQI  194 (235)
Q Consensus       165 ~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~  194 (235)
                             .+   ..+.+++.++++.|.+..
T Consensus       165 -------~p---~~l~~~~l~~L~~n~l~C  184 (192)
T d1w8aa_         165 -------AP---SKVRDVQIKDLPHSEFKC  184 (192)
T ss_dssp             -------SS---TTTTTSBGGGSCTTTCCC
T ss_pred             -------CC---hhhcCCEeeecCHhhCcC
Confidence                   12   234556677777777763

>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=99.74  E-value=1.3e-17  Score=126.31  Aligned_cols=189  Identities=16%  Similarity=0.157  Sum_probs=92.7

Q ss_pred             CCCcEEecCCCCCCCCCCcC--CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecC-ccCCCC-ChhhcCCccCcE
Q 042164            7 KGPIAISLPQRDIQELPERL--QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTG-IHFSSL-PSSLGRLINLQT   82 (235)
Q Consensus         7 ~~l~~L~l~~~~l~~i~~~~--~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~-~~~~~~-~~~l~~l~~L~~   82 (235)
                      +++++|++++|.|+.+|...  ++++|++|++ +.+.....++...|..++.++++++.. +.+... +..+..+++|++
T Consensus        29 ~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~l-s~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~  107 (242)
T d1xwdc1          29 RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEI-SQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQY  107 (242)
T ss_dssp             SCCSEEEEESCCCCEECTTTTTTCTTCCEEEE-ESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCE
T ss_pred             CCCCEEECcCCcCCccChhHhhccchhhhhhh-ccccccceeeccccccccccccccccccccccccccccccccccccc
Confidence            45556666666665555432  5566666666 444444444444445555555555543 334432 234555666666


Q ss_pred             EeccCcCCCCcccc---CCCCCCcEEEecCCCCCCcchh-hccCC-CCcEEcccCCcCCCCCchhhhcCCCCCcEEE-ec
Q 042164           83 LCLDWCQLEDVAAI---GQLKKLEILSFRGSNIKQLPLE-IGQLT-RLQLLDLSNCWSLEVIPPNVISKLSRLEELY-MD  156 (235)
Q Consensus        83 L~l~~~~l~~~~~~---~~l~~L~~L~l~~~~~~~~~~~-~~~l~-~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~-l~  156 (235)
                      +++.+|.+.....+   ..+..+..+....+.+..++.. +..++ .++.+++.+|. +..++.. ....+++.++. ++
T Consensus       108 l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~-l~~i~~~-~~~~~~l~~~~~l~  185 (242)
T d1xwdc1         108 LLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNG-IQEIHNC-AFNGTQLDELNLSD  185 (242)
T ss_dssp             EEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSC-CCEECTT-TTTTCCEEEEECTT
T ss_pred             cccchhhhcccccccccccccccccccccccccccccccccccccccceeeeccccc-ccccccc-cccchhhhcccccc
Confidence            66666555544222   2233333334444444444322 33332 55556666555 4444443 22334444333 34


Q ss_pred             cccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcccccccccee
Q 042164          157 ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQEWVFVELQSY  207 (235)
Q Consensus       157 ~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~~~~~~L~~l  207 (235)
                      +|.++..        ....+.++++|+.|++++|.++.+|.. .|.++..|
T Consensus       186 ~n~l~~l--------~~~~f~~l~~L~~L~Ls~N~l~~l~~~-~~~~l~~L  227 (242)
T d1xwdc1         186 NNNLEEL--------PNDVFHGASGPVILDISRTRIHSLPSY-GLENLKKL  227 (242)
T ss_dssp             CTTCCCC--------CTTTTTTSCCCSEEECTTSCCCCCCSS-SCTTCCEE
T ss_pred             ccccccc--------cHHHhcCCCCCCEEECCCCcCCccCHH-HHcCCccc
Confidence            4445422        123456667777777777777766654 34444444

>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=99.72  E-value=3.7e-17  Score=123.65  Aligned_cols=211  Identities=19%  Similarity=0.149  Sum_probs=155.9

Q ss_pred             CcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CC-hhhcCCccCcEEecc
Q 042164            9 PIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LP-SSLGRLINLQTLCLD   86 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~-~~l~~l~~L~~L~l~   86 (235)
                      -+.+++++..++.+|+.+ .+++++|++  .++.+..++...|.++++|++|++++|.+.. ++ ..|..+++++++.+.
T Consensus        10 ~~~i~c~~~~l~~iP~~l-~~~l~~L~L--s~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~   86 (242)
T d1xwdc1          10 NRVFLCQESKVTEIPSDL-PRNAIELRF--VLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   86 (242)
T ss_dssp             SSEEEEESCSCSSCCSCS-CSCCSEEEE--ESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEE
T ss_pred             CCEEEEeCCCCCCcCCCC-CCCCCEEEC--cCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccc
Confidence            367889999999999876 468999999  5666778888778999999999999998875 43 457889999999986


Q ss_pred             C-cCCCCc--cccCCCCCCcEEEecCCCCCCcch--hhccCCCCcEEcccCCcCCCCCchhhhcCCC-CCcEEEeccccc
Q 042164           87 W-CQLEDV--AAIGQLKKLEILSFRGSNIKQLPL--EIGQLTRLQLLDLSNCWSLEVIPPNVISKLS-RLEELYMDISFS  160 (235)
Q Consensus        87 ~-~~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~-~L~~L~l~~n~~  160 (235)
                      . +.+...  ..+..+++|+++++..+.+...+.  .+..+..+..+....+. +..++...+..++ .+..+++++|.+
T Consensus        87 ~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~-l~~i~~~~~~~~~~~l~~L~l~~n~l  165 (242)
T d1xwdc1          87 KANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNIN-IHTIERNSFVGLSFESVILWLNKNGI  165 (242)
T ss_dssp             CCTTCCEECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTT-CCEECTTSSTTSBSSCEEEECCSSCC
T ss_pred             ccccccccccccccccccccccccchhhhcccccccccccccccccccccccc-cccccccccccccccceeeecccccc
Confidence            5 456644  678899999999999999886543  24455666666666655 5666655455554 788899999988


Q ss_pred             cccccCCCCCccchhcccCCCccce-eeecCCCCCCCccc--cccccceeEEEecccccccchhhhhhhhhccccCCC
Q 042164          161 QWDKVEGGSNASLAELKGLSKLTTL-NIQVPDAQILPQEW--VFVELQSYRICIGNKWWSSWSVKSGLSRLMKLQGLE  235 (235)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~~~L~~L-~l~~n~~~~~p~~~--~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~L~~L~  235 (235)
                      +..         .......++++++ ++++|.++.+|...  .+++|+.|+++ ++... .. .+..+.++++|++++
T Consensus       166 ~~i---------~~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls-~N~l~-~l-~~~~~~~l~~L~~l~  231 (242)
T d1xwdc1         166 QEI---------HNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDIS-RTRIH-SL-PSYGLENLKKLRARS  231 (242)
T ss_dssp             CEE---------CTTTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECT-TSCCC-CC-CSSSCTTCCEEESSS
T ss_pred             ccc---------ccccccchhhhccccccccccccccHHHhcCCCCCCEEECC-CCcCC-cc-CHHHHcCCcccccCc
Confidence            743         2222234555555 56788899998865  78999999994 55552 22 235688888887764

>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=99.70  E-value=7.3e-17  Score=109.39  Aligned_cols=102  Identities=25%  Similarity=0.299  Sum_probs=46.1

Q ss_pred             EEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           82 TLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        82 ~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      +|++++|.++.+..++.+++|++|++++|.++.+|..++.+++|+.|++++|. +..++.  ++.+++|+++++++|+++
T Consensus         2 ~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~i~   78 (124)
T d1dcea3           2 VLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNA-LENVDG--VANLPRLQELLLCNNRLQ   78 (124)
T ss_dssp             EEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSC-CCCCGG--GTTCSSCCEEECCSSCCC
T ss_pred             EEEcCCCCCCCCcccccCCCCCEEECCCCccCcchhhhhhhhccccccccccc-ccccCc--cccccccCeEECCCCccC
Confidence            34444444444433444444444444444444444444444455555555544 333332  444555555555555444


Q ss_pred             ccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          162 WDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      ..       .....++.+++|+.|++++|++.
T Consensus        79 ~~-------~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          79 QS-------AAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             SS-------STTGGGGGCTTCCEEECTTSGGG
T ss_pred             CC-------CCchhhcCCCCCCEEECCCCcCC
Confidence            22       11233444455555555555543

>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=99.70  E-value=3.9e-17  Score=116.01  Aligned_cols=130  Identities=15%  Similarity=0.145  Sum_probs=97.8

Q ss_pred             hhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCccccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEc
Q 042164           51 FEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLD  129 (235)
Q Consensus        51 ~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~  129 (235)
                      |..+..+++|++++|+++.++..+..+++|++|++++|.+..++.+..+++|++|++++|.++.++.. +..+++|++|+
T Consensus        14 ~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~   93 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   93 (162)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             ccCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCCCccccccccccccce
Confidence            45677888999999999888766677888999999999888887788888888899988888877655 56788888888


Q ss_pred             ccCCcCCCCCch-hhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCcccee
Q 042164          130 LSNCWSLEVIPP-NVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLN  186 (235)
Q Consensus       130 l~~~~~~~~~~~-~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~  186 (235)
                      +++|. +..++. ..+..+++|+++++++|.++..     .......+..+|+|+.||
T Consensus        94 L~~N~-i~~~~~l~~l~~l~~L~~L~l~~N~i~~~-----~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          94 LTNNS-LVELGDLDPLASLKSLTYLCILRNPVTNK-----KHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             CCSCC-CCCGGGGGGGGGCTTCCEEECCSSGGGGS-----TTHHHHHHHHCTTCSEET
T ss_pred             ecccc-ccccccccccccccccchhhcCCCccccc-----cchHHHHHHHCCCcCeeC
Confidence            88887 544443 3367788888888888877632     001123566677787766

>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=99.66  E-value=2.6e-16  Score=114.94  Aligned_cols=124  Identities=19%  Similarity=0.216  Sum_probs=91.6

Q ss_pred             cEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-C-ChhhcCCccCcEEeccCcCCCCc--cccCCCCCCcEEEe
Q 042164           32 QLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-L-PSSLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILSF  107 (235)
Q Consensus        32 ~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~-~~~l~~l~~L~~L~l~~~~l~~~--~~~~~l~~L~~L~l  107 (235)
                      ++++.  .++.+..+|..+   ...+++|+|++|.++. + +..|..+++|++|++++|.+..+  ..+..+++|++|++
T Consensus        11 ~~v~C--s~~~L~~iP~~l---p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~L   85 (192)
T d1w8aa_          11 TTVDC--TGRGLKEIPRDI---PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             TEEEC--TTSCCSSCCSCC---CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             CEEEE--eCCCcCccCCCC---CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeee
Confidence            45555  555556677643   3677888888888864 3 34567788888888888887766  67777888888888


Q ss_pred             cCCCCCCcch-hhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          108 RGSNIKQLPL-EIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       108 ~~~~~~~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      ++|+++.+++ .|.++++|++|++++|. +..+++.++..+++|+++++++|.+.
T Consensus        86 s~N~l~~l~~~~F~~l~~L~~L~L~~N~-l~~i~~~~f~~l~~L~~l~L~~N~~~  139 (192)
T d1w8aa_          86 GENKIKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPFN  139 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTCCBC
T ss_pred             ccccccccCHHHHhCCCcccccccCCcc-ccccCHHHhcCCcccccccccccccc
Confidence            8888887655 47778888888888887 66676666778888888888888776

>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=99.65  E-value=1.3e-15  Score=103.08  Aligned_cols=100  Identities=24%  Similarity=0.275  Sum_probs=50.0

Q ss_pred             EEeecCccCCCCChhhcCCccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCC
Q 042164           59 VLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLE  137 (235)
Q Consensus        59 ~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~  137 (235)
                      +|++++|.++.++. +..+++|++|++++|.+..+ ..++.+++|++|++++|.++.++ .+..+++|+++++++|+ +.
T Consensus         2 ~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~-i~   78 (124)
T d1dcea3           2 VLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR-LQ   78 (124)
T ss_dssp             EEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC-CC
T ss_pred             EEEcCCCCCCCCcc-cccCCCCCEEECCCCccCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCCc-cC
Confidence            45555555554432 44555555555555555554 34455555555555555555443 24455555555555554 33


Q ss_pred             CCch-hhhcCCCCCcEEEecccccc
Q 042164          138 VIPP-NVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       138 ~~~~-~~l~~~~~L~~L~l~~n~~~  161 (235)
                      .++. ..++.+++|+.+++++|.++
T Consensus        79 ~~~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          79 QSAAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             SSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             CCCCchhhcCCCCCCEEECCCCcCC
Confidence            3321 22455555555555555554

>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=99.63  E-value=3.1e-16  Score=111.30  Aligned_cols=128  Identities=18%  Similarity=0.141  Sum_probs=105.9

Q ss_pred             hhcCCccCcEEeccCcCCCCc-cccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCc
Q 042164           73 SLGRLINLQTLCLDWCQLEDV-AAIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE  151 (235)
Q Consensus        73 ~l~~l~~L~~L~l~~~~l~~~-~~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~  151 (235)
                      .+....++++|++++|+++.+ ..+..+++|++|++++|.++.++ .+..+++|++|++++|. +..+++..+..+++|+
T Consensus        13 ~~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~-i~~l~~~~~~~l~~L~   90 (162)
T d1a9na_          13 QYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNR-ICRIGEGLDQALPDLT   90 (162)
T ss_dssp             EEECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSC-CCEECSCHHHHCTTCC
T ss_pred             hccCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccC-CcccCcchhhhhccccc-ccCCCccccccccccc
Confidence            356778899999999999988 44567899999999999999874 47889999999999998 6777766577899999


Q ss_pred             EEEeccccccccccCCCCCccchhcccCCCccceeeecCCCCCCCcc----c-cccccceeEE
Q 042164          152 ELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQILPQE----W-VFVELQSYRI  209 (235)
Q Consensus       152 ~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~p~~----~-~~~~L~~l~l  209 (235)
                      +|++++|.++..       .....++.+++|+.|++++|++...|..    + .+++|+.|+-
T Consensus        91 ~L~L~~N~i~~~-------~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          91 ELILTNNSLVEL-------GDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             EEECCSCCCCCG-------GGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             cceecccccccc-------ccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeCC
Confidence            999999998733       2245678899999999999999888752    2 7788887764

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.57  E-value=9.1e-14  Score=109.82  Aligned_cols=95  Identities=20%  Similarity=0.251  Sum_probs=59.5

Q ss_pred             CCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEeccC
Q 042164            8 GPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDW   87 (235)
Q Consensus         8 ~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~   87 (235)
                      ++++|+++++.++++|+.  +++|++|++  .++.+..+|+    .+.+|+.|++.+|.++.++..   .+.|++|++++
T Consensus        39 ~l~~LdLs~~~L~~lp~~--~~~L~~L~L--s~N~l~~lp~----~~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~~  107 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPEL--PPHLESLVA--SCNSLTELPE----LPQSLKSLLVDNNNLKALSDL---PPLLEYLGVSN  107 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC--CTTCSEEEC--CSSCCSSCCC----CCTTCCEEECCSSCCSCCCSC---CTTCCEEECCS
T ss_pred             CCCEEEeCCCCCCCCCCC--CCCCCEEEC--CCCCCccccc----chhhhhhhhhhhcccchhhhh---ccccccccccc
Confidence            577788888887777753  567778887  4555556664    235666677776666655421   13466666666


Q ss_pred             cCCCCccccCCCCCCcEEEecCCCCC
Q 042164           88 CQLEDVAAIGQLKKLEILSFRGSNIK  113 (235)
Q Consensus        88 ~~l~~~~~~~~l~~L~~L~l~~~~~~  113 (235)
                      |.+..++.++.+++|++++++.+.+.
T Consensus       108 n~l~~lp~~~~l~~L~~L~l~~~~~~  133 (353)
T d1jl5a_         108 NQLEKLPELQNSSFLKIIDVDNNSLK  133 (353)
T ss_dssp             SCCSSCCCCTTCTTCCEEECCSSCCS
T ss_pred             cccccccchhhhccceeecccccccc
Confidence            66666655556666666666665443

>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=99.56  E-value=2.3e-15  Score=116.51  Aligned_cols=174  Identities=25%  Similarity=0.276  Sum_probs=100.3

Q ss_pred             CCCcEEecCCCCCC--CCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCc-cCCC--CChhhcCCccC
Q 042164            7 KGPIAISLPQRDIQ--ELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGI-HFSS--LPSSLGRLINL   80 (235)
Q Consensus         7 ~~l~~L~l~~~~l~--~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~-~~~~--~~~~l~~l~~L   80 (235)
                      .++++|+++++.+.  .++..+ .+++|+.|.+ ..+......... +..+++|++|+++++ .++.  +...+..+++|
T Consensus        46 ~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L-~~~~l~~~~~~~-l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L  123 (284)
T d2astb2          46 FRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSL-EGLRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRL  123 (284)
T ss_dssp             BCCCEEECTTCEECHHHHHHHHTTBCCCSEEEC-TTCBCCHHHHHH-HTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTC
T ss_pred             CCCCEEECCCCccCHHHHHHHHHhCCCcccccc-cccCCCcHHHHH-HhcCCCCcCccccccccccccccchhhHHHHhc
Confidence            46777777777664  233333 6777777777 444322223332 456777777777774 4442  22334567777


Q ss_pred             cEEeccCcC-CC--Cc-cccC-CCCCCcEEEecCC--CCC--CcchhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCc
Q 042164           81 QTLCLDWCQ-LE--DV-AAIG-QLKKLEILSFRGS--NIK--QLPLEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLE  151 (235)
Q Consensus        81 ~~L~l~~~~-l~--~~-~~~~-~l~~L~~L~l~~~--~~~--~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~  151 (235)
                      ++|++++|. +.  ++ ..+. ..+.|+.|+++++  .++  .+.....++++|++|++++|..++......+..+++|+
T Consensus       124 ~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~  203 (284)
T d2astb2         124 DELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQ  203 (284)
T ss_dssp             CEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCC
T ss_pred             cccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcCC
Confidence            777777764 33  12 2222 3456777777764  233  23333456777777777776533322222366777777


Q ss_pred             EEEeccc-cccccccCCCCCccchhcccCCCccceeeecC
Q 042164          152 ELYMDIS-FSQWDKVEGGSNASLAELKGLSKLTTLNIQVP  190 (235)
Q Consensus       152 ~L~l~~n-~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n  190 (235)
                      +|+++++ .++.        ..+..++.+|+|+.|+++++
T Consensus       204 ~L~L~~C~~i~~--------~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         204 HLSLSRCYDIIP--------ETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             EEECTTCTTCCG--------GGGGGGGGCTTCCEEECTTS
T ss_pred             EEECCCCCCCCh--------HHHHHHhcCCCCCEEeeeCC
Confidence            7777774 3442        24455666777777777766

>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=99.54  E-value=5.2e-17  Score=119.16  Aligned_cols=107  Identities=21%  Similarity=0.226  Sum_probs=55.6

Q ss_pred             hCCCCCcEEeecCccCCCCChhhcCCccCcEEeccCcCCCCcc-ccCCCCCCcEEEecCCCCCCcchhhccCCCCcEEcc
Q 042164           52 EGTEELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWCQLEDVA-AIGQLKKLEILSFRGSNIKQLPLEIGQLTRLQLLDL  130 (235)
Q Consensus        52 ~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~~l~~~~-~~~~l~~L~~L~l~~~~~~~~~~~~~~l~~L~~L~l  130 (235)
                      ..+.+|++|++++|.++.++ .+..+++|++|++++|.+..++ ....+++|++|++++|.++.++ .+..+++|+.|++
T Consensus        45 ~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~L  122 (198)
T d1m9la_          45 STLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLYM  122 (198)
T ss_dssp             HHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEEE
T ss_pred             hcccccceeECcccCCCCcc-cccCCccccChhhcccccccccccccccccccccccccccccccc-ccccccccccccc
Confidence            55556666666666555553 3555556666666665555542 2222344555555555555442 2445555555555


Q ss_pred             cCCcCCCCCch-hhhcCCCCCcEEEecccccc
Q 042164          131 SNCWSLEVIPP-NVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       131 ~~~~~~~~~~~-~~l~~~~~L~~L~l~~n~~~  161 (235)
                      ++|. +..++. ..+..+++|+.|++++|.+.
T Consensus       123 ~~N~-i~~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_         123 SNNK-ITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             SEEE-CCCHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             ccch-hccccccccccCCCccceeecCCCccc
Confidence            5555 333332 22455555555555555543

>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=99.52  E-value=1.1e-14  Score=112.62  Aligned_cols=176  Identities=16%  Similarity=0.194  Sum_probs=122.8

Q ss_pred             CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCC-CChhhcCCccCcEEeccCcC-CCC--c-cccCCCCC
Q 042164           27 QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSS-LPSSLGRLINLQTLCLDWCQ-LED--V-AAIGQLKK  101 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~-~~~~l~~l~~L~~L~l~~~~-l~~--~-~~~~~l~~  101 (235)
                      ...+|+.|++ +.+.........++..+++|++|+++++.++. .+..+..+++|++|++++|. +++  + .....+++
T Consensus        44 ~~~~L~~LdL-s~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~  122 (284)
T d2astb2          44 SPFRVQHMDL-SNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSR  122 (284)
T ss_dssp             CCBCCCEEEC-TTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTT
T ss_pred             cCCCCCEEEC-CCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHh
Confidence            6678999999 54444444444557889999999999998874 45667889999999999864 553  3 33456889


Q ss_pred             CcEEEecCC-CCC--Ccchhhc-cCCCCcEEcccCCc-CCC-CCchhhhcCCCCCcEEEecccc-ccccccCCCCCccch
Q 042164          102 LEILSFRGS-NIK--QLPLEIG-QLTRLQLLDLSNCW-SLE-VIPPNVISKLSRLEELYMDISF-SQWDKVEGGSNASLA  174 (235)
Q Consensus       102 L~~L~l~~~-~~~--~~~~~~~-~l~~L~~L~l~~~~-~~~-~~~~~~l~~~~~L~~L~l~~n~-~~~~~~~~~~~~~~~  174 (235)
                      |++|+++++ .++  .+...+. .++.|+.|+++++. .++ .....+..++++|++|+++++. +++        ....
T Consensus       123 L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd--------~~~~  194 (284)
T d2astb2         123 LDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKN--------DCFQ  194 (284)
T ss_dssp             CCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCG--------GGGG
T ss_pred             ccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCc--------hhhh
Confidence            999999986 454  2333333 35789999998763 122 1122335678999999998864 552        3566


Q ss_pred             hcccCCCccceeeecC-CCC-CCCccc-cccccceeEEEe
Q 042164          175 ELKGLSKLTTLNIQVP-DAQ-ILPQEW-VFVELQSYRICI  211 (235)
Q Consensus       175 ~~~~~~~L~~L~l~~n-~~~-~~p~~~-~~~~L~~l~l~~  211 (235)
                      .+..+++|++|++++| .++ .....+ .+++|+.|++..
T Consensus       195 ~l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~  234 (284)
T d2astb2         195 EFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFG  234 (284)
T ss_dssp             GGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTT
T ss_pred             hhcccCcCCEEECCCCCCCChHHHHHHhcCCCCCEEeeeC
Confidence            7788899999999985 454 222233 778899998843

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.48  E-value=1.6e-12  Score=102.45  Aligned_cols=78  Identities=22%  Similarity=0.254  Sum_probs=59.2

Q ss_pred             ccCCCcEEecCCCCCCCCCCcCCCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEEe
Q 042164            5 IRKGPIAISLPQRDIQELPERLQCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTLC   84 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L~   84 (235)
                      .++++++|++++|+|+.+|+.  ..+|+.|++  .++.+..++.    -.+.|++|++++|.++.+|. +..+++|++++
T Consensus        56 ~~~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l--~~n~l~~l~~----lp~~L~~L~L~~n~l~~lp~-~~~l~~L~~L~  126 (353)
T d1jl5a_          56 LPPHLESLVASCNSLTELPEL--PQSLKSLLV--DNNNLKALSD----LPPLLEYLGVSNNQLEKLPE-LQNSSFLKIID  126 (353)
T ss_dssp             CCTTCSEEECCSSCCSSCCCC--CTTCCEEEC--CSSCCSCCCS----CCTTCCEEECCSSCCSSCCC-CTTCTTCCEEE
T ss_pred             CCCCCCEEECCCCCCcccccc--hhhhhhhhh--hhcccchhhh----hccccccccccccccccccc-hhhhccceeec
Confidence            357899999999999999865  568888998  4445544442    23568899999998888875 56788889888


Q ss_pred             ccCcCCC
Q 042164           85 LDWCQLE   91 (235)
Q Consensus        85 l~~~~l~   91 (235)
                      +.++.+.
T Consensus       127 l~~~~~~  133 (353)
T d1jl5a_         127 VDNNSLK  133 (353)
T ss_dssp             CCSSCCS
T ss_pred             ccccccc
Confidence            8877654

>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=99.44  E-value=6.9e-16  Score=113.10  Aligned_cols=144  Identities=19%  Similarity=0.248  Sum_probs=111.2

Q ss_pred             CCCcEEecCCC--CCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCChhhcCCccCcEE
Q 042164            7 KGPIAISLPQR--DIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLPSSLGRLINLQTL   83 (235)
Q Consensus         7 ~~l~~L~l~~~--~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~~L~~L   83 (235)
                      ...+.+++.+.  .++.++..+ .+++|+.|++  .++.+..++.  +..+++|+.|++++|.++.++.....+++|++|
T Consensus        23 ~~~~~~~l~~~~~~i~~l~~sl~~L~~L~~L~L--s~n~I~~i~~--l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L   98 (198)
T d1m9la_          23 TEAEKVELHGMIPPIEKMDATLSTLKACKHLAL--STNNIEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEEL   98 (198)
T ss_dssp             TTCSCEECCBCCTTCCCCHHHHHHTTTCCEEEC--SEEEESCCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHCCEE
T ss_pred             cccceeeeecccCchhhhhhHHhcccccceeEC--cccCCCCccc--ccCCccccChhhccccccccccccccccccccc
Confidence            34566677654  244555555 7999999999  5556666754  689999999999999999988766677899999


Q ss_pred             eccCcCCCCccccCCCCCCcEEEecCCCCCCcch--hhccCCCCcEEcccCCcCCCCCch---------hhhcCCCCCcE
Q 042164           84 CLDWCQLEDVAAIGQLKKLEILSFRGSNIKQLPL--EIGQLTRLQLLDLSNCWSLEVIPP---------NVISKLSRLEE  152 (235)
Q Consensus        84 ~l~~~~l~~~~~~~~l~~L~~L~l~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~~~~~---------~~l~~~~~L~~  152 (235)
                      ++++|.++.+..+..+++|++|++++|.++.++.  .+..+++|+.|++++|++....+.         .++..+++|+.
T Consensus        99 ~l~~N~i~~l~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~  178 (198)
T d1m9la_          99 WISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKK  178 (198)
T ss_dssp             ECSEEECCCHHHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCE
T ss_pred             ccccccccccccccccccccccccccchhccccccccccCCCccceeecCCCccccCcccccchhhHHHHHHHHCCCcCE
Confidence            9999999988778889999999999999997764  588999999999999973221111         12455666766


Q ss_pred             EE
Q 042164          153 LY  154 (235)
Q Consensus       153 L~  154 (235)
                      ||
T Consensus       179 LD  180 (198)
T d1m9la_         179 LD  180 (198)
T ss_dssp             ES
T ss_pred             eC
Confidence            54

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.32  E-value=2.4e-13  Score=107.66  Aligned_cols=183  Identities=14%  Similarity=0.076  Sum_probs=96.9

Q ss_pred             cCCCcEEecCCCCCC-----CCCCcC-CCCCccEEEeccCCCC--Cc-ccch------hhhhCCCCCcEEeecCccCCC-
Q 042164            6 RKGPIAISLPQRDIQ-----ELPERL-QCPNLQLFLLFREGNG--PM-QISD------HFFEGTEELKVLDFTGIHFSS-   69 (235)
Q Consensus         6 ~~~l~~L~l~~~~l~-----~i~~~~-~l~~L~~L~l~~~~~~--~~-~~~~------~~~~~~~~L~~L~l~~~~~~~-   69 (235)
                      ...+++|++++|.+.     .+.... ..++|+.+.+ ..+..  .. ..+.      ..+..++.|++|++++|.++. 
T Consensus        30 ~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l-~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~  108 (344)
T d2ca6a1          30 DDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEF-SDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPT  108 (344)
T ss_dssp             CSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEEC-CSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTT
T ss_pred             CCCCCEEECcCCcCCHHHHHHHHHHHHhCCCCCEEEC-CCCcccccccccchHHHHHHHHHhhCCCcccccccccccccc
Confidence            356788888888764     233333 5677888887 32221  11 1111      113456778888888887763 


Q ss_pred             ----CChhhcCCccCcEEeccCcCCCCc------c---------ccCCCCCCcEEEecCCCCC-----CcchhhccCCCC
Q 042164           70 ----LPSSLGRLINLQTLCLDWCQLEDV------A---------AIGQLKKLEILSFRGSNIK-----QLPLEIGQLTRL  125 (235)
Q Consensus        70 ----~~~~l~~l~~L~~L~l~~~~l~~~------~---------~~~~l~~L~~L~l~~~~~~-----~~~~~~~~l~~L  125 (235)
                          +...+..+++|++|++++|.+...      .         .....+.++.+.++.|.++     .+...+..++.|
T Consensus       109 ~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L  188 (344)
T d2ca6a1         109 AQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLL  188 (344)
T ss_dssp             THHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTC
T ss_pred             cccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhh
Confidence                233455677788888877765410      0         1123455666666666554     122334455666


Q ss_pred             cEEcccCCcCCCC----CchhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecCCCC
Q 042164          126 QLLDLSNCWSLEV----IPPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPDAQ  193 (235)
Q Consensus       126 ~~L~l~~~~~~~~----~~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~  193 (235)
                      +.+++++|.+...    +....+..+++|+.|++++|.++..    ........+..+++|++|++++|.+.
T Consensus       189 ~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~----g~~~L~~~l~~~~~L~~L~Ls~n~i~  256 (344)
T d2ca6a1         189 HTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHL----GSSALAIALKSWPNLRELGLNDCLLS  256 (344)
T ss_dssp             CEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHH----HHHHHHHHGGGCTTCCEEECTTCCCC
T ss_pred             cccccccccccccccccchhhhhcchhhhccccccccccccc----ccccccccccccccchhhhhhcCccC
Confidence            6666666652211    0112244555666666666655421    01122334455566666666666554

>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=99.30  E-value=1.2e-11  Score=86.64  Aligned_cols=104  Identities=15%  Similarity=0.145  Sum_probs=61.0

Q ss_pred             CcEEecCCCCCCCCCCcC-CCCCccEEEeccCCCCCcccchhhhhCCCCCcEEeecCccCCCCC-hhhcCCccCcEEecc
Q 042164            9 PIAISLPQRDIQELPERL-QCPNLQLFLLFREGNGPMQISDHFFEGTEELKVLDFTGIHFSSLP-SSLGRLINLQTLCLD   86 (235)
Q Consensus         9 l~~L~l~~~~l~~i~~~~-~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-~~l~~l~~L~~L~l~   86 (235)
                      ...++++++.+..+|..+ .++++++|++ ..++.+..++...|..+++|+.|++++|+++.++ ..|..+++|++|+++
T Consensus        10 ~~~l~c~~~~~~~~p~~l~~l~~l~~L~l-~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3          10 SSGLRCTRDGALDSLHHLPGAENLTELYI-ENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             SSCEECCSSCCCTTTTTSCSCSCCSEEEC-CSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CCeEEecCCCCccCcccccCccccCeeec-CCCccccccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            345666666666565555 5666666666 4444455566555666666666666666666653 345666666666666


Q ss_pred             CcCCCCc-cccCCCCCCcEEEecCCCCC
Q 042164           87 WCQLEDV-AAIGQLKKLEILSFRGSNIK  113 (235)
Q Consensus        87 ~~~l~~~-~~~~~l~~L~~L~l~~~~~~  113 (235)
                      +|.++.+ ..+....++++|++++|.+.
T Consensus        89 ~N~l~~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          89 FNALESLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             SSCCSCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             CCCCcccChhhhccccccccccCCCccc
Confidence            6666655 22222334666666666554

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.28  E-value=1.2e-12  Score=103.57  Aligned_cols=204  Identities=16%  Similarity=0.200  Sum_probs=135.7

Q ss_pred             ccCCCcEEecCCCCCCCCCC-----------cC-CCCCccEEEeccCCCCCcccc---hhhhhCCCCCcEEeecCccCCC
Q 042164            5 IRKGPIAISLPQRDIQELPE-----------RL-QCPNLQLFLLFREGNGPMQIS---DHFFEGTEELKVLDFTGIHFSS   69 (235)
Q Consensus         5 ~~~~l~~L~l~~~~l~~i~~-----------~~-~l~~L~~L~l~~~~~~~~~~~---~~~~~~~~~L~~L~l~~~~~~~   69 (235)
                      ..++++.++++++....+..           .+ .+++|+.|++ ..+.......   ...+...+.|+.|++++|.++.
T Consensus        57 ~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~L~~L~L-~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~  135 (344)
T d2ca6a1          57 SKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRL-SDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGP  135 (344)
T ss_dssp             TCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEEC-CSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHH
T ss_pred             hCCCCCEEECCCCcccccccccchHHHHHHHHHhhCCCcccccc-cccccccccccchhhhhcccccchheecccccccc
Confidence            35788999999876543321           12 5789999999 4443322211   1223567899999999998752


Q ss_pred             -----CChh---------hcCCccCcEEeccCcCCCC--c----cccCCCCCCcEEEecCCCCCC------cchhhccCC
Q 042164           70 -----LPSS---------LGRLINLQTLCLDWCQLED--V----AAIGQLKKLEILSFRGSNIKQ------LPLEIGQLT  123 (235)
Q Consensus        70 -----~~~~---------l~~l~~L~~L~l~~~~l~~--~----~~~~~l~~L~~L~l~~~~~~~------~~~~~~~l~  123 (235)
                           +...         ....+.|+.+.+++|.+..  +    ..+...++++.++++.|.++.      +...+..++
T Consensus       136 ~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~  215 (344)
T d2ca6a1         136 QAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQ  215 (344)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCT
T ss_pred             cccccccccccccccccccccCcccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchh
Confidence                 1111         1346789999999988762  2    445677899999999998872      233467788


Q ss_pred             CCcEEcccCCcCCCCC----chhhhcCCCCCcEEEeccccccccccCCCCCccchhccc--CCCccceeeecCCCCC---
Q 042164          124 RLQLLDLSNCWSLEVI----PPNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKG--LSKLTTLNIQVPDAQI---  194 (235)
Q Consensus       124 ~L~~L~l~~~~~~~~~----~~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~--~~~L~~L~l~~n~~~~---  194 (235)
                      +|+.|++++|. ++..    ....+..+++|++|++++|.+...    ........+..  .+.|++|++++|.+..   
T Consensus       216 ~L~~L~Ls~N~-i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~----g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~  290 (344)
T d2ca6a1         216 ELKVLDLQDNT-FTHLGSSALAIALKSWPNLRELGLNDCLLSAR----GAAAVVDAFSKLENIGLQTLRLQYNEIELDAV  290 (344)
T ss_dssp             TCCEEECCSSC-CHHHHHHHHHHHGGGCTTCCEEECTTCCCCHH----HHHHHHHHHHTCSSCCCCEEECCSSCCBHHHH
T ss_pred             hhccccccccc-ccccccccccccccccccchhhhhhcCccCch----hhHHHHHHhhhccCCCCCEEECCCCcCChHHH
Confidence            99999999997 3321    112367889999999999988733    11122233332  4679999999998852   


Q ss_pred             --CCccc--cccccceeEEEecccc
Q 042164          195 --LPQEW--VFVELQSYRICIGNKW  215 (235)
Q Consensus       195 --~p~~~--~~~~L~~l~l~~~~~~  215 (235)
                        +...+  ..++|+.|+++ ++..
T Consensus       291 ~~l~~~l~~~~~~L~~L~l~-~N~~  314 (344)
T d2ca6a1         291 RTLKTVIDEKMPDLLFLELN-GNRF  314 (344)
T ss_dssp             HHHHHHHHHHCTTCCEEECT-TSBS
T ss_pred             HHHHHHHHccCCCCCEEECC-CCcC
Confidence              33333  46789999884 5544

>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=99.25  E-value=2.6e-11  Score=84.83  Aligned_cols=104  Identities=20%  Similarity=0.104  Sum_probs=58.5

Q ss_pred             CCcEEeecCccCCCCChhhcCCccCcEEeccCc-CCCCc--cccCCCCCCcEEEecCCCCCCcch-hhccCCCCcEEccc
Q 042164           56 ELKVLDFTGIHFSSLPSSLGRLINLQTLCLDWC-QLEDV--AAIGQLKKLEILSFRGSNIKQLPL-EIGQLTRLQLLDLS  131 (235)
Q Consensus        56 ~L~~L~l~~~~~~~~~~~l~~l~~L~~L~l~~~-~l~~~--~~~~~l~~L~~L~l~~~~~~~~~~-~~~~l~~L~~L~l~  131 (235)
                      ..+.++..++.+..+|..+..+++|++|++.++ .++.+  ..|..+++|+.|++++|+++.++. .|..+++|++|+++
T Consensus         9 ~~~~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls   88 (156)
T d2ifga3           9 GSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (156)
T ss_dssp             SSSCEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CCCeEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceecc
Confidence            344455555555555555555666666666544 35544  445566666666666666665533 35566666666666


Q ss_pred             CCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164          132 NCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       132 ~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      +|+ +..++..++. ..+|+.|++++|.+.
T Consensus        89 ~N~-l~~l~~~~~~-~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          89 FNA-LESLSWKTVQ-GLSLQELVLSGNPLH  116 (156)
T ss_dssp             SSC-CSCCCSTTTC-SCCCCEEECCSSCCC
T ss_pred             CCC-CcccChhhhc-cccccccccCCCccc
Confidence            665 4455555333 234666666666554

>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=98.59  E-value=1.1e-08  Score=82.61  Aligned_cols=183  Identities=16%  Similarity=0.066  Sum_probs=116.9

Q ss_pred             CCCCccEEEeccCCCCCcc----cchhhhhCCCCCcEEeecCccCCC-----CChhhcCCccCcEEeccCcCCCC--c--
Q 042164           27 QCPNLQLFLLFREGNGPMQ----ISDHFFEGTEELKVLDFTGIHFSS-----LPSSLGRLINLQTLCLDWCQLED--V--   93 (235)
Q Consensus        27 ~l~~L~~L~l~~~~~~~~~----~~~~~~~~~~~L~~L~l~~~~~~~-----~~~~l~~l~~L~~L~l~~~~l~~--~--   93 (235)
                      ..+.++.+.+ ..+.....    .....+.....++.+++++|.+..     ....+...+.++.+++++|.+..  +  
T Consensus       224 ~~~~~~~l~~-~~n~~~~~~~~~~~~~~~~~~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~  302 (460)
T d1z7xw1         224 SKASLRELAL-GSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARL  302 (460)
T ss_dssp             HCTTCCEEEC-CSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHH
T ss_pred             ccccccccch-hhccccccccchhhcccccccccccccccccccccccccccccccccccccccccccccccccccccch
Confidence            4677778887 43332221    112223456789999999988763     22345667889999999998762  1  


Q ss_pred             --cc-cCCCCCCcEEEecCCCCCC-----cchhhccCCCCcEEcccCCcCCCC----CchhhhcCCCCCcEEEecccccc
Q 042164           94 --AA-IGQLKKLEILSFRGSNIKQ-----LPLEIGQLTRLQLLDLSNCWSLEV----IPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        94 --~~-~~~l~~L~~L~l~~~~~~~-----~~~~~~~l~~L~~L~l~~~~~~~~----~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                        .. ......|+.++++.+.++.     +...+...++|++|++++|.+...    +........+.|++|++++|.++
T Consensus       303 l~~~l~~~~~~L~~l~l~~~~l~~~~~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~  382 (460)
T d1z7xw1         303 LCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVS  382 (460)
T ss_dssp             HHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCC
T ss_pred             hhccccccccccccccccccchhhhhhhhcccccccccchhhhheeeecccCcccchhhhhhhcccCCCCEEECCCCCCC
Confidence              22 2345679999999998873     233455677899999999973221    22221234677999999999987


Q ss_pred             ccccCCCCCccchhcccCCCccceeeecCCCCC-----CCccc--cccccceeEEEecccc
Q 042164          162 WDKVEGGSNASLAELKGLSKLTTLNIQVPDAQI-----LPQEW--VFVELQSYRICIGNKW  215 (235)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-----~p~~~--~~~~L~~l~l~~~~~~  215 (235)
                      ..    ........+..+++|++|++++|.++.     +...+  ...+|+.+++. .+.+
T Consensus       383 ~~----~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~l~l~-~~~~  438 (460)
T d1z7xw1         383 DS----SCSSLAATLLANHSLRELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLY-DIYW  438 (460)
T ss_dssp             HH----HHHHHHHHHHHCCCCCEEECCSSSCCHHHHHHHHHHHTSTTCCCCEEECT-TCCC
T ss_pred             hH----HHHHHHHHHhcCCCCCEEECCCCcCCHHHHHHHHHHHHhCCCccCEEECC-CCCC
Confidence            32    111234456778999999999999863     11111  22367888873 4443

>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=98.58  E-value=4.7e-09  Score=84.91  Aligned_cols=105  Identities=23%  Similarity=0.321  Sum_probs=79.2

Q ss_pred             CCcEEeecCccCCC--CChhhcCCccCcEEeccCcCCCC-----c-cccCCCCCCcEEEecCCCCCC-----cchhhc-c
Q 042164           56 ELKVLDFTGIHFSS--LPSSLGRLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSNIKQ-----LPLEIG-Q  121 (235)
Q Consensus        56 ~L~~L~l~~~~~~~--~~~~l~~l~~L~~L~l~~~~l~~-----~-~~~~~l~~L~~L~l~~~~~~~-----~~~~~~-~  121 (235)
                      .|++||+++++++.  +...+..+++++.+++.+|.++.     + ..+..+++|++|+++.|.++.     +...+. .
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            57899999999985  44556778999999999998872     2 556788999999999998862     222222 2


Q ss_pred             CCCCcEEcccCCcCCCCCc----hhhhcCCCCCcEEEecccccc
Q 042164          122 LTRLQLLDLSNCWSLEVIP----PNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus       122 l~~L~~L~l~~~~~~~~~~----~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      ..+|+.|++++|. ++...    ...+..+++|++|++++|.+.
T Consensus        83 ~~~L~~L~L~~n~-it~~~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          83 SCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             TCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             CCCCCEEECCCCC-ccccccccccchhhccccccccccccccch
Confidence            3579999999998 43322    223677889999999999886

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.40  E-value=7.5e-09  Score=72.46  Aligned_cols=63  Identities=22%  Similarity=0.206  Sum_probs=32.0

Q ss_pred             CCCCCcEEEecCCCCCCcc---hhhccCCCCcEEcccCCcCCCCCchhhhcCCCCCcEEEecccccc
Q 042164           98 QLKKLEILSFRGSNIKQLP---LEIGQLTRLQLLDLSNCWSLEVIPPNVISKLSRLEELYMDISFSQ  161 (235)
Q Consensus        98 ~l~~L~~L~l~~~~~~~~~---~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~L~l~~n~~~  161 (235)
                      .+++|++|++++|.++.++   ..+..+++|+.|++++|. +..+++-.......|+++++++|.+.
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~-i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSC-CCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCc-cccchhhhhhhccccceeecCCCCcC
Confidence            3455555555555555332   234455666666666665 44443311223334566666666554

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.33  E-value=2e-08  Score=70.20  Aligned_cols=59  Identities=20%  Similarity=0.162  Sum_probs=26.3

Q ss_pred             CCccCcEEeccCcCCCCc----cccCCCCCCcEEEecCCCCCCcchh-hccCCCCcEEcccCCc
Q 042164           76 RLINLQTLCLDWCQLEDV----AAIGQLKKLEILSFRGSNIKQLPLE-IGQLTRLQLLDLSNCW  134 (235)
Q Consensus        76 ~l~~L~~L~l~~~~l~~~----~~~~~l~~L~~L~l~~~~~~~~~~~-~~~l~~L~~L~l~~~~  134 (235)
                      .+++|++|++++|.++.+    ..++.+++|+.|++++|.++.++.. ......|+.+++++|+
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCC
Confidence            344444444444444433    1223344555555555555444331 2223345555555555

>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=98.23  E-value=1.2e-06  Score=61.27  Aligned_cols=61  Identities=15%  Similarity=0.249  Sum_probs=27.3

Q ss_pred             CCCCCcEEeecCc-cCCC-----CChhhcCCccCcEEeccCcCCCC-----c-cccCCCCCCcEEEecCCCCC
Q 042164           53 GTEELKVLDFTGI-HFSS-----LPSSLGRLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSNIK  113 (235)
Q Consensus        53 ~~~~L~~L~l~~~-~~~~-----~~~~l~~l~~L~~L~l~~~~l~~-----~-~~~~~l~~L~~L~l~~~~~~  113 (235)
                      ..+.|++|+|+++ .++.     +...+...++|++|++++|.+..     + ..+...++|++|++++|.++
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~   85 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLT   85 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCC
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcc
Confidence            3455566666542 2331     11223444555555555555441     1 23333444555555555444

>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=98.17  E-value=6.2e-07  Score=62.68  Aligned_cols=113  Identities=13%  Similarity=0.088  Sum_probs=63.9

Q ss_pred             CCccCcEEeccCc-CCCC-----c-cccCCCCCCcEEEecCCCCC-----CcchhhccCCCCcEEcccCCcCCCCCc---
Q 042164           76 RLINLQTLCLDWC-QLED-----V-AAIGQLKKLEILSFRGSNIK-----QLPLEIGQLTRLQLLDLSNCWSLEVIP---  140 (235)
Q Consensus        76 ~l~~L~~L~l~~~-~l~~-----~-~~~~~l~~L~~L~l~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~~~~~---  140 (235)
                      ..++|++|+++++ .++.     + ..+...++|++|++++|.++     .+...+...+.|++|++++|. ++.-.   
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~-i~~~g~~~   91 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNF-LTPELLAR   91 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSB-CCHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhh-cchHHHHH
Confidence            4577888888764 3541     2 55666677777777777765     233345556677777777776 33211   


Q ss_pred             -hhhhcCCCCCcEEEeccccccccccCCCCCccchhcccCCCccceeeecC
Q 042164          141 -PNVISKLSRLEELYMDISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVP  190 (235)
Q Consensus       141 -~~~l~~~~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n  190 (235)
                       ..++...++|++|++++|.+.... ......+...+...+.|+.|+++.+
T Consensus        92 l~~aL~~n~sL~~L~l~~n~~~~~g-~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          92 LLRSTLVTQSIVEFKADNQRQSVLG-NQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHHTTTTCCCSEEECCCCSSCCCC-HHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHhCCcCCEEECCCCcCCCcc-HHHHHHHHHHHHhCCCccEeeCcCC
Confidence             122555666777777766544210 0011123445555666666666544

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.75  E-value=6.8e-06  Score=57.07  Aligned_cols=62  Identities=10%  Similarity=0.173  Sum_probs=30.0

Q ss_pred             hCCCCCcEEeecC-ccCCC-----CChhhcCCccCcEEeccCcCCCC-----c-cccCCCCCCcEEEecCCCCC
Q 042164           52 EGTEELKVLDFTG-IHFSS-----LPSSLGRLINLQTLCLDWCQLED-----V-AAIGQLKKLEILSFRGSNIK  113 (235)
Q Consensus        52 ~~~~~L~~L~l~~-~~~~~-----~~~~l~~l~~L~~L~l~~~~l~~-----~-~~~~~l~~L~~L~l~~~~~~  113 (235)
                      ...+.|++|++++ +.++.     +...+...++|++|++++|.+..     + ..+...++++.++++.+.++
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~   87 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFIS   87 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCC
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhcccccc
Confidence            4456666666665 33431     22234455556666666655541     1 33334445555555554443

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.75  E-value=1.1e-05  Score=55.93  Aligned_cols=112  Identities=13%  Similarity=0.058  Sum_probs=54.9

Q ss_pred             CCccCcEEeccCc-CCC--C---c-cccCCCCCCcEEEecCCCCC-----CcchhhccCCCCcEEcccCCcCCCCCc---
Q 042164           76 RLINLQTLCLDWC-QLE--D---V-AAIGQLKKLEILSFRGSNIK-----QLPLEIGQLTRLQLLDLSNCWSLEVIP---  140 (235)
Q Consensus        76 ~l~~L~~L~l~~~-~l~--~---~-~~~~~l~~L~~L~l~~~~~~-----~~~~~~~~l~~L~~L~l~~~~~~~~~~---  140 (235)
                      ..++|++++++++ .++  +   + .++...++|++|++++|.++     .+...+...++++.+++++|.+.....   
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l   94 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL   94 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             cCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHH
Confidence            4466666666653 343  1   1 44455566666666666655     223334555666666666665211110   


Q ss_pred             hhhhcCCCCCcEEEec--cccccccccCCCCCccchhcccCCCccceeeecCC
Q 042164          141 PNVISKLSRLEELYMD--ISFSQWDKVEGGSNASLAELKGLSKLTTLNIQVPD  191 (235)
Q Consensus       141 ~~~l~~~~~L~~L~l~--~n~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~n~  191 (235)
                      ...+...++|++++++  .|.+...    ........+...+.|+.|+++.+.
T Consensus        95 ~~~l~~~~~L~~l~L~l~~n~i~~~----~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          95 VEALQSNTSLIELRIDNQSQPLGNN----VEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHH----HHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHhCccccEEeeccCCCcCcHH----HHHHHHHHHHhCCCcCEEeCcCCC
Confidence            1124555666655553  2333211    111233444556666666665543