Citrus Sinensis ID: 043181

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------35
Protein Sequence
MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLESL
Secondary Structure (PSIPRED)
cccccHHHHHHHHHccHHHHcccccccEEEEcccccHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHccccccccccHHHHHHHHccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHcccccEEcccccEEEEcHHHHHHHHHHcccccEEccccccEEEEEccccccccccccccHHHHHHHHHccccEEEEEcccccccccccccccccccccccccHHHHccccccccccccccccccccHHHcccccccEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHccHHHHHHccEEEEEEEcccccccHHHHEEEEEEcccHcccccccEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHHcHHcccHHHHHHHHEEEEccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHHHccccccccccccccEEEEcccccccccccccccHHHHHHHHHcccccHHHcccHHHccHHEEEEEccccccccccHHHcccHHHHEEEEcccHHHHHccHHHHHHHcccEEEccccccHcccccc
Coil and Loop (DISEMBL)
MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTeavrdndlnllqlkkwsdddclcvftqrssrrtdfnMHMHLKEIGEKIVKKCNGLPLASEILGGllhgkvdcidwedvlnskaischyllphlkrcfsycsifpedckFEEEELILLRMAQGFlrhensekpveqlghqysgelqsrshfrqsssnvsrFAMHDFINDLAHkydgikrfeaidGVKHlrtslpissrvvwdyshlnrnvlFDLSLKLQCFryelpseigdlkILRYLNfsdaqvetspesvcklhnletlkLQNCNRLQKLFADignlnnlhhldnfvtFSLESLESL
Flexible Loop (DISEMBL)
MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLlqlkkwsdddcLCVFTqrssrrtdfnmHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLESL
Low Complexity Region (SEG)
MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLESL
Disordered region (IsUnstruct)
******TTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLR*********************************RFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSL******
Disordered Region (DISOPRED)
MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHEN****VEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES*
Disordered Region (DISEMBL)
MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQ***********VSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLESL
Disordered Region (DISPRO)
**GVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLE*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLESL
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	348	2.2.26 [Sep-21-2011]
Q9LRR4	1054	Putative disease resistan	yes	no	0.954	0.314	0.314	8e-44
Q9LRR5	1424	Putative disease resistan	no	no	0.962	0.235	0.302	3e-42
Q7XA39	988	Putative disease resistan	N/A	no	0.939	0.330	0.312	2e-37
Q7XA40	992	Putative disease resistan	N/A	no	0.787	0.276	0.356	8e-32
Q7XBQ9	970	Disease resistance protei	N/A	no	0.856	0.307	0.332	6e-30
Q7XA42	979	Putative disease resistan	N/A	no	0.807	0.287	0.332	1e-29
Q8W3K3	910	Putative disease resistan	no	no	0.991	0.379	0.239	7e-16
Q9STE7	847	Putative disease resistan	no	no	0.692	0.284	0.305	1e-15
Q9SX38	857	Putative disease resistan	no	no	0.698	0.283	0.293	3e-15
Q9FG91	848	Probable disease resistan	no	no	0.971	0.398	0.235	3e-15

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

 Score =  177 bits (450), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 143/455 (31%), Positives = 219/455 (48%), Gaps = 123/455 (27%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYL-----------------------FEDFDV 37
           +GGVGKTTL+QLL N+  V++ F  + W ++                       F D DV
Sbjct: 204 IGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDLDV 263

Query: 38  F------RITKT------MLQSISTEAVRDNDL--------------------------- 58
                  R+T T      +L  +  E   D DL                           
Sbjct: 264 LQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIM 323

Query: 59  ---NLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGL 115
              ++  L+  SD DC  +F +      +  ++  + ++ E+IV KC GLPLA + LGG+
Sbjct: 324 CAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLGGV 383

Query: 116 LHGKVDCIDWEDVLNSKA---------------ISCHYLLPHLKRCFSYCSIFPEDCKFE 160
           L  +   I+WE VL+S+                +S +YL  HLKRCF+YCSIFP+   FE
Sbjct: 384 LRFEGKVIEWERVLSSRIWDLPADKSNLLPVLRVSYYYLPAHLKRCFAYCSIFPKGHAFE 443

Query: 161 EEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLA 220
           +++++LL MA+GFL+   S K +E+LG++Y  EL+SRS  +++ +   R+ MHDFIN+LA
Sbjct: 444 KDKVVLLWMAEGFLQQTRSSKNLEELGNEYFSELESRSLLQKTKT---RYIMHDFINELA 500

Query: 221 H--------KY-DGIK---------------------RFEAIDGVKHLRTSLPIS----S 246
                    K+ DG K                      FEA+  VK LRT LP+S    S
Sbjct: 501 QFASGEFSSKFEDGCKLQVSERTRYLSYLRDNYAEPMEFEALREVKFLRTFLPLSLTNSS 560

Query: 247 RVVWDYSHLNRNVLFDLS----LKLQCFRY-ELPSEI-GDLKILRYLNFSDAQVETSPES 300
           R       ++  +L  L+    L L  ++   LP +   ++   R+L+ S  ++E  P+S
Sbjct: 561 RSCCLDQMVSEKLLPTLTRLRVLSLSHYKIARLPPDFFKNISHARFLDLSRTELEKLPKS 620

Query: 301 VCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           +C ++NL+TL L  C+ L++L  DI NL NL +LD
Sbjct: 621 LCYMYNLQTLLLSYCSSLKELPTDISNLINLRYLD 655

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

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score =  172 bits (436), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 136/449 (30%), Positives = 191/449 (42%), Gaps = 114/449 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           M GVGKTTL +++ N+ +V   F ++ W+    +F+VF +TK +LQ I++ AV   DL  
Sbjct: 201 MPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDITSSAVNTEDLPS 260

Query: 61  LQ--LKK--------------WSDDDC----------------LCVFTQRSS-------- 80
           LQ  LKK              WS+ D                   V T RS         
Sbjct: 261 LQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKA 320

Query: 81  ------------------RRTDF------NMHMHLKEIGEKIVKKCNGLPLASEILGGLL 116
                              R  F      +++  L+ IG++I ++C GLPLA+  +   L
Sbjct: 321 EKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGKRIAEQCKGLPLAARAIASHL 380

Query: 117 HGKVDCIDW-----------EDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELI 165
             K +  DW             +L    +S   L P LKRCF+ CSIFP+   F+ EEL+
Sbjct: 381 RSKPNPDDWYAVSKNFSSYTNSILPVLKLSYDSLPPQLKRCFALCSIFPKGHVFDREELV 440

Query: 166 LLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKY-- 223
           LL MA   L    S + +E +G+ Y G+L ++S F++    ++ F MHD +NDLA     
Sbjct: 441 LLWMAIDLLYQPRSSRRLEDIGNDYLGDLVAQSFFQRLDITMTSFVMHDLMNDLAKAVSG 500

Query: 224 ----------------------------DGIKRFEAIDGVKHLRTSLPISSRVVWDYSHL 255
                                       D    F +I G + LRT LP +S    +   L
Sbjct: 501 DFCFRLEDDNIPEIPSTTRHFSFSRSQCDASVAFRSICGAEFLRTILPFNSPTSLESLQL 560

Query: 256 NRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHN 306
              VL  L   L   R           LP  +  LK+LRYL+ S  +++  PE VC L N
Sbjct: 561 TEKVLNPLLNALSGLRILSLSHYQITNLPKSLKGLKLLRYLDLSSTKIKELPEFVCTLCN 620

Query: 307 LETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           L+TL L NC  L  L   I  L NL  LD
Sbjct: 621 LQTLLLSNCRDLTSLPKSIAELINLRLLD 649

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  157 bits (396), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 133/425 (31%), Positives = 200/425 (47%), Gaps = 98/425 (23%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGG+GKTTLAQ++ N+ +V   F+ + WV + +DFD  R+ KT++ +I   +    DL  
Sbjct: 185 MGGLGKTTLAQMIFNDERVTKHFNPKIWVCVSDDFDEKRLIKTIIGNIERSSPHVEDLAS 244

Query: 61  LQLK----------------KWSDD----------------------------------- 69
            Q K                 W+DD                                   
Sbjct: 245 FQKKLQELLNGKRYLLVLDDVWNDDLEKWAKLRAVLTVGARGASILATTRLEKVGSIMGT 304

Query: 70  ------------DCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                       D L +F QR+  +     + +L  IG++IVKKC G+PLA++ LGGLL 
Sbjct: 305 LQPYHLSNLSPHDSLLLFMQRAFGQQK-EANPNLVAIGKEIVKKCGGVPLAAKTLGGLLR 363

Query: 118 GKVDCIDWE---------------DVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEE 162
            K +  +WE                +L +  +S H+L   L++CF+YC++FP+D K  +E
Sbjct: 364 FKREESEWEHVRDNEIWSLPQDESSILPALRLSYHHLPLDLRQCFAYCAVFPKDTKMIKE 423

Query: 163 ELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFR--QSSSNVSRFAMHDFINDLA 220
            LI L MA GFL  + + + +E +G++   EL  RS F+  ++ S  + F +HD I+DLA
Sbjct: 424 NLITLWMAHGFLLSKGNLE-LEDVGNEVWNELYLRSFFQEIEAKSGNTYFKIHDLIHDLA 482

Query: 221 ----HKYDGIKRFEAIDGVKHLRTSLPIS-SRVVWDYSH--LNRNVLFDLSLKLQCFRY- 272
                          I+ VK  + ++ I  + VV  YS   L + V    SL++    Y 
Sbjct: 483 TSLFSASASCGNIREIN-VKDYKHTVSIGFAAVVSSYSPSLLKKFV----SLRVLNLSYS 537

Query: 273 ---ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLN 329
              +LPS IGDL  LRYL+ S     + PE +CKL NL+TL + NC  L  L      L+
Sbjct: 538 KLEQLPSSIGDLLHLRYLDLSCNNFRSLPERLCKLQNLQTLDVHNCYSLNCLPKQTSKLS 597

Query: 330 NLHHL 334
           +L HL
Sbjct: 598 SLRHL 602

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|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score =  137 bits (346), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 111/311 (35%), Positives = 164/311 (52%), Gaps = 37/311 (11%)

Query: 58  LNLLQLKKWSDDDCLCVFTQRS-SRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLL 116
           L L QL   S +DC  +F QR+   +T+ +    L EIG++IVKKC G+PLA++ LGGLL
Sbjct: 303 LQLYQLSNLSQEDCWLLFKQRAFCHQTETSPK--LMEIGKEIVKKCGGVPLAAKTLGGLL 360

Query: 117 HGKVDCIDWEDVLNSKA---------------ISCHYLLPHLKRCFSYCSIFPEDCKFEE 161
             K +  +WE V +S+                +S H+L   L++CF+YC++FP+D K E+
Sbjct: 361 RFKREESEWEHVRDSEIWNLPQDENSVLPALRLSYHHLPLDLRQCFAYCAVFPKDTKIEK 420

Query: 162 EELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQ--SSSNVSRFAMHDFINDL 219
           E LI L MA  FL  + + + +E +G++   EL  RS F++    S  + F MHD I+DL
Sbjct: 421 EYLIALWMAHSFLLSKGNME-LEDVGNEVWNELYLRSFFQEIEVKSGKTYFKMHDLIHDL 479

Query: 220 AHKYDG-------IKRFEAIDG------VKHLRTSLPIS-SRVVWDYS-HLNRNVLFDLS 264
           A            I++    D       V + +  + I  S VV  YS  L +  +    
Sbjct: 480 ATSMFSASASSRSIRQINVKDDEDMMFIVTNYKDMMSIGFSEVVSSYSPSLFKRFVSLRV 539

Query: 265 LKLQCFRYE-LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFA 323
           L L    +E LPS +GDL  LRYL+ S  ++ + P+ +CKL NL+TL L NC  L  L  
Sbjct: 540 LNLSNSEFEQLPSSVGDLVHLRYLDLSGNKICSLPKRLCKLQNLQTLDLYNCQSLSCLPK 599

Query: 324 DIGNLNNLHHL 334
               L +L +L
Sbjct: 600 QTSKLCSLRNL 610

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|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score =  132 bits (331), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 113/340 (33%), Positives = 171/340 (50%), Gaps = 42/340 (12%)

Query: 26  ETWVYLFEDFDVFRITKTMLQSISTEAVRD--NDLNLLQLKKWSDDDCLCVFTQRSSRRT 83
           + W  L     V     ++L +   E V      L   +L   S +DC  +F QR+    
Sbjct: 270 QKWANLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRAFGHQ 329

Query: 84  DFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKA---------- 133
           +  ++ +L  IG++IVKK  G+PLA++ LGG+L  K +   WE V +S            
Sbjct: 330 E-EINPNLVAIGKEIVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIWNLPQDESSI 388

Query: 134 -----ISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGH 188
                +S H L   LK+CF+YC++FP+D K E+E+LI L MA GFL  + + + +E +G 
Sbjct: 389 LPALRLSYHQLPLDLKQCFAYCAVFPKDAKMEKEKLISLWMAHGFLLSKGNME-LEDVGD 447

Query: 189 QYSGELQSRSHFRQ--SSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRT------ 240
           +   EL  RS F++       + F MHD I+DLA        F A     ++R       
Sbjct: 448 EVWKELYLRSFFQEIEVKDGKTYFKMHDLIHDLATSL-----FSANTSSSNIREINKHSY 502

Query: 241 --SLPIS-SRVVWDYS--HLNRNV-LFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQV 294
              + I  + VV+ Y+   L + + L  L+L    F  +LPS IGDL  LRYLN   + +
Sbjct: 503 THMMSIGFAEVVFFYTLPPLEKFISLRVLNLGDSTFN-KLPSSIGDLVHLRYLNLYGSGM 561

Query: 295 ETSPESVCKLHNLETLKLQNCNR---LQKLFADIGNLNNL 331
            + P+ +CKL NL+TL LQ C +   L K  + +G+L NL
Sbjct: 562 RSLPKQLCKLQNLQTLDLQYCTKLCCLPKETSKLGSLRNL 601

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. Confers a broad resistance to all known races of P.infestans.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score =  130 bits (328), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 110/331 (33%), Positives = 169/331 (51%), Gaps = 50/331 (15%)

Query: 37  VFRITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGE 96
            F +T T L+ + +       L   +L   S +DC  +F QR+    +  ++ +L  IG+
Sbjct: 285 AFVLTTTRLEKVGSIM---GTLQPYELSNLSPEDCWFLFMQRAFGHQE-EINPNLMAIGK 340

Query: 97  KIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKA---------------ISCHYLLP 141
           +IVKKC G+PLA++ LGG+L  K +  +WE V +S                 +S H+L  
Sbjct: 341 EIVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQDESSILPALRLSYHHLPL 400

Query: 142 HLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFR 201
            L++CF YC++FP+D K  +E LI   MA GFL  + + + +E +G++   EL  RS F+
Sbjct: 401 DLRQCFVYCAVFPKDTKMAKENLIAFWMAHGFLLSKGNLE-LEDVGNEVWNELYLRSFFQ 459

Query: 202 --QSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRT--------SLPIS-SRVVW 250
             +  S  + F MHD I+DLA        F A     ++R          + I  + VV 
Sbjct: 460 EIEVESGKTYFKMHDLIHDLATSL-----FSANTSSSNIREINANYDGYMMSIGFAEVVS 514

Query: 251 DYSH--LNRNVLFDLSLKLQCFR----YELPSEIGDLKILRYLNFS-DAQVETSPESVCK 303
            YS   L + V    SL++   R     +LPS IGDL  LRYL+ S + ++   P+ +CK
Sbjct: 515 SYSPSLLQKFV----SLRVLNLRNSNLNQLPSSIGDLVHLRYLDLSGNFRIRNLPKRLCK 570

Query: 304 LHNLETLKLQNCNRLQ---KLFADIGNLNNL 331
           L NL+TL L  C+ L    K  + +G+L NL
Sbjct: 571 LQNLQTLDLHYCDSLSCLPKQTSKLGSLRNL 601

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|Q8W3K3|DRL8_ARATH Putative disease resistance protein At1g58400 OS=Arabidopsis thaliana GN=At1g58400 PE=3 SV=1

 Score = 85.1 bits (209), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 122/509 (23%), Positives = 195/509 (38%), Gaps = 164/509 (32%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLN- 59
           MGG+GKTTLA+ + N+  VK++F    WV + ++F    + + +LQ++++   +D  L  
Sbjct: 192 MGGLGKTTLARQVFNHEDVKHQFDRLAWVCVSQEFTRKNVWQMILQNLTSRETKDEILQM 251

Query: 60  -----------LLQLKK--------WSDDD------------------------------ 70
                      LL+  K        W ++D                              
Sbjct: 252 EEAELHDELFQLLETSKSLIVFDDIWKEEDWGLINPIFPPKKGWKVLITSRTETIAMHGN 311

Query: 71  ---------CLCV------FTQRSSRRTD---FNMHMHLKEIGEKIVKKCNGLPLASEIL 112
                    CL +      F + +  R D   F +   ++ +G++++K C GLPLA ++L
Sbjct: 312 RRYVNFKPECLTILESWILFQRIAMPRVDESEFKVDKEMEMMGKQMIKYCGGLPLAVKVL 371

Query: 113 GGLLHGKVDCIDWEDVLNSKAISCHYL-----------------------LP-HLKRCFS 148
           GGLL  K    DW+ +  S+ I CH +                       LP +LK CF 
Sbjct: 372 GGLLAAKYTFHDWKRL--SENIGCHIVGRTDFSDGNNSSVYHVLSLSFEELPSYLKHCFL 429

Query: 149 YCSIFPEDCKFEEEELILLRMAQGFL--RHENSEKPVEQLGHQYSGELQSRSH-FRQSSS 205
           Y + FPED   + E+L     A+G L  RH + +  +  +G  Y  EL  R+    +   
Sbjct: 430 YLAHFPEDHNIKVEKLSYCWAAEGILEPRHYHGQT-IRDVGESYIEELVRRNMVIAERDV 488

Query: 206 NVSRFA---MHDFINDLA---------------------HKYDGIKRFEAIDGVKHLRTS 241
              RF    +HD + ++                       +Y G  R         L  S
Sbjct: 489 TTLRFEACHLHDMMREVCLLKAKEENFVQIASILPPTANSQYPGTSRRFVSQNPTTLHVS 548

Query: 242 LPISSR------VVWDYSHLNRNVLFDLSLKLQCFRY-----------ELPSEIGDLKIL 284
             I++       +VW+    +  +L    ++L+  R             LPS IG L  L
Sbjct: 549 RDINNPKLQSLLIVWENRRKSWKLLGSSFIRLELLRVLDLYKAKFEGRNLPSGIGKLIHL 608

Query: 285 RYLNFSDAQVETSPESVCKLHNL---------ETLKLQNC--------------NRLQKL 321
           RYLN   A+V   P S+  L  L         ++L + NC              N  +++
Sbjct: 609 RYLNLDLARVSRLPSSLGNLRLLIYLDINVCTKSLFVPNCLMGMHELRYLRLPFNTSKEI 668

Query: 322 FADIGNLNNLHHLDNFVT--FSLESLESL 348
              + NL NL  L+NF T   SLE L  +
Sbjct: 669 KLGLCNLVNLETLENFSTENSSLEDLRGM 697

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE7|R13L3_ARATH Putative disease resistance RPP13-like protein 3 OS=Arabidopsis thaliana GN=RPP13L3 PE=3 SV=1

 Score = 84.3 bits (207), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 91/298 (30%), Positives = 131/298 (43%), Gaps = 57/298 (19%)

Query: 91  LKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVL---------NSKAISCHYLLP 141
           L+  G+++VKKC GLPLA  +L GLL  K    +W +V          NS  IS  + L 
Sbjct: 351 LQRTGKEMVKKCGGLPLAIVVLSGLLSRK-RTNEWHEVCASLWRRLKDNSIHISTVFDLS 409

Query: 142 ------HLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQ 195
                  LK CF Y S+FPED + + E+LI L +A+GF+  E+ E  +E +   Y  EL 
Sbjct: 410 FKEMRHELKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFI-QEDEEMMMEDVARCYIDELV 468

Query: 196 SRSHF---RQSSSNVSRFAMHDFINDLAHK----------------YDGIKRFEAIDGV- 235
            RS     R     V    +HD + DLA K                   I R E +  + 
Sbjct: 469 DRSLVKAERIERGKVMSCRIHDLLRDLAIKKAKELNFVNVYNEKQHSSDICRREVVHHLM 528

Query: 236 -----------KHLRTSLPISSRVVWDY---SHLNRNVLFDLSLKLQCFRYE-----LPS 276
                      K +R+ L I  R  + Y   ++L   +L  L+++   F  +     LP 
Sbjct: 529 NDYYLCDRRVNKRMRSFLFIGERRGFGYVNTTNLKLKLLRVLNMEGLLFVSKNISNTLPD 588

Query: 277 EIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHL 334
            IG+L  LRYL  +D  V   P S+  L  L+TL     +  Q    D+  L +L H+
Sbjct: 589 VIGELIHLRYLGIADTYVSILPASISNLRFLQTLDASGNDPFQ-YTTDLSKLTSLRHV 645

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX38|DRL4_ARATH Putative disease resistance protein At1g50180 OS=Arabidopsis thaliana GN=At1g50180 PE=3 SV=2

 Score = 83.2 bits (204), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 85/290 (29%), Positives = 128/290 (44%), Gaps = 47/290 (16%)

Query: 91  LKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVL-NSKA---------------- 133
           ++EIG++IV +C GLPLA  +LGGLL  K    +W+ V  N K+                
Sbjct: 351 MEEIGKQIVVRCGGLPLAITVLGGLLATKSTWNEWQRVCENIKSYVSNGGSSNGSKNMLV 410

Query: 134 -----ISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGF---LRHENSEKPVEQ 185
                +S  YL PH+K+CF Y + +PED +     L+   +A+G    ++H  +   VE 
Sbjct: 411 ADVLCLSYEYLPPHVKQCFLYFAHYPEDYEVHVGTLVSYCIAEGMVMPVKHTEAGTTVED 470

Query: 186 LGHQYSGELQSRSHFRQS-----SSNVSRFAMHDFINDLAHKYDGIKRF-EAIDGVKHLR 239
           +G  Y  EL  RS          +S V    MHD + ++  +    + F + ID      
Sbjct: 471 VGQDYLEELVKRSMVMVGRRDIVTSEVMTCRMHDLMREVCLQKAKQESFVQVIDSRDQDE 530

Query: 240 TSLPIS-----SRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQV 294
               IS     SR +    H         SL    FR         +K+LR L+   AQ+
Sbjct: 531 AEAFISLSTNTSRRISVQLHGGAEEHHIKSLSQVSFR--------KMKLLRVLDLEGAQI 582

Query: 295 ETS--PESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSL 342
           E    P+ V  L +L  L ++  N +++L + IGNL  +  LD FV   L
Sbjct: 583 EGGKLPDDVGDLIHLRNLSVRLTN-VKELTSSIGNLKLMITLDLFVKGQL 631

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG91|DRL32_ARATH Probable disease resistance protein At5g43730 OS=Arabidopsis thaliana GN=At5g43730 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 109/462 (23%), Positives = 173/462 (37%), Gaps = 124/462 (26%)

Query: 1   MGGVGKTTLAQLLCNN-VKVKNRFHLETWVYLFEDFDVFRITKTMLQSI--------STE 51
           MGG+GKTTL + L N  V++++ F +  WV + +DF +  I   +L  +         TE
Sbjct: 180 MGGIGKTTLLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRPDKEWERETE 239

Query: 52  AVRDNDLN---------LLQLKKWSDDDCL--------------CVFTQRSSR-----RT 83
           + + + +N         LL    WS+ D +               VFT RS       + 
Sbjct: 240 SKKASLINNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKA 299

Query: 84  DFNM-------------------------HMHLKEIGEKIVKKCNGLPLASEILGGLLHG 118
           D  +                         H  +  +   +  KC+GLPLA  ++G  +  
Sbjct: 300 DKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVC 359

Query: 119 KVDCIDWEDVLNSKAISCH-------YLLP------------HLKRCFSYCSIFPEDCKF 159
           K    +W   +N      H        +LP             +K CF YCS+FPED + 
Sbjct: 360 KETVQEWRHAINVLNSPGHKFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEI 419

Query: 160 EEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDL 219
           E+++LI   + +G++     E      G+   G L  R+H         +  MHD I ++
Sbjct: 420 EKDKLIEYWICEGYINPNRYEDGGTNQGYDIIG-LLVRAHLLIECELTDKVKMHDVIREM 478

Query: 220 A----HKYDGIKRFEAIDGVKHLRTSLP--ISSRVVWDYSHLNRNV-------------- 259
           A      +   +    +    H+R  +P  IS  +V   S ++  V              
Sbjct: 479 ALWINSDFGNQQETICVKSGAHVRL-IPNDISWEIVRQMSLISTQVEKIACSPNCPNLST 537

Query: 260 -------LFDLSLKLQCFR--------------YELPSEIGDLKILRYLNFSDAQVETSP 298
                  L D+S+    F                ELP EI +L  L+YLN S   +++ P
Sbjct: 538 LLLPYNKLVDISVGFFLFMPKLVVLDLSTNWSLIELPEEISNLGSLQYLNLSLTGIKSLP 597

Query: 299 ESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF 340
             + KL  L  L L+  N L+ L      L NL  L  F + 
Sbjct: 598 VGLKKLRKLIYLNLEFTNVLESLVGIATTLPNLQVLKLFYSL 639

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	348
359486034	1459	PREDICTED: putative disease resistance p	0.988	0.235	0.359	8e-63
147860511	1406	hypothetical protein VITISV_014536 [Viti	0.991	0.245	0.360	2e-62
359486030	1423	PREDICTED: putative disease resistance p	0.988	0.241	0.370	2e-62
359495024	1390	PREDICTED: putative disease resistance p	0.991	0.248	0.360	2e-62
225448305	1308	PREDICTED: putative disease resistance R	0.962	0.256	0.357	5e-61
297745513	1243	unnamed protein product [Vitis vinifera]	0.962	0.269	0.357	6e-61
359486032	1427	PREDICTED: putative disease resistance p	0.962	0.234	0.351	2e-58
359486026	1381	PREDICTED: putative disease resistance R	0.954	0.240	0.351	3e-58
147820669	2655	hypothetical protein VITISV_022133 [Viti	0.954	0.125	0.349	1e-57
147862409	1466	hypothetical protein VITISV_042289 [Viti	0.784	0.186	0.398	1e-55

>gi|359486034|ref|XP_002267863.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  246 bits (629), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 166/462 (35%), Positives = 235/462 (50%), Gaps = 118/462 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGG GKTTLAQLL N+ +VK  F L+ WV + E+FD  R+TKT+L++I++      DLNL
Sbjct: 208 MGGTGKTTLAQLLYNDQRVKEHFDLKAWVCVSEEFDPIRVTKTILEAINSSTSNTTDLNL 267

Query: 61  LQ--------LKK--------WSDDDC----------------LCVFTQRSSRRT----- 83
           LQ        +KK        W++D C                  + T RS++       
Sbjct: 268 LQVQLKERINMKKFLLVLDDVWNEDSCDWDTLRTPLIVGAKGSKIIVTTRSTKVASAMRA 327

Query: 84  --------------------------DFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                                     D + H  L+ IGEKIV KC GLPLA + +G LLH
Sbjct: 328 VHTHCLGGLSSEDGWSLFKKLAFENGDSSGHPQLEAIGEKIVHKCQGLPLAIKAMGSLLH 387

Query: 118 GKVDCIDWEDVLNSK-------------AISCHYLLPHLKRCFSYCSIFPEDCKFEEEEL 164
            KV+  +W+DVLNS+              +S +YL  HLKRCFSYCSIFP+D KFE+E+L
Sbjct: 388 SKVEAREWDDVLNSELWDLPTDAVLPALRLSYYYLPSHLKRCFSYCSIFPKDYKFEKEKL 447

Query: 165 ILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH--- 221
           +LL MA+G L    S+K  E++G+ Y  EL S+S F+ S SN S F MHD +NDLA    
Sbjct: 448 VLLWMAEGLLEQSKSKKRPEEVGNLYFEELLSKSFFQNSVSNESCFVMHDLVNDLAQLVS 507

Query: 222 ---------------------------KYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSH 254
                                      ++D  + F+ +  +K LRT LP   R  + Y++
Sbjct: 508 IEFSVSLEDGKIYRVSKKTRHLSYLISEFDVYESFDTLPQMKRLRTFLP---RRNYYYTY 564

Query: 255 LNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH 305
           L+  VL  +  +++C R          +LP  I  LK LRYL+ S  +++  PESVC L+
Sbjct: 565 LSNRVLQHILPEMKCLRVLCLNGYLITDLPHSIEKLKHLRYLDLSRTRIQKLPESVCNLY 624

Query: 306 NLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES 347
           NL+T+ L  C+ L +L + +  L NL +LD   T S++ + S
Sbjct: 625 NLQTMMLLGCDYLVELPSRMEKLINLRYLDIRYTSSVKEMPS 666

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860511|emb|CAN79726.1| hypothetical protein VITISV_014536 [Vitis vinifera]

 Score =  245 bits (626), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 168/466 (36%), Positives = 234/466 (50%), Gaps = 121/466 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGGVGKTTLAQL  N+ +VKN F L  WV + +DFDV RITKT+LQSI++     NDLNL
Sbjct: 212 MGGVGKTTLAQLAYNDDRVKNHFDLRAWVCVSDDFDVLRITKTLLQSIASYTREINDLNL 271

Query: 61  LQLKK----------------WSDD----DCLC------------VFTQRSSR------- 81
           LQ+K                 W+++    D LC            + T R+         
Sbjct: 272 LQVKMKEKLSGKKFLLVLDDVWNENYDKWDSLCTPLRAGGPGSKVIITTRNMGVATLTRT 331

Query: 82  --------------RTDFNMHM----------HLKEIGEKIVKKCNGLPLASEILGGLLH 117
                         R  F  H           HLK IGE++V +C GLPL ++ LGG+L 
Sbjct: 332 VSPYLLQELSNDDCRAVFAQHALGARNFEAHPHLKIIGEEMVNRCRGLPLVAKALGGILR 391

Query: 118 GKVDCIDWEDVLNSK---------------AISCHYLLPHLKRCFSYCSIFPEDCKFEEE 162
            +++   W+D+L SK                +S H+L  HLK+CF+YC+IFP+  +F+++
Sbjct: 392 NELNHEAWDDILKSKIWDLPEEKSGVLPALKLSYHHLPSHLKQCFAYCAIFPKGYEFKKD 451

Query: 163 ELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHK 222
           ELILL M +GFL+    +K +E LG +Y  EL SRS F+QSS+ + RF MHD I+DLA  
Sbjct: 452 ELILLWMGEGFLQQTKGKKRMEDLGSKYFSELLSRSFFQQSSNIMPRFMMHDLIHDLAQS 511

Query: 223 YDG--------------------------------IKRFEAIDGVKHLRT--SLPISSRV 248
             G                                 K+FE +D  K+LRT  +LPIS   
Sbjct: 512 IAGNVCLNLEDKLENNENIFQKARHLSFIRQANEIFKKFEVVDKGKYLRTFLALPISVSF 571

Query: 249 VWDYSHLNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPE 299
           +   S +   V  DL ++++C R          +LPS I +L  LRYLN   + ++  P 
Sbjct: 572 MKSLSFITTKVTHDLLMEMKCLRVLSLSGYKMSDLPSSIDNLSHLRYLNLCRSSIKRLPN 631

Query: 300 SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESL 345
           SV  L+NL+TL L++C  L ++   +GNL NL HLD   T  LE +
Sbjct: 632 SVGHLYNLQTLILRDCWSLTEMPVGMGNLINLRHLDIAGTSQLEEM 677

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486030|ref|XP_002267470.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  245 bits (626), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 171/462 (37%), Positives = 233/462 (50%), Gaps = 118/462 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGG GKTTLAQLL N+ +V   F L+ WV + E+FD  R+TKT+L++I++      DLNL
Sbjct: 208 MGGTGKTTLAQLLYNDQRVTEHFDLKAWVCVSEEFDPIRVTKTILEAINSSTSNTTDLNL 267

Query: 61  L--QLKK--------------WSDDDC----------------LCVFTQRSSR------- 81
           L  QLK+              W++D C                  + T RS+        
Sbjct: 268 LQVQLKERISMKKFLLVLDDVWNEDSCDWDALRTPLIVGAKGSKIIVTTRSTNVAFAMHA 327

Query: 82  -RT-----------------------DFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
            RT                       D + H  L+ IGEKIV KC GLPLA + +G LLH
Sbjct: 328 VRTHCLGRLSSEDGWSLFKKLAFESGDSSGHPQLEAIGEKIVHKCQGLPLAIKAMGSLLH 387

Query: 118 GKVDCIDWEDVLNSK-------------AISCHYLLPHLKRCFSYCSIFPEDCKFEEEEL 164
            KV+  +W+DVLNS+              +S +YL  HLKRCFSYCSIFP+D KFE+E+L
Sbjct: 388 SKVEAREWDDVLNSELWDLPTNAVLPAPRLSYYYLPSHLKRCFSYCSIFPKDYKFEKEKL 447

Query: 165 ILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH--- 221
           +LL MA+G L    S+K +EQ+G+ Y  EL S+S F+ S  N S F MHD +NDLA    
Sbjct: 448 VLLWMAEGLLEQSKSKKRMEQVGNLYFQELLSKSFFQNSMRNKSCFVMHDLVNDLAQLVS 507

Query: 222 ---------------------------KYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSH 254
                                       YD  +RF+ +  +K LRT LP   R  + YS+
Sbjct: 508 LEFSVSLEDGKIHRVSEKTHHLSYLISGYDVYERFDPLSQMKCLRTFLP---RRKYYYSY 564

Query: 255 LNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH 305
           L+  VL  L  +++C R          +LP  I  LK LRYL+ S   ++  PESVC L+
Sbjct: 565 LSNGVLHHLLPEMKCLRVLCLNNYRTTDLPHSIEKLKHLRYLDLSMTTIQKLPESVCNLY 624

Query: 306 NLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES 347
           NL+T+ L  C  L +L + +  L NL +LD   T S++ + S
Sbjct: 625 NLQTMMLSRCYWLVELPSRMEKLINLCYLDIRYTSSVKEMPS 666

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495024|ref|XP_002267933.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  245 bits (626), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 168/466 (36%), Positives = 234/466 (50%), Gaps = 121/466 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGGVGKTTLAQL  N+ +VKN F L  WV + +DFDV RITKT+LQSI++     NDLNL
Sbjct: 212 MGGVGKTTLAQLAYNDDRVKNHFDLRAWVCVSDDFDVLRITKTLLQSIASYTREINDLNL 271

Query: 61  LQLKK----------------WSDD----DCLC------------VFTQRSSR------- 81
           LQ+K                 W+++    D LC            + T R+         
Sbjct: 272 LQVKMKEKLSGKKFLLVLDDVWNENYDKWDSLCTPLRAGGPGSKVIITTRNMGVATLTRT 331

Query: 82  --------------RTDFNMHM----------HLKEIGEKIVKKCNGLPLASEILGGLLH 117
                         R  F  H           HLK IGE++V +C GLPL ++ LGG+L 
Sbjct: 332 VSPYLLQELSNDDCRAVFAQHALGARNFEAHPHLKIIGEEMVNRCRGLPLVAKALGGILR 391

Query: 118 GKVDCIDWEDVLNSK---------------AISCHYLLPHLKRCFSYCSIFPEDCKFEEE 162
            +++   W+D+L SK                +S H+L  HLK+CF+YC+IFP+  +F+++
Sbjct: 392 NELNHEAWDDILKSKIWDLPEEKSGVLPALKLSYHHLPSHLKQCFAYCAIFPKGYEFKKD 451

Query: 163 ELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHK 222
           ELILL M +GFL+    +K +E LG +Y  EL SRS F+QSS+ + RF MHD I+DLA  
Sbjct: 452 ELILLWMGEGFLQQTKGKKRMEDLGSKYFSELLSRSFFQQSSNIMPRFMMHDLIHDLAQS 511

Query: 223 YDG--------------------------------IKRFEAIDGVKHLRT--SLPISSRV 248
             G                                 K+FE +D  K+LRT  +LPIS   
Sbjct: 512 IAGNVCLNLEDKLENNENIFQKARHLSFIRQANEIFKKFEVVDKGKYLRTFLALPISVSF 571

Query: 249 VWDYSHLNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPE 299
           +   S +   V  DL ++++C R          +LPS I +L  LRYLN   + ++  P 
Sbjct: 572 MKSLSFITTKVTHDLLMEMKCLRVLSLSGYKMSDLPSSIDNLSHLRYLNLCRSSIKRLPN 631

Query: 300 SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESL 345
           SV  L+NL+TL L++C  L ++   +GNL NL HLD   T  LE +
Sbjct: 632 SVGHLYNLQTLILRDCWSLTEMPVGMGNLINLRHLDIAGTSQLEEM 677

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225448305|ref|XP_002265391.1| PREDICTED: putative disease resistance RPP13-like protein 1 [Vitis vinifera]

 Score =  241 bits (614), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 161/450 (35%), Positives = 225/450 (50%), Gaps = 115/450 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGGVGKTTLAQLL NN KV   F L+ WV++ ++FDVF+ITKT+L+S + +    +D  L
Sbjct: 202 MGGVGKTTLAQLLYNNRKVAGYFDLKAWVWVSQEFDVFKITKTILESFTCKTCGLDDPTL 261

Query: 61  LQL--------KK--------WSDDDCL----------------CVFTQRSSRRT----- 83
           LQ+        KK        W++D C                  + T RS + +     
Sbjct: 262 LQVELREILMRKKFLLVLDDIWNEDYCSWDLLRGALRYGASGSKIIATMRSKKVSSIMHP 321

Query: 84  --------------------------DFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                                     D   H  LK IGEKIV+KCNGLPLA++ +GGLL 
Sbjct: 322 IHTHHLELLSYEDSWLLFAKHAFSNEDTCAHPTLKAIGEKIVEKCNGLPLAAKTIGGLLK 381

Query: 118 GKVDCIDWEDVLNSKA-------------ISCHYLLPHLKRCFSYCSIFPEDCKFEEEEL 164
            + D  DW  VLNS+              +S HYL  HLK CF+YCS+F ++ +F++E L
Sbjct: 382 SETDTKDWNQVLNSEIWDFPNNGILPALRLSYHYLPAHLKPCFAYCSLFHKNYEFDKETL 441

Query: 165 ILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH--- 221
           + L +A+GF++   +E+ +E +G+ Y  +L SRS F+QS  N SRF MH+ IN LA    
Sbjct: 442 VRLWIAEGFVQQPKAEERIEVVGNGYFTDLLSRSLFQQSGGNESRFIMHELINGLAKFVS 501

Query: 222 ---------------------------KYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSH 254
                                      KYD  ++F  +   K LRT LP++     D  +
Sbjct: 502 GEFSFSLEDENQQKISRKTRHMSYFRGKYDASRKFRLLYETKRLRTFLPLNLPPHNDRCY 561

Query: 255 LNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH 305
           L+  ++FDL   L+C R          EL   IG+L+ L YL+ S   +   P+S C L+
Sbjct: 562 LSTQIIFDLVPMLRCLRVLSLSHYKITELSDSIGNLRKLAYLDLSYTGLRNLPDSTCNLY 621

Query: 306 NLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           NL+TL L NC  L +L A++G L NL HLD
Sbjct: 622 NLQTLLLSNCCSLSELPANMGKLINLRHLD 651

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745513|emb|CBI40678.3| unnamed protein product [Vitis vinifera]

 Score =  240 bits (613), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 161/450 (35%), Positives = 225/450 (50%), Gaps = 115/450 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGGVGKTTLAQLL NN KV   F L+ WV++ ++FDVF+ITKT+L+S + +    +D  L
Sbjct: 181 MGGVGKTTLAQLLYNNRKVAGYFDLKAWVWVSQEFDVFKITKTILESFTCKTCGLDDPTL 240

Query: 61  LQL--------KK--------WSDDDC----------------LCVFTQRSSRRT----- 83
           LQ+        KK        W++D C                  + T RS + +     
Sbjct: 241 LQVELREILMRKKFLLVLDDIWNEDYCSWDLLRGALRYGASGSKIIATMRSKKVSSIMHP 300

Query: 84  --------------------------DFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                                     D   H  LK IGEKIV+KCNGLPLA++ +GGLL 
Sbjct: 301 IHTHHLELLSYEDSWLLFAKHAFSNEDTCAHPTLKAIGEKIVEKCNGLPLAAKTIGGLLK 360

Query: 118 GKVDCIDWEDVLNSKA-------------ISCHYLLPHLKRCFSYCSIFPEDCKFEEEEL 164
            + D  DW  VLNS+              +S HYL  HLK CF+YCS+F ++ +F++E L
Sbjct: 361 SETDTKDWNQVLNSEIWDFPNNGILPALRLSYHYLPAHLKPCFAYCSLFHKNYEFDKETL 420

Query: 165 ILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH--- 221
           + L +A+GF++   +E+ +E +G+ Y  +L SRS F+QS  N SRF MH+ IN LA    
Sbjct: 421 VRLWIAEGFVQQPKAEERIEVVGNGYFTDLLSRSLFQQSGGNESRFIMHELINGLAKFVS 480

Query: 222 ---------------------------KYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSH 254
                                      KYD  ++F  +   K LRT LP++     D  +
Sbjct: 481 GEFSFSLEDENQQKISRKTRHMSYFRGKYDASRKFRLLYETKRLRTFLPLNLPPHNDRCY 540

Query: 255 LNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH 305
           L+  ++FDL   L+C R          EL   IG+L+ L YL+ S   +   P+S C L+
Sbjct: 541 LSTQIIFDLVPMLRCLRVLSLSHYKITELSDSIGNLRKLAYLDLSYTGLRNLPDSTCNLY 600

Query: 306 NLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           NL+TL L NC  L +L A++G L NL HLD
Sbjct: 601 NLQTLLLSNCCSLSELPANMGKLINLRHLD 630

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486032|ref|XP_003633376.1| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  232 bits (592), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 158/450 (35%), Positives = 223/450 (49%), Gaps = 115/450 (25%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGG GKTTLAQLL N+ +VK  F L+ WV + E+FD  R+TKT+L++I++      DLNL
Sbjct: 208 MGGTGKTTLAQLLYNDQRVKKHFDLKAWVCVSEEFDPIRVTKTILEAINSSTSNTTDLNL 267

Query: 61  LQ--------LKK--------WSDDDC----------------LCVFTQRSSR------- 81
           LQ        +KK        W++D C                  + T RS++       
Sbjct: 268 LQVQLKERINMKKSLLVLDDVWNEDSCDWDALRTPLIVGAKGSKIIVTTRSTKVASAMRA 327

Query: 82  ------------------------RTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                                     D + H  L+ IGEKIV KC GLPLA + +G LLH
Sbjct: 328 VHTHCLGGLSFEDGWSLFKKLAFENGDSSGHPQLEAIGEKIVHKCQGLPLAIKAMGSLLH 387

Query: 118 GKVDCIDWEDVLNSK-------------AISCHYLLPHLKRCFSYCSIFPEDCKFEEEEL 164
            KV+  +W+DVLNS+              +S +YL  HLK CFSYCSIFP++ +F++++L
Sbjct: 388 SKVEAREWDDVLNSELWDLPTDAVLPALRLSYYYLPSHLKCCFSYCSIFPKNYEFKKKKL 447

Query: 165 ILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH--- 221
           +LL MA+G L    S+K +E++G+ Y  EL S+S F+ S SN S F MHD + DLA    
Sbjct: 448 VLLWMAEGLLEQSKSKKRMEEVGNLYFQELLSKSFFQNSISNESCFVMHDLVKDLAQLVS 507

Query: 222 ---------------------------KYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSH 254
                                       YD  +RF+ +  +K+LRT L         Y +
Sbjct: 508 GEFSISLEDGKMDKVSEKTHHLSYLISPYDVYERFDPLSQIKYLRTFLARGEYWHLAYQY 567

Query: 255 LNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH 305
           L+  VL  L  +++C R          +LP  I  LK LRYL+ S   ++  P+SVC L+
Sbjct: 568 LSNRVLHHLLPEMKCLRVLCLNNYRITDLPHSIEKLKHLRYLDLSTTMIQKLPKSVCNLY 627

Query: 306 NLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           NL+T+ L NC  L +L   +  L NL +LD
Sbjct: 628 NLQTMMLSNCVLLIELPLRMEKLINLRYLD 657

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486026|ref|XP_002267228.2| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  231 bits (590), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 159/452 (35%), Positives = 227/452 (50%), Gaps = 120/452 (26%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGG+GKTTLAQLL N+ KVK+ F L  WV++ E+FD+ RIT+++L+ I+      N+LN 
Sbjct: 205 MGGLGKTTLAQLLYNDDKVKDHFDLRAWVFVSEEFDLIRITRSILEEITASTFETNNLNQ 264

Query: 61  L--------QLKK--------WSDD----------------------------------- 69
           L        Q+KK        W++D                                   
Sbjct: 265 LQVKMKESIQMKKFLLVLDDIWTEDYNSWDRLRTSLVAGAKGSKIIITTRNANIAKVADA 324

Query: 70  ------------DCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                       DC  +FT+      D      L+ IG+KIV+KC GLPLA + +G LL 
Sbjct: 325 IYTHHLGELSYEDCWSLFTKLVFENRDSTASPQLEAIGKKIVEKCQGLPLAVKTIGSLLR 384

Query: 118 GKVDCIDWEDVLNSK-----------AISCHYL-LPH-LKRCFSYCSIFPEDCKFEEEEL 164
            K +  +W+D+LNS+           A+   Y  LP  LKRCF+YCSIFP + +F++E+L
Sbjct: 385 SKAEPREWDDILNSEMWHLPNDGILSALKLSYCDLPLCLKRCFAYCSIFPTNYEFDKEKL 444

Query: 165 ILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH--- 221
           ILL MA+G L+   S+K +E++G  Y  EL SRS F++SSSN S F MH  INDLA    
Sbjct: 445 ILLWMAEGLLQESRSKKKMEEVGDMYFDELLSRSFFQKSSSNKSSFVMHHLINDLAQLVS 504

Query: 222 ---------------------------KYDGIKRFEAIDGVKHLRTSLPISSRVVWDYS- 253
                                      +YD  KRF+ +  V+ LRT L +  R   D+S 
Sbjct: 505 GEFSVWLEDGKVQILSENARHLSYFQDEYDAYKRFDTLSEVRSLRTFLALQQR---DFSQ 561

Query: 254 -HLNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCK 303
            HL+  VL     +++  R          +LP  IG+LK LRYL+ S   ++  P+SVC 
Sbjct: 562 CHLSNKVLLHFLPQVRFLRVLSLFGYCIIDLPDSIGNLKHLRYLDLSCTAIQRLPDSVCC 621

Query: 304 LHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           ++NL+T+ L  C+ L +L A++  L NL +LD
Sbjct: 622 MYNLQTMILSGCSSLIELPAEMEKLINLRYLD 653

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147820669|emb|CAN69647.1| hypothetical protein VITISV_022133 [Vitis vinifera]

 Score =  229 bits (585), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 158/452 (34%), Positives = 226/452 (50%), Gaps = 120/452 (26%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGG+GK TLAQLL N+ KVK+ F L  WV++ E+FD+ RIT+++L+ I+      N+LN 
Sbjct: 205 MGGLGKITLAQLLYNDDKVKDHFDLRAWVFVSEEFDLIRITRSILEEITASTFETNNLNQ 264

Query: 61  L--------QLKK--------WSDD----------------------------------- 69
           L        Q+KK        W++D                                   
Sbjct: 265 LQVKMKESIQMKKFLLVLDDIWTEDYNSWDRLRTSLVAGAKGSKIIITTRNANIAKVADA 324

Query: 70  ------------DCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                       DC  +FT+      D      L+ IG+KIV+KC GLPLA + +G LL 
Sbjct: 325 IYTHHLGELSYEDCWSLFTKLVFENRDSTASPQLEAIGKKIVEKCQGLPLAVKTIGSLLR 384

Query: 118 GKVDCIDWEDVLNSK-----------AISCHYL-LPH-LKRCFSYCSIFPEDCKFEEEEL 164
            K +  +W+D+LNS+           A+   Y  LP  LKRCF+YCSIFP + +F++E+L
Sbjct: 385 SKAEPREWDDILNSEMWHLANDGILSALKLSYCDLPLCLKRCFAYCSIFPTNYEFDKEKL 444

Query: 165 ILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH--- 221
           ILL MA+G L+   S+K +E++G  Y  EL SRS F++SSSN S F MH  INDLA    
Sbjct: 445 ILLWMAEGLLQESRSKKKMEEVGDMYFDELLSRSFFQKSSSNKSSFVMHHLINDLAQLVS 504

Query: 222 ---------------------------KYDGIKRFEAIDGVKHLRTSLPISSRVVWDYS- 253
                                      +YD  KRF+ +  V+ LRT L +  R   D+S 
Sbjct: 505 GEFSVWLEDGKVQILSENARHLSYFQGEYDAYKRFDTLSEVRSLRTFLALQQR---DFSQ 561

Query: 254 -HLNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCK 303
            HL+  VL     +++  R          +LP  IG+LK LRYL+ S   ++  P+SVC 
Sbjct: 562 CHLSNKVLLHFLPQVRFLRVLSLFGYCIIDLPDSIGNLKHLRYLDLSCTAIQRLPDSVCC 621

Query: 304 LHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           ++NL+T+ L  C+ L +L A++  L NL +LD
Sbjct: 622 MYNLQTMILSGCSSLIELPAEMEKLINLRYLD 653

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147862409|emb|CAN81911.1| hypothetical protein VITISV_042289 [Vitis vinifera]

 Score =  223 bits (568), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 132/331 (39%), Positives = 187/331 (56%), Gaps = 58/331 (17%)

Query: 63  LKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDC 122
           L++ S  DCL +FTQ++     F  H HLKE+GE+IV++C GLPLA++ LGG+L  +V+ 
Sbjct: 334 LQELSHGDCLSLFTQQALGTRSFEAHPHLKELGEEIVRRCKGLPLAAKALGGMLRNEVNY 393

Query: 123 IDWEDVLNSK---------------AISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILL 167
             W ++L SK                +S H+L  +LKRCF+YCSIFP+D +F+++ELILL
Sbjct: 394 DAWVNILKSKIWDLPQEKSSVLPALKLSYHHLPSNLKRCFAYCSIFPKDYEFDKDELILL 453

Query: 168 RMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDG-- 225
            MA+GFL+    E   E LG +Y  +L SRS F+QSS N S+F MHD INDLAH   G  
Sbjct: 454 WMAEGFLQQTKGEDQPEDLGAKYFCDLLSRSFFQQSSYNSSKFVMHDLINDLAHFVAGEL 513

Query: 226 --------------------------------IKRFEAIDGVKHLRTSLPISSRVVWDYS 253
                                           +K+FE    VK LRT + +    +   +
Sbjct: 514 CFNLDDKLENNEXFTSFEKARHSSFNRQSHEVLKKFETFYRVKFLRTLIALPINALSPSN 573

Query: 254 HLNRNVLFDLSLKLQCFRY---------ELPSEIGDLKILRYLNFSDAQVETSPESVCKL 304
            ++  V+ DL ++  C R          ELP+ IGDL+ LRYLN S + ++  P+S+  L
Sbjct: 574 FISPKVIHDLLIQKSCLRVLSLSGYRISELPNSIGDLRHLRYLNLSYSSIKRLPDSIVHL 633

Query: 305 HNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           +NL+TL L++C RL +L  +IGNL NL HLD
Sbjct: 634 YNLQTLILRDCYRLTELPIEIGNLLNLRHLD 664

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	348
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.764	0.252	0.335	1.2e-41
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.712	0.137	0.293	2.8e-27
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.836	0.204	0.284	1.9e-19
TAIR|locus:2011982	857	AT1G50180 [Arabidopsis thalian	0.620	0.252	0.276	2.5e-18
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.695	0.285	0.304	6.8e-18
TAIR|locus:2102857	847	AT3G46710 [Arabidopsis thalian	0.531	0.218	0.282	9.7e-18
TAIR|locus:2075170	835	RPP13 "RECOGNITION OF PERONOSP	0.419	0.174	0.351	2.9e-17
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.221	0.090	0.320	4.5e-16
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.451	0.179	0.264	5.9e-16
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.629	0.238	0.276	1.1e-15

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 326 (119.8 bits), Expect = 1.2e-41, Sum P(2) = 1.2e-41
 Identities = 103/307 (33%), Positives = 159/307 (51%)

Query:    63 LKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDC 122
             L+  SD DC  +F +      +  ++  + ++ E+IV KC GLPLA + LGG+L  +   
Sbjct:   331 LQPLSDGDCWSLFMKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKV 390

Query:   123 IDWEDVLNSKA---------------ISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILL 167
             I+WE VL+S+                +S +YL  HLKRCF+YCSIFP+   FE+++++LL
Sbjct:   391 IEWERVLSSRIWDLPADKSNLLPVLRVSYYYLPAHLKRCFAYCSIFPKGHAFEKDKVVLL 450

Query:   168 RMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDG-- 225
              MA+GFL+   S K +E+LG++Y  EL+SRS  +++ +   R+ MHDFIN+LA    G  
Sbjct:   451 WMAEGFLQQTRSSKNLEELGNEYFSELESRSLLQKTKT---RYIMHDFINELAQFASGEF 507

Query:   226 IKRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVL----FDLSLKLQCFRYELPSEIGDL 281
               +FE  DG K     L +S R  +  S+L  N      F+   +++  R  LP  + + 
Sbjct:   508 SSKFE--DGCK-----LQVSERTRY-LSYLRDNYAEPMEFEALREVKFLRTFLPLSLTNS 559

Query:   282 KILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFS 341
                  L   D  V  S + +  L  L  L L +  ++ +L  D     N+ H   F+  S
Sbjct:   560 SRSCCL---DQMV--SEKLLPTLTRLRVLSLSHY-KIARLPPDF--FKNISHA-RFLDLS 610

Query:   342 LESLESL 348
                LE L
Sbjct:   611 RTELEKL 617

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

UNIPROTKB|O48647 O48647 "XA1" [Oryza sativa (taxid:4530)]

 Score = 217 (81.4 bits), Expect = 2.8e-27, Sum P(3) = 2.8e-27
 Identities = 84/286 (29%), Positives = 134/286 (46%)

Query:    40 ITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIV 99
             I  T +QSI+        + L  LK   DDD   +F   +      +    L+ +G++I 
Sbjct:   442 ILTTRIQSIAKSLGTVQSIKLEALK---DDDIWSLFKVHAFGNDKHDSSPGLQVLGKQIA 498

Query:   100 KKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKA---------------ISCHYLLPHLK 144
              +  G PLA++ +G LL   +    W+ ++ S+                +S  +L   L+
Sbjct:   499 SELKGNPLAAKTVGSLLGTNLTIDHWDSIIKSEEWKSLQQAYGIMQALKLSYDHLSNPLQ 558

Query:   145 RCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQ-S 203
             +C SYCS+FP+   F + +LI + +AQGF+  E+SEK +EQ G +Y  EL +    +Q  
Sbjct:   559 QCVSYCSLFPKGYSFSKAQLIQIWIAQGFVE-ESSEK-LEQKGWKYLAELVNSGFLQQVE 616

Query:   204 SSNVSR--FAMHDFINDLAHK-----Y---DGIKRFEAIDGVKHLRTSLPISSRVVWDYS 253
             S+  S   F MHD ++DLA K     Y   DG +  E    ++HL      + R    Y 
Sbjct:   617 STRFSSEYFVMHDLMHDLAQKVSQTEYATIDGSECTELAPSIRHLSIVTDSAYRKE-KYR 675

Query:   254 HLNRNVLFDLSLKLQCFRYELPSE--IG--DLKILRYLN--FSDAQ 293
             +++RN +F+  L     R +L S   IG  D    +Y    F +AQ
Sbjct:   676 NISRNEVFEKRLMKVKSRSKLRSLVLIGQYDSHFFKYFKDAFKEAQ 721

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 253 (94.1 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 92/323 (28%), Positives = 152/323 (47%)

Query:    40 ITKTMLQSISTEAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTDF-NMHMHLKEIGEKI 98
             +  T  + +ST A  +    + Q+K  ++++C  + ++ +       +++  L+ IG++I
Sbjct:   306 VLTTRSEIVSTVAKAEK---IYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGKRI 362

Query:    99 VKKCNGLPLASEILGGLLHGKVDCIDWEDV-------LNS--KAISCHY--LLPHLKRCF 147
              ++C GLPLA+  +   L  K +  DW  V        NS    +   Y  L P LKRCF
Sbjct:   363 AEQCKGLPLAARAIASHLRSKPNPDDWYAVSKNFSSYTNSILPVLKLSYDSLPPQLKRCF 422

Query:   148 SYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNV 207
             + CSIFP+   F+ EEL+LL MA   L    S + +E +G+ Y G+L ++S F++    +
Sbjct:   423 ALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIGNDYLGDLVAQSFFQRLDITM 482

Query:   208 SRFAMHDFINDLAHKYDGIKRFEAIDG--------VKHLRTS-----LPISSRVVWDYSH 254
             + F MHD +NDLA    G   F   D          +H   S       ++ R +     
Sbjct:   483 TSFVMHDLMNDLAKAVSGDFCFRLEDDNIPEIPSTTRHFSFSRSQCDASVAFRSICGAEF 542

Query:   255 LNRNVLFD--LSLK-LQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLK 311
             L   + F+   SL+ LQ     L   +  L  LR L+ S  Q+   P+S+  L  L  L 
Sbjct:   543 LRTILPFNSPTSLESLQLTEKVLNPLLNALSGLRILSLSHYQITNLPKSLKGLKLLRYLD 602

Query:   312 LQNCNRLQKLFADIGNLNNLHHL 334
             L +  ++++L   +  L NL  L
Sbjct:   603 LSS-TKIKELPEFVCTLCNLQTL 624

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2011982 AT1G50180 [Arabidopsis thaliana (taxid:3702)]

 Score = 157 (60.3 bits), Expect = 2.5e-18, Sum P(3) = 2.5e-18
 Identities = 66/239 (27%), Positives = 111/239 (46%)

Query:   113 GGLLHGKVDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQG 172
             GG  +G  + +   DVL    +S  YL PH+K+CF Y + +PED +     L+   +A+G
Sbjct:   399 GGSSNGSKNMLV-ADVL---CLSYEYLPPHVKQCFLYFAHYPEDYEVHVGTLVSYCIAEG 454

Query:   173 FL---RHENSEKPVEQLGHQYSGELQSRSHF---RQS--SSNVSRFAMHDFINDLAHKYD 224
              +   +H  +   VE +G  Y  EL  RS     R+   +S V    MHD + ++  +  
Sbjct:   455 MVMPVKHTEAGTTVEDVGQDYLEELVKRSMVMVGRRDIVTSEVMTCRMHDLMREVCLQKA 514

Query:   225 GIKRF-EAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIG--DL 281
               + F + ID          IS       ++ +R +   L    +    +  S++    +
Sbjct:   515 KQESFVQVIDSRDQDEAEAFISLS-----TNTSRRISVQLHGGAEEHHIKSLSQVSFRKM 569

Query:   282 KILRYLNFSDAQVETS--PESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFV 338
             K+LR L+   AQ+E    P+ V  L +L  L ++  N +++L + IGNL  +  LD FV
Sbjct:   570 KLLRVLDLEGAQIEGGKLPDDVGDLIHLRNLSVRLTN-VKELTSSIGNLKLMITLDLFV 627

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 194 (73.4 bits), Expect = 6.8e-18, Sum P(2) = 6.8e-18
 Identities = 86/282 (30%), Positives = 135/282 (47%)

Query:    91 LKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVL---------NSKAISCHYLLP 141
             L+  G+++VKKC GLPLA  +L GLL  K    +W +V          NS  IS  + L 
Sbjct:   351 LQRTGKEMVKKCGGLPLAIVVLSGLLSRK-RTNEWHEVCASLWRRLKDNSIHISTVFDLS 409

Query:   142 -----H-LKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQ 195
                  H LK CF Y S+FPED + + E+LI L +A+GF++ E+ E  +E +   Y  EL 
Sbjct:   410 FKEMRHELKLCFLYFSVFPEDYEIKVEKLIHLLVAEGFIQ-EDEEMMMEDVARCYIDELV 468

Query:   196 SRSHF---RQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDY 252
              RS     R     V    +HD + DLA K    K    ++     + S  I  R V   
Sbjct:   469 DRSLVKAERIERGKVMSCRIHDLLRDLAIKK--AKELNFVNVYNEKQHSSDICRREV--V 524

Query:   253 SHL-NRNVLFD--LSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLET 309
              HL N   L D  ++ +++ F +     IG+ +   Y+N ++ +++     + ++ N+E 
Sbjct:   525 HHLMNDYYLCDRRVNKRMRSFLF-----IGERRGFGYVNTTNLKLK-----LLRVLNMEG 574

Query:   310 LKLQNCNRLQKLFADIGNLNNLHHL---DNFVTFSLESLESL 348
             L   + N    L   IG L +L +L   D +V+    S+ +L
Sbjct:   575 LLFVSKNISNTLPDVIGELIHLRYLGIADTYVSILPASISNL 616

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2102857 AT3G46710 [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 9.7e-18, Sum P(3) = 9.7e-18
 Identities = 59/209 (28%), Positives = 100/209 (47%)

Query:    77 QRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKAI-- 134
             ++ + R    +   L++IG+++V+KC GLP  + +L GL+  K    +W DV +S  +  
Sbjct:   332 EKKAFRYILKVDQELQKIGKEMVQKCGGLPRTTVVLAGLMSRKKPN-EWNDVWSSLRVKD 390

Query:   135 -SCHYL---------LPH-LKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPV 183
              + H           + H LK CF Y S+FPED + + E+LI L +A+GF++ E+ E  +
Sbjct:   391 DNIHVSSLFDLSFKDMGHELKLCFLYLSVFPEDYEVDVEKLIQLLVAEGFIQ-EDEEMTM 449

Query:   184 EQLGHQYSGELQSRSHF---RQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRT 240
             E +   Y  +L   S     ++    +  F +HD + +   K      F  +   +H  T
Sbjct:   450 EDVARYYIEDLVYISLVEVVKRKKGKLMSFRIHDLVREFTIKKSKELNFVNVYDEQHSST 509

Query:   241 SLPISSRVVWDYSHL-NRNVLFDLSLKLQ 268
             +   S R V    HL + N L D  +  Q
Sbjct:   510 T---SRREV--VHHLMDDNYLCDRRVNTQ 533

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2075170 RPP13 "RECOGNITION OF PERONOSPORA PARASITICA 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 182 (69.1 bits), Expect = 2.9e-17, Sum P(3) = 2.9e-17
 Identities = 59/168 (35%), Positives = 82/168 (48%)

Query:    74 VFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNS-- 131
             +F QR+ R         L + G+++V+KC GLPL   +L GLL  K    +W DV NS  
Sbjct:   334 LFEQRAFRNIQ-RKDEDLLKTGKEMVQKCRGLPLCIVVLAGLLSRKTPS-EWNDVCNSLW 391

Query:   132 ---KAISCHYL----------LPH-LKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHE 177
                K  S H            L H  K CF Y SIFPED + + E+LI L +A+GF++ +
Sbjct:   392 RRLKDDSIHVAPIVFDLSFKELRHESKLCFLYLSIFPEDYEIDLEKLIHLLVAEGFIQGD 451

Query:   178 NSEKPVEQLGHQYSGELQSRSHF---RQSSSNVSRFAMHDFINDLAHK 222
               E  +E +   Y  EL  RS     R+    V    +HD + D+A K
Sbjct:   452 E-EMMMEDVARYYIEELIDRSLLEAVRRERGKVMSCRIHDLLRDVAIK 498

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=TAS

GO:0009814 "defense response, incompatible interaction" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

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

TAIR|locus:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 116 (45.9 bits), Expect = 4.5e-16, Sum P(4) = 4.5e-16
 Identities = 25/78 (32%), Positives = 40/78 (51%)

Query:   143 LKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQ 202
             +K CF YCS+FPED + E+++LI   + +G++     E      G+   G L  R+H   
Sbjct:   403 IKLCFLYCSLFPEDFEIEKDKLIEYWICEGYINPNRYEDGGTNQGYDIIG-LLVRAHLLI 461

Query:   203 SSSNVSRFAMHDFINDLA 220
                   +  MHD I ++A
Sbjct:   462 ECELTDKVKMHDVIREMA 479

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 5.9e-16, Sum P(3) = 5.9e-16
 Identities = 47/178 (26%), Positives = 81/178 (45%)

Query:    55 DNDLNLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGG 114
             D ++ +  L  W  DD   +FT R+ + T    H  + E+ + I +KCNGLPLA  ++G 
Sbjct:   303 DKEIEVTCLM-W--DDAWDLFT-RNMKET-LESHPKIPEVAKSIARKCNGLPLALNVIGE 357

Query:   115 LLHGKVDCIDWEDVLNS-KAISCHYL-----------LPHLKRCFSYCSIFPEDCKFEEE 162
              +  K    +W D +     I    L               K CF + ++FPED +  ++
Sbjct:   358 TMARKKSIEEWHDAVGVFSGIEADILSILKFSYDDLKCEKTKSCFLFSALFPEDYEIGKD 417

Query:   163 ELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLA 220
             +LI   + QG +      K +   G+   G L +R++  + S    +  MHD + ++A
Sbjct:   418 DLIEYWVGQGIIL---GSKGINYKGYTIIGTL-TRAYLLKESETKEKVKMHDVVREMA 471

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

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

 Score = 158 (60.7 bits), Expect = 1.1e-15, Sum P(3) = 1.1e-15
 Identities = 66/239 (27%), Positives = 109/239 (45%)

Query:   115 LLHGKVDCIDWED-VLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGF 173
             LL      ID E+ +  +  +S  +L  ++K CF +C++FPED   +  ELI+  +A+G 
Sbjct:   334 LLKRSAPSIDTEEKIFGTLKLSYDFLQDNMKSCFLFCALFPEDYSIKVSELIMYWVAEGL 393

Query:   174 LRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAHKY-----DGIKR 228
             L  ++  + +   G      L+  S   +   +     MHD + D A  +     +G   
Sbjct:   394 LDGQHHYEDMMNEGVTLVERLKD-SCLLEDGDSCDTVKMHDVVRDFAIWFMSSQGEGFHS 452

Query:   229 FE-AIDGVKHLRTSLPISS--RVVWDYSHLNR---NVLFD---LSLKLQCFRY--ELPSE 277
                A  G+        +SS  RV    + L R   NV+     L L LQ   +  E+P+ 
Sbjct:   453 LVMAGRGLIEFPQDKFVSSVQRVSLMANKLERLPNNVIEGVETLVLLLQGNSHVKEVPNG 512

Query:   278 -IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
              +     LR L+ S  ++ T P+S   LH+L +L L+NC +L+ L   + +L  L  LD
Sbjct:   513 FLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLRNL-PSLESLVKLQFLD 570

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	348
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	7e-24

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

 Score = 98.9 bits (247), Expect = 7e-24
 Identities = 70/258 (27%), Positives = 102/258 (39%), Gaps = 80/258 (31%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDLNL 60
           MGGVGKTTLA+ + N+  V   F    WV + + +  FR+ K +LQ +  +     + N 
Sbjct: 27  MGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKDILQELGLDDSDWVEKNE 86

Query: 61  LQLKK------------------WSDDD--------------CLCVFTQRSSRRTDF--- 85
            +L                    W  +D                 + T RS         
Sbjct: 87  SELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTRSESVAGRMGG 146

Query: 86  ----------------------------NMHMHLKEIGEKIVKKCNGLPLASEILGGLLH 117
                                            L+E+ ++IV+KC GLPLA ++LGGLL 
Sbjct: 147 TSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGLPLALKVLGGLLA 206

Query: 118 GKVDCIDWEDV---LNSKAISCHYL-------------LP-HLKRCFSYCSIFPEDCKFE 160
            K    +WE V   LN++      L             LP HLKRCF Y ++FPED    
Sbjct: 207 FKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIR 266

Query: 161 EEELILLRMAQGFLRHEN 178
           +E+LI L +A+GF+   +
Sbjct: 267 KEQLIKLWIAEGFVIPSD 284

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	348
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.96
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.8
PRK04841	903	transcriptional regulator MalT; Provisional	98.5
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.45
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.41
PLN03150	623	hypothetical protein; Provisional	98.26
KOG0472	565	consensus Leucine-rich repeat protein [Function un	98.22
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.21
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.15
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	98.14
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.14
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.08
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.04
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	98.02
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.95
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	97.94
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.93
PRK09376	416	rho transcription termination factor Rho; Provisio	97.74
PLN03150	623	hypothetical protein; Provisional	97.66
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.63
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.63
cd01128	249	rho_factor Transcription termination factor rho is	97.62
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.61
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.52
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	97.5
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.5
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.46
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.41
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	97.29
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.23
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.19
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	97.12
PRK15386	426	type III secretion protein GogB; Provisional	96.95
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	96.91
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.9
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	96.87
PRK08118	167	topology modulation protein; Reviewed	96.79
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.66
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.62
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.61
TIGR00767	415	rho transcription termination factor Rho. Members	96.58
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.57
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	96.51
COG3903	414	Predicted ATPase [General function prediction only	96.2
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	96.13
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	96.12
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	96.11
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	96.09
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	96.06
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	95.99
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	95.92
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	95.84
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	95.84
PRK15386	426	type III secretion protein GogB; Provisional	95.76
KOG4237	498	consensus Extracellular matrix protein slit, conta	95.7
PRK06893	229	DNA replication initiation factor; Validated	95.54
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	95.38
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	95.33
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	95.32
KOG4237	498	consensus Extracellular matrix protein slit, conta	94.93
COG2256	436	MGS1 ATPase related to the helicase subunit of the	94.85
PRK07261	171	topology modulation protein; Provisional	94.79
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	94.65
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	94.52
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	94.51
PRK13342	413	recombination factor protein RarA; Reviewed	94.48
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	94.4
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	94.39
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	94.24
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	94.19
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	94.11
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	94.02
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	93.85
PRK05541	176	adenylylsulfate kinase; Provisional	93.78
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	93.6
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	93.53
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	93.25
smart00370	26	LRR Leucine-rich repeats, outliers.	93.19
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	93.19
PF05729	166	NACHT: NACHT domain	93.17
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	92.97
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	92.83
PRK08727	233	hypothetical protein; Validated	92.81
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	92.72
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	92.69
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	92.33
PF07726	131	AAA_3: ATPase family associated with various cellu	92.25
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	92.02
PF13173	128	AAA_14: AAA domain	91.92
PTZ00301	210	uridine kinase; Provisional	91.82
COG1192	259	Soj ATPases involved in chromosome partitioning [C	91.77
TIGR02237	209	recomb_radB DNA repair and recombination protein R	91.73
PRK08084	235	DNA replication initiation factor; Provisional	91.64
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	91.57
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	91.54
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	91.49
smart00382	148	AAA ATPases associated with a variety of cellular	91.37
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	91.36
PRK03839	180	putative kinase; Provisional	91.26
PHA02518	211	ParA-like protein; Provisional	91.2
PF00004	132	AAA: ATPase family associated with various cellula	91.1
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	91.1
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	90.98
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	90.96
PRK09087	226	hypothetical protein; Validated	90.96
PRK08233	182	hypothetical protein; Provisional	90.82
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	90.81
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	90.76
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	90.69
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	90.56
COG0125	208	Tmk Thymidylate kinase [Nucleotide transport and m	90.54
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	90.53
PRK00625	173	shikimate kinase; Provisional	90.49
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	90.28
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	90.27
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	90.26
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	90.25
COG3899	849	Predicted ATPase [General function prediction only	90.25
PRK06762	166	hypothetical protein; Provisional	90.13
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	90.09
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	90.08
cd02040	270	NifH NifH gene encodes component II (iron protein)	90.06
KOG2028	554	consensus ATPase related to the helicase subunit o	90.03
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	89.84
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	89.79
PRK12608	380	transcription termination factor Rho; Provisional	89.79
cd02036	179	MinD Bacterial cell division requires the formatio	89.75
PRK05642	234	DNA replication initiation factor; Validated	89.75
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	89.53
COG1149	284	MinD superfamily P-loop ATPase containing an inser	89.49
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	89.47
smart00370	26	LRR Leucine-rich repeats, outliers.	89.47
PRK13849	231	putative crown gall tumor protein VirC1; Provision	89.47
PRK13947	171	shikimate kinase; Provisional	89.41
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	89.41
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	89.4
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	89.33
PRK13231	264	nitrogenase reductase-like protein; Reviewed	89.29
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	89.2
PRK06217	183	hypothetical protein; Validated	89.12
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	89.09
PRK10037	250	cell division protein; Provisional	89.08
KOG2982	418	consensus Uncharacterized conserved protein [Funct	89.07
PTZ00202	550	tuzin; Provisional	89.03
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	89.02
PRK00131	175	aroK shikimate kinase; Reviewed	89.01
PRK10646	153	ADP-binding protein; Provisional	89.0
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	88.99
PRK13233	275	nifH nitrogenase reductase; Reviewed	88.96
PHA00729	226	NTP-binding motif containing protein	88.9
PF02223	186	Thymidylate_kin: Thymidylate kinase; InterPro: IPR	88.89
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	88.88
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	88.78
PRK13230	279	nitrogenase reductase-like protein; Reviewed	88.71
PRK05480	209	uridine/cytidine kinase; Provisional	88.71
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	88.7
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	88.64
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	88.64
KOG2123	388	consensus Uncharacterized conserved protein [Funct	88.62
PRK13232	273	nifH nitrogenase reductase; Reviewed	88.58
TIGR01287	275	nifH nitrogenase iron protein. This model describe	88.57
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	88.57
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	88.56
cd01394	218	radB RadB. The archaeal protein radB shares simila	88.56
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	88.45
PRK13235	274	nifH nitrogenase reductase; Reviewed	88.32
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	88.27
PRK12377	248	putative replication protein; Provisional	88.22
PRK07952	244	DNA replication protein DnaC; Validated	88.17
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	88.16
TIGR00235	207	udk uridine kinase. Model contains a number of lon	88.15
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	88.08
PTZ00112	1164	origin recognition complex 1 protein; Provisional	88.07
cd03110	179	Fer4_NifH_child This protein family's function is	88.05
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	88.04
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	88.0
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	87.77
PRK06547	172	hypothetical protein; Provisional	87.77
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	87.66
PRK05564	313	DNA polymerase III subunit delta'; Validated	87.5
PRK06696	223	uridine kinase; Validated	87.46
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	87.4
cd02117	212	NifH_like This family contains the NifH (iron prot	87.38
PRK08903	227	DnaA regulatory inactivator Hda; Validated	87.3
cd03111	106	CpaE_like This protein family consists of proteins	87.18
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	87.17
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	87.17
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	87.15
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	87.04
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	87.03
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	87.03
cd02032	267	Bchl_like This family of proteins contains bchL an	86.99
PRK08116	268	hypothetical protein; Validated	86.93
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	86.79
PRK00889	175	adenylylsulfate kinase; Provisional	86.75
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	86.63
PRK13976	209	thymidylate kinase; Provisional	86.61
PRK04040	188	adenylate kinase; Provisional	86.57
PRK11545	163	gntK gluconate kinase 1; Provisional	86.46
PRK13948	182	shikimate kinase; Provisional	86.39
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	86.26
PRK13975	196	thymidylate kinase; Provisional	86.26
PRK07667	193	uridine kinase; Provisional	86.14
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	86.1
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	86.09
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	86.08
CHL00072	290	chlL photochlorophyllide reductase subunit L	86.06
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	86.05
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	86.03
PF01202	158	SKI: Shikimate kinase; InterPro: IPR000623 Shikima	85.97
PRK06761	282	hypothetical protein; Provisional	85.86
PRK13946	184	shikimate kinase; Provisional	85.83
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	85.81
PRK13949	169	shikimate kinase; Provisional	85.8
KOG1969	877	consensus DNA replication checkpoint protein CHL12	85.75
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	85.74
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	85.74
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	85.7
PRK10818	270	cell division inhibitor MinD; Provisional	85.63
CHL00181	287	cbbX CbbX; Provisional	85.6
COG0802	149	Predicted ATPase or kinase [General function predi	85.56
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	85.43
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	85.32
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	85.31
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	85.27
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	85.19
TIGR02236	310	recomb_radA DNA repair and recombination protein R	85.13
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	85.12
smart00364	26	LRR_BAC Leucine-rich repeats, bacterial type.	85.09
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	85.06
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	85.01
cd02034	116	CooC The accessory protein CooC, which contains a	84.97
PRK05057	172	aroK shikimate kinase I; Reviewed	84.97
PRK04301	317	radA DNA repair and recombination protein RadA; Va	84.88
CHL00175	281	minD septum-site determining protein; Validated	84.87
PF14516	331	AAA_35: AAA-like domain	84.7
PRK13973	213	thymidylate kinase; Provisional	84.61
PRK13695	174	putative NTPase; Provisional	84.56
PRK03846	198	adenylylsulfate kinase; Provisional	84.54
PRK06921	266	hypothetical protein; Provisional	84.5
PRK12339	197	2-phosphoglycerate kinase; Provisional	84.44
PRK03731	171	aroL shikimate kinase II; Reviewed	84.33
PF00693	281	Herpes_TK: Thymidine kinase from herpesvirus; Inte	84.28
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	84.16
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	84.13
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	84.04
PRK06835	329	DNA replication protein DnaC; Validated	83.94
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	83.9
PF09140	261	MipZ: ATPase MipZ; InterPro: IPR015223 Cell divisi	83.88
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	83.74
PRK13236	296	nitrogenase reductase; Reviewed	83.7
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	83.64
COG4778	235	PhnL ABC-type phosphonate transport system, ATPase	83.58
PRK13341	725	recombination factor protein RarA/unknown domain f	83.55
PHA02519	387	plasmid partition protein SopA; Reviewed	83.53
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	83.51
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	83.43
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	83.35
COG1100	219	GTPase SAR1 and related small G proteins [General	83.34
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	83.31
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	83.31
PRK06620	214	hypothetical protein; Validated	83.18
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	83.17
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	83.15
PRK13705	388	plasmid-partitioning protein SopA; Provisional	83.09
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	83.04
PRK05707	328	DNA polymerase III subunit delta'; Validated	82.88
cd00983	325	recA RecA is a bacterial enzyme which has roles in	82.87
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	82.81
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	82.76
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	82.76
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	82.73
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	82.72
PRK13768	253	GTPase; Provisional	82.67
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	82.6
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	82.56
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	82.52
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	82.49
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	82.39
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	82.3
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	82.27
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	82.13
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	82.01
PRK03992	389	proteasome-activating nucleotidase; Provisional	81.99
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	81.95
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	81.92
KOG3864	221	consensus Uncharacterized conserved protein [Funct	81.87
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	81.84
KOG0473	326	consensus Leucine-rich repeat protein [Function un	81.77
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	81.73
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	81.73
PRK14532	188	adenylate kinase; Provisional	81.69
PLN02924	220	thymidylate kinase	81.67
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	81.63
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	81.61
COG3265	161	GntK Gluconate kinase [Carbohydrate transport and	81.57
PRK13869	405	plasmid-partitioning protein RepA; Provisional	81.55
PRK05973	237	replicative DNA helicase; Provisional	81.52
PRK14530	215	adenylate kinase; Provisional	81.32
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	81.25
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	81.19
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	81.04
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	80.98
PRK04182	180	cytidylate kinase; Provisional	80.83
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	80.69
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	80.55
PRK13234	295	nifH nitrogenase reductase; Reviewed	80.51
PRK00698	205	tmk thymidylate kinase; Validated	80.43
PRK00300	205	gmk guanylate kinase; Provisional	80.36
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	80.25
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	80.18
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	80.17
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	80.17
PRK09183	259	transposase/IS protein; Provisional	80.14
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	80.12
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	80.03

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=8.2e-55  Score=428.97  Aligned_cols=336  Identities=29%  Similarity=0.457  Sum_probs=250.1

Q ss_pred             CCCCcHHHHHHHHhcchh-hhcCCCeeEEEEcCCCCCHHHHHHHHHHhccccccCCCCh--hhhhcC-------------
Q 043181            1 MGGVGKTTLAQLLCNNVK-VKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRDNDL--NLLQLK-------------   64 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~-~~~~F~~~~wv~~~~~~~~~~l~~~il~~l~~~~~~~~~~--~~l~~~-------------   64 (348)
                      |||+||||||++++|+.. ++++||.++||.||++++...++++|+..++.......+.  +.++.+             
T Consensus       187 MGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllv  266 (889)
T KOG4658|consen  187 MGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLV  266 (889)
T ss_pred             CCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEE
Confidence            899999999999999988 9999999999999999999999999999887643322221  111111             


Q ss_pred             -------------------------------------------------CCChHHHHHHHHHhhcCCCCCCcChhHHHHH
Q 043181           65 -------------------------------------------------KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIG   95 (348)
Q Consensus        65 -------------------------------------------------~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~   95 (348)
                                                                       +|+.+|||+||.+.||..... .++.++++|
T Consensus       267 LDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~-~~~~i~~la  345 (889)
T KOG4658|consen  267 LDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLG-SHPDIEELA  345 (889)
T ss_pred             EecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhcccccc-ccccHHHHH
Confidence                                                             899999999999999877432 344599999


Q ss_pred             HHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhcCcc-------------------cccccCchHHHHHHhHhccCCCC
Q 043181           96 EKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKA-------------------ISCHYLLPHLKRCFSYCSIFPED  156 (348)
Q Consensus        96 ~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~~~~-------------------~s~~~L~~~~k~~fl~~~~fp~~  156 (348)
                      ++|+++|+|+|||+.++|+.|+.+.+.++|+++.+.+.                   +||+.||+++|.||+|||.||+|
T Consensus       346 k~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED  425 (889)
T KOG4658|consen  346 KEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELKSCFLYCALFPED  425 (889)
T ss_pred             HHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcc
Confidence            99999999999999999999999998999999998653                   99999999999999999999999


Q ss_pred             CccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeC--CCcceEeechHHHHHHHhhcc-----ccc-
Q 043181          157 CKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSS--SNVSRFAMHDFINDLAHKYDG-----IKR-  228 (348)
Q Consensus       157 ~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~--~~~~~~~mh~li~~~~~~~~~-----~~~-  228 (348)
                      +.|+++.|+.+|+|+||+.+......+++.|.+++++|++++|+....  ++...|.|||+||+||.....     .++ 
T Consensus       426 ~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~  505 (889)
T KOG4658|consen  426 YEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQ  505 (889)
T ss_pred             cccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccce
Confidence            999999999999999999997778899999999999999999999765  456789999999999995533     221 


Q ss_pred             ----------cccccCccccceeeeccCcccccccccchhHHHHhhhhccccee--------eCC-ccccCCCCccEEec
Q 043181          229 ----------FEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY--------ELP-SEIGDLKILRYLNF  289 (348)
Q Consensus       229 ----------~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--------~~p-~~~~~l~~L~~l~l  289 (348)
                                .+...+....|......+..........+       ++++.|-+        .++ ..+..|+.|+.||+
T Consensus       506 iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~-------~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDL  578 (889)
T KOG4658|consen  506 IVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSEN-------PKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDL  578 (889)
T ss_pred             EEECCcCccccccccchhheeEEEEeccchhhccCCCCC-------CccceEEEeecchhhhhcCHHHHhhCcceEEEEC
Confidence                      11122223333333332221100000000       01111111        111 22555666777777


Q ss_pred             CCCC-CccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCC
Q 043181          290 SDAQ-VETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       290 ~~~~-~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      ++|. +.++|.+|+.|-+|++|++++ +.+.+||.++++|.+|.+||+..+..+..+
T Consensus       579 s~~~~l~~LP~~I~~Li~LryL~L~~-t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~  634 (889)
T KOG4658|consen  579 SGNSSLSKLPSSIGELVHLRYLDLSD-TGISHLPSGLGNLKKLIYLNLEVTGRLESI  634 (889)
T ss_pred             CCCCccCcCChHHhhhhhhhcccccC-CCccccchHHHHHHhhheeccccccccccc
Confidence            6554 566777777777777777766 666677777777777777776666555444

>PLN03210 Resistant to P

Probab=100.00  E-value=1.1e-36  Score=314.54  Aligned_cols=261  Identities=23%  Similarity=0.274  Sum_probs=189.0

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhcCcc-----------
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKA-----------  133 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~~~~-----------  133 (348)
                      .+++++||+||++.||+...  +.+++.+++++|+++|+|+||||+++|+.|+++ +..+|+++++++.           
T Consensus       350 ~l~~~ea~~LF~~~Af~~~~--~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k-~~~~W~~~l~~L~~~~~~~I~~~L  426 (1153)
T PLN03210        350 LPSNELALEMFCRSAFKKNS--PPDGFMELASEVALRAGNLPLGLNVLGSYLRGR-DKEDWMDMLPRLRNGLDGKIEKTL  426 (1153)
T ss_pred             CCCHHHHHHHHHHHhcCCCC--CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCC-CHHHHHHHHHHHHhCccHHHHHHH
Confidence            78999999999999998764  456789999999999999999999999999998 6789998886643           


Q ss_pred             -cccccCch-HHHHHHhHhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeCCCcceEe
Q 043181          134 -ISCHYLLP-HLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFA  211 (348)
Q Consensus       134 -~s~~~L~~-~~k~~fl~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~~~~~~~~  211 (348)
                       +||+.|++ ..|.||+++|+||.+..+   ..+..|.+.+....           ...+..|++++|++...   ..+.
T Consensus       427 ~~SYd~L~~~~~k~~Fl~ia~ff~~~~~---~~v~~~l~~~~~~~-----------~~~l~~L~~ksLi~~~~---~~~~  489 (1153)
T PLN03210        427 RVSYDGLNNKKDKAIFRHIACLFNGEKV---NDIKLLLANSDLDV-----------NIGLKNLVDKSLIHVRE---DIVE  489 (1153)
T ss_pred             HHhhhccCccchhhhhheehhhcCCCCH---HHHHHHHHhcCCCc-----------hhChHHHHhcCCEEEcC---CeEE
Confidence             99999987 599999999999988754   34666777654432           12388999999998754   3699


Q ss_pred             echHHHHHHHhhccccc---------------------------cc-----------------cccCccccceeeeccCc
Q 043181          212 MHDFINDLAHKYDGIKR---------------------------FE-----------------AIDGVKHLRTSLPISSR  247 (348)
Q Consensus       212 mh~li~~~~~~~~~~~~---------------------------~~-----------------~~~~~~~l~~l~~~~~~  247 (348)
                      |||++|+||+++...+.                           +.                 .+..|.+|+.+......
T Consensus       490 MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~  569 (1153)
T PLN03210        490 MHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKK  569 (1153)
T ss_pred             hhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCccccEEEEeccc
Confidence            99999999996532110                           00                 12345666665543221


Q ss_pred             ccc--ccc-ccchhHHHHh----------------------hhhccccee------eCCccccCCCCccEEecCCCC-Cc
Q 043181          248 VVW--DYS-HLNRNVLFDL----------------------SLKLQCFRY------ELPSEIGDLKILRYLNFSDAQ-VE  295 (348)
Q Consensus       248 ~~~--~~~-~~~~~~~~~~----------------------~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~-~~  295 (348)
                      ...  ... .+. ..+..+                      ..++..|.+      .+|..+..+++|++++++++. +.
T Consensus       570 ~~~~~~~~~~lp-~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~  648 (1153)
T PLN03210        570 WDQKKEVRWHLP-EGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLK  648 (1153)
T ss_pred             ccccccceeecC-cchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCccccccccccccCCCCCEEECCCCCCcC
Confidence            000  000 000 000000                      112222222      456677788888889888765 66


Q ss_pred             cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          296 TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       296 ~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|. ++.+++|+.|++.+|+.+.++|.+|++|++|+.|++++|..++.+|.
T Consensus       649 ~ip~-ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~  699 (1153)
T PLN03210        649 EIPD-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPT  699 (1153)
T ss_pred             cCCc-cccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCC
Confidence            6764 88888899999988888888998888888888888888888888774

syringae 6; Provisional

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

Probab=99.96  E-value=1.2e-29  Score=225.81  Aligned_cols=176  Identities=34%  Similarity=0.616  Sum_probs=138.8

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHHhccccccCC---CChhhhhc--------------
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTEAVRD---NDLNLLQL--------------   63 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~~l~~~~~~~---~~~~~l~~--------------   63 (348)
                      |||+||||||+++|++.+++.+|++++|+.++...+...+++.|+.+++......   .+.+....              
T Consensus        27 ~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlV  106 (287)
T PF00931_consen   27 MGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLRELLKDKRCLLV  106 (287)
T ss_dssp             STTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHHHHCCTSEEEE
T ss_pred             CCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhccccceee
Confidence            7999999999999997779999999999999999888999999999987663211   11111000              


Q ss_pred             ------------------------------------------------CCCChHHHHHHHHHhhcCCCCCCcChhHHHHH
Q 043181           64 ------------------------------------------------KKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIG   95 (348)
Q Consensus        64 ------------------------------------------------~~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~   95 (348)
                                                                      .+|+.++|++||.+.++... ....+.+.+.+
T Consensus       107 lDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~  185 (287)
T PF00931_consen  107 LDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGRKE-SESPEDLEDLA  185 (287)
T ss_dssp             EEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTSHS-----TTSCTHH
T ss_pred             eeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc
Confidence                                                            08999999999999997765 12334456789


Q ss_pred             HHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhcCcc------------------cccccCchHHHHHHhHhccCCCCC
Q 043181           96 EKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKA------------------ISCHYLLPHLKRCFSYCSIFPEDC  157 (348)
Q Consensus        96 ~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~~~~------------------~s~~~L~~~~k~~fl~~~~fp~~~  157 (348)
                      ++|++.|+|+|||++++|+.|+.+.+..+|+.+++...                  .||+.|+++.|+||+|||+||+++
T Consensus       186 ~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~  265 (287)
T PF00931_consen  186 KEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSALELSYDSLPDELRRCFLYLSIFPEGV  265 (287)
T ss_dssp             HHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccceechhcCCccHHHHHhhCcCCCCCc
Confidence            99999999999999999999977657788998875422                  999999999999999999999999


Q ss_pred             ccchhHHHHHHHHcCCCccC
Q 043181          158 KFEEEELILLRMAQGFLRHE  177 (348)
Q Consensus       158 ~i~~~~li~~w~a~g~~~~~  177 (348)
                      .|+++.++++|+++|++.+.
T Consensus       266 ~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  266 PIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             -EEHHHHHHHHTT-HHTC--
T ss_pred             eECHHHHHHHHHHCCCCccc
Confidence            99999999999999998763

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

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

Probab=98.80  E-value=8.8e-10  Score=86.66  Aligned_cols=72  Identities=35%  Similarity=0.448  Sum_probs=57.6

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +|..+..|.-|+-|.++.|.++.+|+.+++|++||.|.++. +.+-++|.+++.|++|+.|.+.+| ++.-+|+
T Consensus       119 lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrd-ndll~lpkeig~lt~lrelhiqgn-rl~vlpp  190 (264)
T KOG0617|consen  119 LPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRD-NDLLSLPKEIGDLTRLRELHIQGN-RLTVLPP  190 (264)
T ss_pred             CCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeecc-CchhhCcHHHHHHHHHHHHhcccc-eeeecCh
Confidence            44444444444444445555666799999999999999999 789999999999999999999999 8888886

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.50  E-value=3.6e-06  Score=86.91  Aligned_cols=135  Identities=10%  Similarity=0.147  Sum_probs=87.6

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCCCC-ch--hHH-------HHhcCcc-
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVD-CI--DWE-------DVLNSKA-  133 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~~~-~~--~w~-------~~l~~~~-  133 (348)
                      +|+.+|+.++|.......-    +   .+...++.+.|+|+|+++..++..+..... ..  .|.       .+.+.+. 
T Consensus       185 ~f~~~e~~~ll~~~~~~~~----~---~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  257 (903)
T PRK04841        185 AFDHQEAQQFFDQRLSSPI----E---AAESSRLCDDVEGWATALQLIALSARQNNSSLHDSARRLAGINASHLSDYLVE  257 (903)
T ss_pred             CCCHHHHHHHHHhccCCCC----C---HHHHHHHHHHhCChHHHHHHHHHHHhhCCCchhhhhHhhcCCCchhHHHHHHH
Confidence            6788888888876543221    1   245788999999999999998877755432 11  111       0111111 


Q ss_pred             cccccCchHHHHHHhHhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccc-eeCCCcceEee
Q 043181          134 ISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFR-QSSSNVSRFAM  212 (348)
Q Consensus       134 ~s~~~L~~~~k~~fl~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~-~~~~~~~~~~m  212 (348)
                      ..++.||+..+..++.+|+++   .++....-      .+.+.        ..+.+.+.+|.+.+++. ..++....|+.
T Consensus       258 ~v~~~l~~~~~~~l~~~a~~~---~~~~~l~~------~l~~~--------~~~~~~L~~l~~~~l~~~~~~~~~~~yr~  320 (903)
T PRK04841        258 EVLDNVDLETRHFLLRCSVLR---SMNDALIV------RVTGE--------ENGQMRLEELERQGLFIQRMDDSGEWFRY  320 (903)
T ss_pred             HHHhcCCHHHHHHHHHhcccc---cCCHHHHH------HHcCC--------CcHHHHHHHHHHCCCeeEeecCCCCEEeh
Confidence            336889999999999999987   23322211      11111        22467789999999965 34444457899


Q ss_pred             chHHHHHHHhh
Q 043181          213 HDFINDLAHKY  223 (348)
Q Consensus       213 h~li~~~~~~~  223 (348)
                      |++++++.+..
T Consensus       321 H~L~r~~l~~~  331 (903)
T PRK04841        321 HPLFASFLRHR  331 (903)
T ss_pred             hHHHHHHHHHH
Confidence            99999998843

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

Probab=98.45  E-value=3.9e-08  Score=77.50  Aligned_cols=72  Identities=28%  Similarity=0.406  Sum_probs=42.2

Q ss_pred             CCccccCCCCccEEecCCCCCc--cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVE--TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~--~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +|..++.++-|+.||+.+|.+.  .+|..+--++-|+.|-|++ +...-+|+.+++|++|+.|.+++| .+-++|.
T Consensus        94 lprgfgs~p~levldltynnl~e~~lpgnff~m~tlralyl~d-ndfe~lp~dvg~lt~lqil~lrdn-dll~lpk  167 (264)
T KOG0617|consen   94 LPRGFGSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGD-NDFEILPPDVGKLTNLQILSLRDN-DLLSLPK  167 (264)
T ss_pred             CccccCCCchhhhhhccccccccccCCcchhHHHHHHHHHhcC-CCcccCChhhhhhcceeEEeeccC-chhhCcH
Confidence            4444444444444444444433  2444444444444444444 455677888999999999999988 6666763

>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=98.41  E-value=1.8e-07  Score=62.23  Aligned_cols=57  Identities=37%  Similarity=0.441  Sum_probs=51.4

Q ss_pred             CCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCC
Q 043181          282 KILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~  339 (348)
                      ++|++|++++|+++.+|+ .+..+++|++|++++ +.+..+|+ .+..+++|++|++++|
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~-N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSN-NNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETS-SSESEEETTTTTTSTTESEEEETSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccC-CccCccCHHHHcCCCCCCEEeCcCC
Confidence            478999999999999985 678999999999997 78889987 5799999999999998

...

>PLN03150 hypothetical protein; Provisional

Probab=98.26  E-value=1.2e-06  Score=86.12  Aligned_cols=75  Identities=21%  Similarity=0.289  Sum_probs=65.2

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..++.+.+|+.|+|++|.+. .+|+.++.+++|+.|+|++|...+.+|..+++|++|++|++++|...+.+|.
T Consensus       433 ~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~N~l~g~iP~  508 (623)
T PLN03150        433 FIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSLSGRVPA  508 (623)
T ss_pred             cCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcCCcccccCCh
Confidence            57888999999999999999987 7898999999999999999766678999999999999999999866667764

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

Probab=98.22  E-value=7.4e-07  Score=79.34  Aligned_cols=72  Identities=39%  Similarity=0.531  Sum_probs=60.6

Q ss_pred             eCCccccCCCCccEEecCCCCCccCch-----------------------h-hhccCCCCEeeccCCCccchhHHHhccc
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPE-----------------------S-VCKLHNLETLKLQNCNRLQKLFADIGNL  328 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~-----------------------~-~~~l~~L~~L~l~~c~~l~~lp~~i~~l  328 (348)
                      .+|..++.+..|+.++++.|++..+|+                       + +.++.+|.+||+.+ +.+..+|+.+|++
T Consensus       449 ~LP~e~~~lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~n-Ndlq~IPp~Lgnm  527 (565)
T KOG0472|consen  449 DLPEEMGSLVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQN-NDLQQIPPILGNM  527 (565)
T ss_pred             hcchhhhhhhhhheecccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCC-CchhhCChhhccc
Confidence            788888999889999998887665544                       3 66788999999998 8999999999999


Q ss_pred             ccCcEeeccCCCCCCCCCC
Q 043181          329 NNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       329 ~~L~~L~l~~~~~l~~lp~  347 (348)
                      ++|++|.+.+| +++ .|+
T Consensus       528 tnL~hLeL~gN-pfr-~Pr  544 (565)
T KOG0472|consen  528 TNLRHLELDGN-PFR-QPR  544 (565)
T ss_pred             cceeEEEecCC-ccC-CCH
Confidence            99999999999 555 553

>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=98.21  E-value=1.1e-06  Score=53.94  Aligned_cols=39  Identities=36%  Similarity=0.520  Sum_probs=25.3

Q ss_pred             CccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhH
Q 043181          283 ILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLF  322 (348)
Q Consensus       283 ~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp  322 (348)
                      +|++|++++|.++.+|+.++++++|++|++++ +.+..+|
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~-N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSN-NPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETS-SCCSBEG
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecC-CCCCCCc
Confidence            56777777777777776677777777777776 3555554

...

>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=98.15  E-value=2e-06  Score=52.70  Aligned_cols=42  Identities=33%  Similarity=0.510  Sum_probs=36.2

Q ss_pred             CCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCCC
Q 043181          305 HNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLESL  348 (348)
Q Consensus       305 ~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~  348 (348)
                      ++|++|++++ +.+..+|+.+++|++|+.|++++| .+.++|++
T Consensus         1 ~~L~~L~l~~-N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~~l   42 (44)
T PF12799_consen    1 KNLEELDLSN-NQITDLPPELSNLPNLETLNLSNN-PISDISPL   42 (44)
T ss_dssp             TT-SEEEETS-SS-SSHGGHGTTCTTSSEEEETSS-CCSBEGGG
T ss_pred             CcceEEEccC-CCCcccCchHhCCCCCCEEEecCC-CCCCCcCC
Confidence            4799999999 789999999999999999999999 78888764

...

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

Probab=98.14  E-value=2.5e-06  Score=88.74  Aligned_cols=74  Identities=22%  Similarity=0.363  Sum_probs=49.6

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+|..++++.+|++|++++|.+. .+|..++++++|++|++++|.....+|..++++++|++|++++|...+.+|
T Consensus       179 ~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p  253 (968)
T PLN00113        179 KIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIP  253 (968)
T ss_pred             cCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccC
Confidence            45666677777777777777654 467777777777777777755555677777777777777777774333444

>PLN03210 Resistant to P

Probab=98.14  E-value=4.5e-06  Score=87.87  Aligned_cols=73  Identities=30%  Similarity=0.429  Sum_probs=64.7

Q ss_pred             eCCccccCCCCccEEecCCCC-CccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQ-VETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~-~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+| .++.+++|++|++++|. +.++|.+++.+++|+.|++++|+.++.+|..+ ++++|+.|++++|..++.+|.
T Consensus       649 ~ip-~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~~p~  722 (1153)
T PLN03210        649 EIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPD  722 (1153)
T ss_pred             cCC-ccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCCCCCCcccccc
Confidence            344 57889999999999976 77899999999999999999999999999876 789999999999988888774

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.08  E-value=1.5e-06  Score=87.66  Aligned_cols=104  Identities=27%  Similarity=0.302  Sum_probs=82.6

Q ss_pred             ccccCccccceeeeccCcccccccccchhHHHHhhhhccccee----------eCCccccCCCCccEEecCCCCCccCch
Q 043181          230 EAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY----------ELPSEIGDLKILRYLNFSDAQVETSPE  299 (348)
Q Consensus       230 ~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~----------~~p~~~~~l~~L~~l~l~~~~~~~lp~  299 (348)
                      ..-...+.+++|+...+..      ........++..++.|+|          ++|.+++.|.+|+||+++++.++.+|.
T Consensus       539 ~~~~~~~~L~tLll~~n~~------~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~  612 (889)
T KOG4658|consen  539 AGSSENPKLRTLLLQRNSD------WLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPS  612 (889)
T ss_pred             cCCCCCCccceEEEeecch------hhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccch
Confidence            3334455799998877642      112233344666777777          699999999999999999999999999


Q ss_pred             hhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          300 SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       300 ~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+++|..|.+|++..+..+..+|..+..|++||+|.+...
T Consensus       613 ~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  613 GLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLPRS  652 (889)
T ss_pred             HHHHHHhhheeccccccccccccchhhhcccccEEEeecc
Confidence            9999999999999997778888776666999999998654

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

Probab=98.04  E-value=8.4e-07  Score=83.27  Aligned_cols=66  Identities=35%  Similarity=0.390  Sum_probs=35.2

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      +.|..+..-+++-.|+||+|+|+++|.++ -+|..|-+|||++ +.+..||+.+..|..|+.|.|++|
T Consensus       117 EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~-NrLe~LPPQ~RRL~~LqtL~Ls~N  183 (1255)
T KOG0444|consen  117 EVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSN-NRLEMLPPQIRRLSMLQTLKLSNN  183 (1255)
T ss_pred             hcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhcccc-chhhhcCHHHHHHhhhhhhhcCCC
Confidence            34555555555555555555555555433 3455555555555 455555555555555555555555

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

Probab=98.02  E-value=1e-05  Score=84.28  Aligned_cols=75  Identities=25%  Similarity=0.333  Sum_probs=66.1

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..++.+++|++|++++|.++ .+|..++.+++|+.|++++|...+.+|..+.++++|++|++++|...+.+|.
T Consensus       514 ~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~l~ls~N~l~~~~p~  589 (968)
T PLN00113        514 EIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHGSLPS  589 (968)
T ss_pred             eCChHHcCccCCCEEECCCCcccccCChhHhCcccCCEEECCCCcccccCChhHhcCcccCEEeccCCcceeeCCC
Confidence            67888899999999999999987 5788899999999999999877778999999999999999999977777774

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

Probab=97.95  E-value=1.7e-06  Score=77.12  Aligned_cols=68  Identities=34%  Similarity=0.505  Sum_probs=57.3

Q ss_pred             eCCcccc-CCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCC
Q 043181          273 ELPSEIG-DLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       273 ~~p~~~~-~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~  343 (348)
                      .+|...+ ++.++..||++.|++++.|..++.|.+|++||+++ +.+..+|.++|+| -|+.|-+.|| .++
T Consensus       242 ~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSN-N~is~Lp~sLgnl-hL~~L~leGN-Plr  310 (565)
T KOG0472|consen  242 MLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSN-NDISSLPYSLGNL-HLKFLALEGN-PLR  310 (565)
T ss_pred             hhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccC-CccccCCcccccc-eeeehhhcCC-chH
Confidence            3566655 78889999999999999999999999999999998 7899999999998 6888888888 443

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

Probab=97.94  E-value=1.6e-06  Score=81.49  Aligned_cols=66  Identities=29%  Similarity=0.313  Sum_probs=50.7

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+|+.+-++.+|+.|+||+|.|+++.-.++...+|++|+++. +++..||..+++|++|+.|.+++|
T Consensus       236 ~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSr-NQLt~LP~avcKL~kL~kLy~n~N  301 (1255)
T KOG0444|consen  236 IVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSR-NQLTVLPDAVCKLTKLTKLYANNN  301 (1255)
T ss_pred             cchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhcccc-chhccchHHHhhhHHHHHHHhccC
Confidence            456666677777777777777777776777777788888877 778888888888888888887776

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.93  E-value=0.00029  Score=68.93  Aligned_cols=195  Identities=19%  Similarity=0.223  Sum_probs=128.9

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCC-CCCHHHHHHHHHHhccccccCCCChhh-h-hcC-------------
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFE-DFDVFRITKTMLQSISTEAVRDNDLNL-L-QLK-------------   64 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~l~~~il~~l~~~~~~~~~~~~-l-~~~-------------   64 (348)
                      .+|.|||||+.+...  +.... ..+.|++..+ +.|+.+..+.++..++.-.....+..+ + ++.             
T Consensus        45 PAGfGKttl~aq~~~--~~~~~-~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~  121 (894)
T COG2909          45 PAGFGKTTLLAQWRE--LAADG-AAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLL  121 (894)
T ss_pred             CCCCcHHHHHHHHHH--hcCcc-cceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHH
Confidence            379999999999986  22221 3689999854 457888888888877643222111110 0 000             


Q ss_pred             -----------------------------------------------------------------------CCChHHHHH
Q 043181           65 -----------------------------------------------------------------------KWSDDDCLC   73 (348)
Q Consensus        65 -----------------------------------------------------------------------~l~~~~a~~   73 (348)
                                                                                             .++.+|+.+
T Consensus       122 ~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~  201 (894)
T COG2909         122 NELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAA  201 (894)
T ss_pred             HHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHH
Confidence                                                                                   689999999


Q ss_pred             HHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhc---Cc------ccccccCchHHH
Q 043181           74 VFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLN---SK------AISCHYLLPHLK  144 (348)
Q Consensus        74 Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~---~~------~~s~~~L~~~~k  144 (348)
                      +|.......-+       ...++.+.+..+|++-|+..++=.+++..+.+.-...+.   +.      .--++.||++.|
T Consensus       202 fl~~~~~l~Ld-------~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~LsG~~~~l~dYL~eeVld~Lp~~l~  274 (894)
T COG2909         202 FLNDRGSLPLD-------AADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLSGAASHLSDYLVEEVLDRLPPELR  274 (894)
T ss_pred             HHHHcCCCCCC-------hHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhccchHHHHHHHHHHHHHhcCCHHHH
Confidence            99987522221       245888999999999999999988884433222111111   00      045678999999


Q ss_pred             HHHhHhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccc-eeCCCcceEeechHHHHHHHh
Q 043181          145 RCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFR-QSSSNVSRFAMHDFINDLAHK  222 (348)
Q Consensus       145 ~~fl~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~-~~~~~~~~~~mh~li~~~~~~  222 (348)
                      ..++-+|+++.-.    ..|......             ++.+...+++|..+++.- +.++...-|+.|.++.+|.+.
T Consensus       275 ~FLl~~svl~~f~----~eL~~~Ltg-------------~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~  336 (894)
T COG2909         275 DFLLQTSVLSRFN----DELCNALTG-------------EENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQ  336 (894)
T ss_pred             HHHHHHHhHHHhh----HHHHHHHhc-------------CCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHh
Confidence            9999988886421    222222111             234667799999998766 456667789999999999983

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.74  E-value=2.7e-05  Score=70.53  Aligned_cols=44  Identities=20%  Similarity=0.293  Sum_probs=37.6

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCC--CHHHHHHHHH
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDF--DVFRITKTML   45 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~l~~~il   45 (348)
                      .+|+||||||++||++.... +|+..+||.+.+.+  ++.++++.+.
T Consensus       177 ppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIl  222 (416)
T PRK09376        177 PPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVK  222 (416)
T ss_pred             CCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhc
Confidence            37999999999999965554 89999999998887  7888888876

>PLN03150 hypothetical protein; Provisional

Probab=97.66  E-value=7.1e-05  Score=73.66  Aligned_cols=74  Identities=20%  Similarity=0.294  Sum_probs=63.8

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhccc-ccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNL-NNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l-~~L~~L~l~~~~~l~~lp  346 (348)
                      .+|..++.+.+|+.|+|++|.+. .+|+.++++++|+.|+|++|...+.+|..++.+ .++..+++.+|..+...|
T Consensus       457 ~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        457 NIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             cCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcCCcccccCChHHhhccccCceEEecCCccccCCC
Confidence            67888999999999999999987 699999999999999999977778999988764 367788888886665554

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

Probab=97.63  E-value=6.3e-05  Score=61.11  Aligned_cols=63  Identities=25%  Similarity=0.326  Sum_probs=28.1

Q ss_pred             cccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~  340 (348)
                      .+..+.+|+.|++++|.++++++.+ ..+++|+.|.+++ +.+.++-.  .+..+++|+.|++.+|+
T Consensus        59 ~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~-N~I~~l~~l~~L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   59 GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSN-NKISDLNELEPLSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             T----TT--EEE--SS---S-CHHHHHH-TT--EEE-TT-S---SCCCCGGGGG-TT--EEE-TT-G
T ss_pred             CccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcC-CcCCChHHhHHHHcCCCcceeeccCCc
Confidence            5677888888888888888887655 3688888888887 66655532  35677888888888884

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.63  E-value=0.0022  Score=58.20  Aligned_cols=122  Identities=9%  Similarity=0.019  Sum_probs=74.4

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhc------CC--CCchhHHHHhcCccccc
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLH------GK--VDCIDWEDVLNSKAISC  136 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~------~~--~~~~~w~~~l~~~~~s~  136 (348)
                      +++.++..+++.+.+...+.. ..   .+....|++.|+|.|-.+..+...+.      +.  -+.+.-..+++.....+
T Consensus       179 ~~~~~e~~~il~~~~~~~~~~-~~---~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~~~~~~  254 (328)
T PRK00080        179 FYTVEELEKIVKRSARILGVE-ID---EEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDMLGVDE  254 (328)
T ss_pred             CCCHHHHHHHHHHHHHHcCCC-cC---HHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCc
Confidence            889999999999887544322 22   35788999999999965544443221      11  12333444444455777


Q ss_pred             ccCchHHHHHHh-HhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHH-HHHhCCcccee
Q 043181          137 HYLLPHLKRCFS-YCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSG-ELQSRSHFRQS  203 (348)
Q Consensus       137 ~~L~~~~k~~fl-~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~-~L~~~sll~~~  203 (348)
                      ..|++..+..+. ....|+.+ .+..+.+....      +.      ....+++.++ .|++.+|++..
T Consensus       255 ~~l~~~~~~~l~~~~~~~~~~-~~~~~~~a~~l------g~------~~~~~~~~~e~~Li~~~li~~~  310 (328)
T PRK00080        255 LGLDEMDRKYLRTIIEKFGGG-PVGLDTLAAAL------GE------ERDTIEDVYEPYLIQQGFIQRT  310 (328)
T ss_pred             CCCCHHHHHHHHHHHHHcCCC-ceeHHHHHHHH------CC------CcchHHHHhhHHHHHcCCcccC
Confidence            788887777664 55566644 45555443221      11      1234555666 89999999854

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.62  E-value=7.9e-05  Score=64.31  Aligned_cols=45  Identities=22%  Similarity=0.255  Sum_probs=37.5

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCC--CCHHHHHHHHHH
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFED--FDVFRITKTMLQ   46 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~l~~~il~   46 (348)
                      .+|+|||||++.+|++.... +|+..+|+.+.+.  .++.++++.+..
T Consensus        24 ~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~   70 (249)
T cd01128          24 PPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKG   70 (249)
T ss_pred             CCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhcc
Confidence            37999999999999966554 8999999997666  789999988833

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

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

Probab=97.61  E-value=0.00066  Score=59.67  Aligned_cols=52  Identities=15%  Similarity=0.151  Sum_probs=35.0

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhh
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLL  116 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L  116 (348)
                      +++.+|..+++..............--.+..+.|.+.++|.|..+..++..+
T Consensus       191 ~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       191 PLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            7888888888877653221100011124788899999999999998888665

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

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.52  E-value=0.0019  Score=57.92  Aligned_cols=123  Identities=11%  Similarity=0.022  Sum_probs=74.1

Q ss_pred             CCCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhh------cCCC--CchhHHHHhcCcccc
Q 043181           64 KKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLL------HGKV--DCIDWEDVLNSKAIS  135 (348)
Q Consensus        64 ~~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L------~~~~--~~~~w~~~l~~~~~s  135 (348)
                      .+++.++..+++...+..... ..+   .+....|++.|+|.|-.+..+...+      .+..  +.+..+.++..+...
T Consensus       157 ~~l~~~e~~~il~~~~~~~~~-~~~---~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~l~~~  232 (305)
T TIGR00635       157 EFYTVEELAEIVSRSAGLLNV-EIE---PEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEMLMID  232 (305)
T ss_pred             CCCCHHHHHHHHHHHHHHhCC-CcC---HHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHhCCC
Confidence            389999999999988754322 122   3567889999999996654444332      1111  344455555555577


Q ss_pred             cccCchHHHHHHh-HhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHH-HHHhCCcccee
Q 043181          136 CHYLLPHLKRCFS-YCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSG-ELQSRSHFRQS  203 (348)
Q Consensus       136 ~~~L~~~~k~~fl-~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~-~L~~~sll~~~  203 (348)
                      |..++...+..+. ..+.+..+ .+..+.+....      +.      ....+...++ .|++++|+...
T Consensus       233 ~~~l~~~~~~~L~al~~~~~~~-~~~~~~ia~~l------g~------~~~~~~~~~e~~Li~~~li~~~  289 (305)
T TIGR00635       233 ELGLDEIDRKLLSVLIEQFQGG-PVGLKTLAAAL------GE------DADTIEDVYEPYLLQIGFLQRT  289 (305)
T ss_pred             CCCCCHHHHHHHHHHHHHhCCC-cccHHHHHHHh------CC------CcchHHHhhhHHHHHcCCcccC
Confidence            8888887776665 34555432 34433332221      11      1244566677 69999999753

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

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

Probab=97.50  E-value=1.8e-05  Score=73.70  Aligned_cols=71  Identities=31%  Similarity=0.471  Sum_probs=45.1

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+|..++.|+ |+.|-+++|+++.+|+.++-++.|..||++. +.+..+|+.++.|.+|+.|++..| .+..+|
T Consensus       135 ~lp~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s~-nei~slpsql~~l~slr~l~vrRn-~l~~lp  205 (722)
T KOG0532|consen  135 HLPDGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVSK-NEIQSLPSQLGYLTSLRDLNVRRN-HLEDLP  205 (722)
T ss_pred             cCChhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhhh-hhhhhchHHhhhHHHHHHHHHhhh-hhhhCC
Confidence            3555555555 6666666666666666666666666666664 466666666666666666666666 455554

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

Probab=97.50  E-value=3.4e-05  Score=75.71  Aligned_cols=72  Identities=31%  Similarity=0.408  Sum_probs=57.9

Q ss_pred             CCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..+-+-.+.+||.|+|++|++.++|.+ +.++..|+.|+|+| +.++.||.++.++.+|++|...+| .+..+|.
T Consensus       375 c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSG-NkL~~Lp~tva~~~~L~tL~ahsN-~l~~fPe  447 (1081)
T KOG0618|consen  375 CFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSG-NKLTTLPDTVANLGRLHTLRAHSN-QLLSFPE  447 (1081)
T ss_pred             chhhhccccceeeeeecccccccCCHHHHhchHHhHHHhccc-chhhhhhHHHHhhhhhHHHhhcCC-ceeechh
Confidence            344567888899999999998888865 47888888899998 788999988888888888877777 6666764

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

Probab=97.46  E-value=8.5e-05  Score=60.38  Aligned_cols=56  Identities=27%  Similarity=0.310  Sum_probs=21.7

Q ss_pred             CCCCccEEecCCCCCccCc--hhhhccCCCCEeeccCCCccchhHH----HhcccccCcEeec
Q 043181          280 DLKILRYLNFSDAQVETSP--ESVCKLHNLETLKLQNCNRLQKLFA----DIGNLNNLHHLDN  336 (348)
Q Consensus       280 ~l~~L~~l~l~~~~~~~lp--~~~~~l~~L~~L~l~~c~~l~~lp~----~i~~l~~L~~L~l  336 (348)
                      .+++|+.|.+++|+|.++-  ..+..+++|+.|++.+ +++.+-+.    -|..+++|+.||-
T Consensus        86 ~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~-NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   86 NLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEG-NPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             H-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT--GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             hCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccC-CcccchhhHHHHHHHHcChhheeCC
Confidence            4566666666666654331  2345566666666666 44444432    2445666666654

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

Probab=97.41  E-value=0.00019  Score=47.46  Aligned_cols=41  Identities=29%  Similarity=0.477  Sum_probs=36.8

Q ss_pred             CccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNC  315 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c  315 (348)
                      +..+..+++|++|++++|.++.+|+ .+..+++|+.|++++|
T Consensus        18 ~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen   18 PDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             HHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            3678899999999999999999875 6799999999999985

...

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

Probab=97.29  E-value=5.1e-05  Score=70.79  Aligned_cols=69  Identities=35%  Similarity=0.553  Sum_probs=48.5

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLES  344 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~  344 (348)
                      .+|..++.+..|+.|+++.|.+..+|+.++.|+ |..||++ |+++..||-.|.+|+-|++|-|.+| .+.+
T Consensus       180 slpsql~~l~slr~l~vrRn~l~~lp~El~~Lp-Li~lDfS-cNkis~iPv~fr~m~~Lq~l~LenN-PLqS  248 (722)
T KOG0532|consen  180 SLPSQLGYLTSLRDLNVRRNHLEDLPEELCSLP-LIRLDFS-CNKISYLPVDFRKMRHLQVLQLENN-PLQS  248 (722)
T ss_pred             hchHHhhhHHHHHHHHHhhhhhhhCCHHHhCCc-eeeeecc-cCceeecchhhhhhhhheeeeeccC-CCCC
Confidence            466667777777777777777777777777555 7777777 4777777777777777777777766 5554

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

Probab=97.23  E-value=7e-05  Score=73.64  Aligned_cols=71  Identities=38%  Similarity=0.515  Sum_probs=36.3

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .|..+..+.+|+.|+++.|.+.+.|.+++++.+|++|.|.+ +.+..+|.++..+.+|++|++++| ....+|
T Consensus        60 fp~~it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~-n~l~~lP~~~~~lknl~~LdlS~N-~f~~~P  130 (1081)
T KOG0618|consen   60 FPIQITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKN-NRLQSLPASISELKNLQYLDLSFN-HFGPIP  130 (1081)
T ss_pred             CCchhhhHHHHhhcccchhhHhhCchhhhhhhcchhheecc-chhhcCchhHHhhhcccccccchh-ccCCCc
Confidence            34444555555555555555555555555555555555553 455555555555555555555555 333343

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

Probab=97.19  E-value=0.00011  Score=56.16  Aligned_cols=60  Identities=20%  Similarity=0.268  Sum_probs=34.2

Q ss_pred             cCCCCccEEecCCCCCccCchhhh-ccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          279 GDLKILRYLNFSDAQVETSPESVC-KLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~~~~-~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ....+|...++++|.+..+|+.+. +.+-+++|++.+ +.+.++|.++..++.|+.|+++.|
T Consensus        50 ~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~-neisdvPeE~Aam~aLr~lNl~~N  110 (177)
T KOG4579|consen   50 SKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLAN-NEISDVPEELAAMPALRSLNLRFN  110 (177)
T ss_pred             hCCceEEEEecccchhhhCCHHHhhccchhhhhhcch-hhhhhchHHHhhhHHhhhcccccC
Confidence            334455555666666666665553 233556666665 556666666666666666666655

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=97.12  E-value=0.00067  Score=67.74  Aligned_cols=58  Identities=21%  Similarity=0.349  Sum_probs=25.5

Q ss_pred             CccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          283 ILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       283 ~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +|+.|++++|.+.++|..+.  .+|+.|++++ +++..+|..+.  .+|+.|++++| .+..+|
T Consensus       242 ~L~~L~Ls~N~L~~LP~~l~--s~L~~L~Ls~-N~L~~LP~~l~--~sL~~L~Ls~N-~Lt~LP  299 (754)
T PRK15370        242 TIQEMELSINRITELPERLP--SALQSLDLFH-NKISCLPENLP--EELRYLSVYDN-SIRTLP  299 (754)
T ss_pred             cccEEECcCCccCcCChhHh--CCCCEEECcC-CccCccccccC--CCCcEEECCCC-ccccCc
Confidence            34444555444444444332  2444444443 34444444332  24444444444 344333

>PRK15386 type III secretion protein GogB; Provisional

Probab=96.95  E-value=0.00073  Score=61.97  Aligned_cols=60  Identities=23%  Similarity=0.346  Sum_probs=27.3

Q ss_pred             CCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          282 KILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+++.|++++|.++++|.   -..+|+.|.+++|..+..+|..+  ..+|++|++++|..+.++|
T Consensus        52 ~~l~~L~Is~c~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         52 RASGRLYIKDCDIESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             cCCCEEEeCCCCCcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc
Confidence            445555555555554441   11235555555555555554432  1244555555444444443

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

Probab=96.91  E-value=0.00049  Score=64.09  Aligned_cols=73  Identities=36%  Similarity=0.496  Sum_probs=52.2

Q ss_pred             eCCccccCCC-CccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLK-ILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~-~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|+....+. +|+.|++++|.+..+|..++.+++|+.|++.+ +++.++|...+.+++|+.|++++| .+..+|.
T Consensus       130 ~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~-N~l~~l~~~~~~~~~L~~L~ls~N-~i~~l~~  203 (394)
T COG4886         130 DIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSF-NDLSDLPKLLSNLSNLNNLDLSGN-KISDLPP  203 (394)
T ss_pred             cCccccccchhhcccccccccchhhhhhhhhccccccccccCC-chhhhhhhhhhhhhhhhheeccCC-ccccCch
Confidence            5666666664 77777777777777776677777777777777 577777776667777777777777 6666664

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.90  E-value=0.038  Score=51.46  Aligned_cols=134  Identities=10%  Similarity=0.033  Sum_probs=67.8

Q ss_pred             CCChHHHHHHHHHhhcC---CCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhh-----cCCC--CchhHHHHhcCcc-
Q 043181           65 KWSDDDCLCVFTQRSSR---RTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLL-----HGKV--DCIDWEDVLNSKA-  133 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~---~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L-----~~~~--~~~~w~~~l~~~~-  133 (348)
                      +++.++..+++..++..   .... .+.-+..+++.+....|..+.|+.++-...     ++..  +.+....+.+... 
T Consensus       206 py~~~e~~~il~~r~~~~~~~~~~-~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~~  284 (394)
T PRK00411        206 PYTADEIFDILKDRVEEGFYPGVV-DDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSEI  284 (394)
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCC-CHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence            67778888888876522   1111 222233444444444566787777654321     1111  2444444444322 


Q ss_pred             ----cccccCchHHHHHHhHhccCCC--CCccchhHHHHH--HHHcCCCccCCCCchHHHHHHHHHHHHHhCCcccee
Q 043181          134 ----ISCHYLLPHLKRCFSYCSIFPE--DCKFEEEELILL--RMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQS  203 (348)
Q Consensus       134 ----~s~~~L~~~~k~~fl~~~~fp~--~~~i~~~~li~~--w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~  203 (348)
                          -.+..||.+.|..+..++..-+  ...+...++...  .++..+-.  .  ........+++..|.+.++|...
T Consensus       285 ~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~--~--~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        285 VHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGY--E--PRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCC--C--cCcHHHHHHHHHHHHhcCCeEEE
Confidence                4567888887776654442211  123344444321  22221100  0  11234456789999999999863

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=96.87  E-value=0.001  Score=66.55  Aligned_cols=58  Identities=24%  Similarity=0.324  Sum_probs=26.3

Q ss_pred             CccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          283 ILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       283 ~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +|+.|++++|.++.+|..+.  ++|+.|++++ +.+..+|+.+.  .+|+.|++++| .+..+|
T Consensus       347 sL~~L~Ls~N~L~~LP~~lp--~~L~~LdLs~-N~Lt~LP~~l~--~sL~~LdLs~N-~L~~LP  404 (754)
T PRK15370        347 ELQVLDVSKNQITVLPETLP--PTITTLDVSR-NALTNLPENLP--AALQIMQASRN-NLVRLP  404 (754)
T ss_pred             cccEEECCCCCCCcCChhhc--CCcCEEECCC-CcCCCCCHhHH--HHHHHHhhccC-CcccCc
Confidence            44455555554444444332  3455555554 23444544432  23455555554 344443

>PRK08118 topology modulation protein; Reviewed

Probab=96.79  E-value=0.0005  Score=55.78  Aligned_cols=28  Identities=32%  Similarity=0.618  Sum_probs=21.6

Q ss_pred             CCCCcHHHHHHHHhcchhhh-cCCCeeEE
Q 043181            1 MGGVGKTTLAQLLCNNVKVK-NRFHLETW   28 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~-~~F~~~~w   28 (348)
                      .+|+||||||+.+++...+. -+||..+|
T Consensus         9 ~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          9 SGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             CCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            47999999999999965443 55777764

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

Probab=96.66  E-value=0.00063  Score=58.91  Aligned_cols=59  Identities=25%  Similarity=0.258  Sum_probs=46.6

Q ss_pred             cCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          279 GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ..++.|..+||++|.|+.+-++..-++.++.|++++ +.+..+-. +..|++|++|++++|
T Consensus       281 dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~-N~i~~v~n-La~L~~L~~LDLS~N  339 (490)
T KOG1259|consen  281 DTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQ-NRIRTVQN-LAELPQLQLLDLSGN  339 (490)
T ss_pred             chHhhhhhccccccchhhhhhhhhhccceeEEeccc-cceeeehh-hhhcccceEeecccc
Confidence            445668888888888888888888888888888887 67777765 778888888888877

>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=96.62  E-value=0.00078  Score=34.38  Aligned_cols=20  Identities=30%  Similarity=0.592  Sum_probs=11.3

Q ss_pred             ccEEecCCCCCccCchhhhc
Q 043181          284 LRYLNFSDAQVETSPESVCK  303 (348)
Q Consensus       284 L~~l~l~~~~~~~lp~~~~~  303 (348)
                      |++|++++|.++++|+++++
T Consensus         2 L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             ESEEEETSSEESEEGTTTTT
T ss_pred             ccEEECCCCcCEeCChhhcC
Confidence            55666666665555555443

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 ....

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=96.61  E-value=0.0013  Score=55.15  Aligned_cols=40  Identities=13%  Similarity=0.195  Sum_probs=27.0

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchh
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLA  108 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLa  108 (348)
                      ..+.+|-.++..+.+..-+-    +--.+.+.+|+++|.|-|--
T Consensus       178 ~Y~~~el~~Iv~r~a~~l~i----~i~~~~~~~Ia~rsrGtPRi  217 (233)
T PF05496_consen  178 FYSEEELAKIVKRSARILNI----EIDEDAAEEIARRSRGTPRI  217 (233)
T ss_dssp             --THHHHHHHHHHCCHCTT-----EE-HHHHHHHHHCTTTSHHH
T ss_pred             cCCHHHHHHHHHHHHHHhCC----CcCHHHHHHHHHhcCCChHH
Confidence            57788888888877633321    11257899999999999953

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>TIGR00767 rho transcription termination factor Rho

Probab=96.58  E-value=0.0027  Score=58.11  Aligned_cols=45  Identities=20%  Similarity=0.277  Sum_probs=36.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCC--CCHHHHHHHHHHh
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFED--FDVFRITKTMLQS   47 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~l~~~il~~   47 (348)
                      +|.|||||++.+++..... +|+..+|+.+.+.  .++.++++.++..
T Consensus       177 ~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~  223 (415)
T TIGR00767       177 PKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGE  223 (415)
T ss_pred             CCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhce
Confidence            5999999999999954333 6999999998866  6889999988643

Members of this family differ in the specificity of RNA binding.

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

Probab=96.57  E-value=0.0014  Score=64.89  Aligned_cols=79  Identities=20%  Similarity=0.278  Sum_probs=52.4

Q ss_pred             HHHhhhhccccee--------eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhH--HHhcccc
Q 043181          260 LFDLSLKLQCFRY--------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLF--ADIGNLN  329 (348)
Q Consensus       260 ~~~~~~~~~~l~~--------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp--~~i~~l~  329 (348)
                      ....+|++++|.+        ++-.-..++++|..||+|++.++.+ ..++.|+||++|.+++- .+..-+  ..+-+|+
T Consensus       143 ig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~mrnL-e~e~~~~l~~LF~L~  220 (699)
T KOG3665|consen  143 IGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVLSMRNL-EFESYQDLIDLFNLK  220 (699)
T ss_pred             HhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHHhccCC-CCCchhhHHHHhccc
Confidence            4445667776666        1222345788899999999988887 66888888888877762 222222  1355777


Q ss_pred             cCcEeeccCCC
Q 043181          330 NLHHLDNFVTF  340 (348)
Q Consensus       330 ~L~~L~l~~~~  340 (348)
                      +|+.||++..+
T Consensus       221 ~L~vLDIS~~~  231 (699)
T KOG3665|consen  221 KLRVLDISRDK  231 (699)
T ss_pred             CCCeeeccccc
Confidence            88888877653

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

Probab=96.51  E-value=0.00051  Score=59.46  Aligned_cols=63  Identities=29%  Similarity=0.352  Sum_probs=43.2

Q ss_pred             CCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCCCCCCCC
Q 043181          281 LKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       281 l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +.+.+.|.|++|.++++ ..+++|..|..||+++ +++.++..  +||+|+.|+++.+.+| .+..+|
T Consensus       351 LGNIKtL~La~N~iE~L-SGL~KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L~~N-Pl~~~v  415 (490)
T KOG1259|consen  351 LGNIKTLKLAQNKIETL-SGLRKLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRLTGN-PLAGSV  415 (490)
T ss_pred             hcCEeeeehhhhhHhhh-hhhHhhhhheeccccc-cchhhHHHhcccccccHHHHHhhcCC-Cccccc
Confidence            33344444444444433 3367788888999988 77777764  6899999999999988 666555

>COG3903 Predicted ATPase [General function prediction only]

Probab=96.20  E-value=0.028  Score=51.16  Aligned_cols=144  Identities=15%  Similarity=0.113  Sum_probs=88.4

Q ss_pred             HHHHHHHHHhhcCCC-CCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCCCCc-------hhHHHHhcC---------
Q 043181           69 DDCLCVFTQRSSRRT-DFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDC-------IDWEDVLNS---------  131 (348)
Q Consensus        69 ~~a~~Lf~~~a~~~~-~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~~~~-------~~w~~~l~~---------  131 (348)
                      +++.++|...+.... ++.....-.....+|.+...|.|++|...++..+.-...       +.|.....-         
T Consensus       145 d~a~~lf~~ra~~~~~~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~q  224 (414)
T COG3903         145 DEAIELFVCRAVLVALSFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQ  224 (414)
T ss_pred             CchhHHHHHHHHHhccceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHH
Confidence            368888887653222 111222234678899999999999998888776665221       223322221         


Q ss_pred             -----cccccccCchHHHHHHhHhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeC-C
Q 043181          132 -----KAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSS-S  205 (348)
Q Consensus       132 -----~~~s~~~L~~~~k~~fl~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~-~  205 (348)
                           +..||.-|..-.+-.|-.++.|...+...    ...|.+.|-..     .........-+..+++++++...+ .
T Consensus       225 tl~asl~ws~~lLtgwe~~~~~rLa~~~g~f~~~----l~~~~a~g~~~-----~~~~y~~~~a~~ll~~kslv~a~~~~  295 (414)
T COG3903         225 TLRASLDWSYALLTGWERALFGRLAVFVGGFDLG----LALAVAAGADV-----DVPRYLVLLALTLLVDKSLVVALDLL  295 (414)
T ss_pred             hccchhhhhhHhhhhHHHHHhcchhhhhhhhccc----HHHHHhcCCcc-----ccchHHHHHHHHHHhhccchhhhhhh
Confidence                 11888888888888888888888766433    23344444221     123355566677899999988643 2


Q ss_pred             CcceEeechHHHHHHH
Q 043181          206 NVSRFAMHDFINDLAH  221 (348)
Q Consensus       206 ~~~~~~mh~li~~~~~  221 (348)
                      ....++.-+..+.|+.
T Consensus       296 ~~a~~Rl~eT~r~Yal  311 (414)
T COG3903         296 GRARYRLLETGRRYAL  311 (414)
T ss_pred             hHHHHHHHHHHHHHHH
Confidence            2335666666666665

>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=96.13  E-value=0.0019  Score=32.90  Aligned_cols=22  Identities=36%  Similarity=0.471  Sum_probs=17.1

Q ss_pred             CCCEeeccCCCccchhHHHhccc
Q 043181          306 NLETLKLQNCNRLQKLFADIGNL  328 (348)
Q Consensus       306 ~L~~L~l~~c~~l~~lp~~i~~l  328 (348)
                      +|++|++++| .++.+|+++++|
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT-
T ss_pred             CccEEECCCC-cCEeCChhhcCC
Confidence            5889999996 788999876654

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 ....

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=96.12  E-value=0.0079  Score=60.20  Aligned_cols=18  Identities=33%  Similarity=0.386  Sum_probs=12.9

Q ss_pred             CCccEEecCCCCCccCch
Q 043181          282 KILRYLNFSDAQVETSPE  299 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~  299 (348)
                      ++|++|++++|.++.+|.
T Consensus       302 ~~L~~LdLS~N~L~~Lp~  319 (788)
T PRK15387        302 PGLQELSVSDNQLASLPA  319 (788)
T ss_pred             cccceeECCCCccccCCC
Confidence            567777777777776654

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

Probab=96.11  E-value=0.0055  Score=55.07  Aligned_cols=62  Identities=21%  Similarity=0.203  Sum_probs=37.4

Q ss_pred             cccCCCCccEEecCCCCCc-----cCchhhhccCCCCEeeccCCCccch-hHHHhc-c----cccCcEeeccCC
Q 043181          277 EIGDLKILRYLNFSDAQVE-----TSPESVCKLHNLETLKLQNCNRLQK-LFADIG-N----LNNLHHLDNFVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~-----~lp~~~~~l~~L~~L~l~~c~~l~~-lp~~i~-~----l~~L~~L~l~~~  339 (348)
                      .+..+++|++|++++|.+.     .++..+..+++|++|++++|. +.. -+..+. .    .++|++|++++|
T Consensus       188 ~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~-l~~~~~~~l~~~~~~~~~~L~~L~l~~n  260 (319)
T cd00116         188 GLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNN-LTDAGAAALASALLSPNISLLTLSLSCN  260 (319)
T ss_pred             HHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCc-CchHHHHHHHHHHhccCCCceEEEccCC
Confidence            3445567888888877764     234455667778888887753 332 111121 1    257888888777

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).

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

Probab=96.09  E-value=0.0019  Score=60.97  Aligned_cols=50  Identities=24%  Similarity=0.239  Sum_probs=37.8

Q ss_pred             eCCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHH
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFA  323 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~  323 (348)
                      ..+++++..++|+.|+|++|.++++|+ ++..|..|+.|+|++ +.+..+..
T Consensus       308 ih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~-Nsi~~l~e  358 (873)
T KOG4194|consen  308 IHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSH-NSIDHLAE  358 (873)
T ss_pred             eecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccc-cchHHHHh
Confidence            456778888899999999999988864 566677777777777 56666654

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=96.06  E-value=0.0033  Score=62.83  Aligned_cols=58  Identities=19%  Similarity=0.123  Sum_probs=46.7

Q ss_pred             CCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCC
Q 043181          282 KILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~  343 (348)
                      .+|+.|++++|.++.+|..   +.+|+.|++++ +++..||.+++++++|+.|++++|+..+
T Consensus       402 s~L~~LdLS~N~LssIP~l---~~~L~~L~Ls~-NqLt~LP~sl~~L~~L~~LdLs~N~Ls~  459 (788)
T PRK15387        402 SELKELMVSGNRLTSLPML---PSGLLSLSVYR-NQLTRLPESLIHLSSETTVNLEGNPLSE  459 (788)
T ss_pred             cCCCEEEccCCcCCCCCcc---hhhhhhhhhcc-CcccccChHHhhccCCCeEECCCCCCCc
Confidence            4677888888888877753   34677888988 6889999999999999999999995443

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

Probab=95.99  E-value=0.0038  Score=58.10  Aligned_cols=69  Identities=29%  Similarity=0.441  Sum_probs=61.5

Q ss_pred             cccCCCCccEEecCCCCCccCchhhhccC-CCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESVCKLH-NLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~~~l~-~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+..+..+..|++.++.++++|+....+. +|+.|++++ +.+..+|..++.+++|+.|++.+| .+..+|.
T Consensus       111 ~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~-N~i~~l~~~~~~l~~L~~L~l~~N-~l~~l~~  180 (394)
T COG4886         111 ELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSD-NKIESLPSPLRNLPNLKNLDLSFN-DLSDLPK  180 (394)
T ss_pred             hhhcccceeEEecCCcccccCccccccchhhcccccccc-cchhhhhhhhhccccccccccCCc-hhhhhhh
Confidence            34555789999999999999999999985 999999998 899999988999999999999999 7777764

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=95.92  E-value=0.0093  Score=45.91  Aligned_cols=53  Identities=17%  Similarity=0.169  Sum_probs=39.6

Q ss_pred             CCCcHHHHHHHHhcchhhhc---CCCeeEEEEcCCCCCHHHHHHHHHHhccccccC
Q 043181            2 GGVGKTTLAQLLCNNVKVKN---RFHLETWVYLFEDFDVFRITKTMLQSISTEAVR   54 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~---~F~~~~wv~~~~~~~~~~l~~~il~~l~~~~~~   54 (348)
                      +|+||||+++++.+......   .-...+|+......+...+...++..++.....
T Consensus        13 ~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~   68 (131)
T PF13401_consen   13 PGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS   68 (131)
T ss_dssp             TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS
T ss_pred             CCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc
Confidence            69999999999998432110   024567998877778999999999999876555

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

Probab=95.84  E-value=0.0066  Score=54.53  Aligned_cols=66  Identities=21%  Similarity=0.198  Sum_probs=49.4

Q ss_pred             CccccCCCCccEEecCCCCCc-----cCchhhhccCCCCEeeccCCCc----cchhHHHhcccccCcEeeccCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVE-----TSPESVCKLHNLETLKLQNCNR----LQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~-----~lp~~~~~l~~L~~L~l~~c~~----l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      +..+..+.+|+.|++++|.++     .++..+..+++|+.|++++|.-    ...++..+.++++|++|++++|.
T Consensus       158 ~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~  232 (319)
T cd00116         158 AKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNN  232 (319)
T ss_pred             HHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCc
Confidence            344566778999999999876     3455666778999999998642    23455667788899999999983

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).

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

Probab=95.84  E-value=0.0015  Score=50.06  Aligned_cols=55  Identities=25%  Similarity=0.314  Sum_probs=25.6

Q ss_pred             ccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          284 LRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       284 L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      +..|++++|.++.+|+.+..++.|+.|+++. +++...|.-|..|.+|..|+..++
T Consensus        79 ~t~lNl~~neisdvPeE~Aam~aLr~lNl~~-N~l~~~p~vi~~L~~l~~Lds~~n  133 (177)
T KOG4579|consen   79 ATTLNLANNEISDVPEELAAMPALRSLNLRF-NPLNAEPRVIAPLIKLDMLDSPEN  133 (177)
T ss_pred             hhhhhcchhhhhhchHHHhhhHHhhhccccc-CccccchHHHHHHHhHHHhcCCCC
Confidence            3444444444444444444444444444444 344444444444444444444444

>PRK15386 type III secretion protein GogB; Provisional

Probab=95.76  E-value=0.0063  Score=55.98  Aligned_cols=11  Identities=45%  Similarity=0.893  Sum_probs=4.9

Q ss_pred             CCCEeeccCCC
Q 043181          306 NLETLKLQNCN  316 (348)
Q Consensus       306 ~L~~L~l~~c~  316 (348)
                      +|++|++.+|.
T Consensus       157 SLk~L~Is~c~  167 (426)
T PRK15386        157 SLKTLSLTGCS  167 (426)
T ss_pred             cccEEEecCCC
Confidence            34444444443

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

Probab=95.70  E-value=0.0014  Score=58.92  Aligned_cols=65  Identities=26%  Similarity=0.341  Sum_probs=51.0

Q ss_pred             CCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFV  338 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~  338 (348)
                      .|..|+.+++|+.|||++|.|+.| |..+.-|.+|..|-+-+.++++++|.+ ++.|.+|+.|.++-
T Consensus        83 P~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNa  149 (498)
T KOG4237|consen   83 PPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNA  149 (498)
T ss_pred             ChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcCh
Confidence            456789999999999999999975 778888999988888777889999964 55555555554443

>PRK06893 DNA replication initiation factor; Validated

Probab=95.54  E-value=0.069  Score=45.71  Aligned_cols=41  Identities=12%  Similarity=0.208  Sum_probs=26.3

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLAS  109 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal  109 (348)
                      ++++++.++++.+.+....- ..+   .+...-+++++.|-.-++
T Consensus       160 ~pd~e~~~~iL~~~a~~~~l-~l~---~~v~~~L~~~~~~d~r~l  200 (229)
T PRK06893        160 DLTDEQKIIVLQRNAYQRGI-ELS---DEVANFLLKRLDRDMHTL  200 (229)
T ss_pred             CCCHHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHhccCCHHHH
Confidence            78888888888888764432 122   355666777776655443

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

Probab=95.38  E-value=0.021  Score=54.17  Aligned_cols=61  Identities=26%  Similarity=0.272  Sum_probs=34.3

Q ss_pred             ccCCCCccEEecCCCCCccCc-hhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSP-ESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp-~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~  339 (348)
                      ++.=.++++|+|++|+|+.+- ..+..+.+|.+|.|+. +.+..||.- +.+|++|+.|+|..|
T Consensus       169 fp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsr-NrittLp~r~Fk~L~~L~~LdLnrN  231 (873)
T KOG4194|consen  169 FPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSR-NRITTLPQRSFKRLPKLESLDLNRN  231 (873)
T ss_pred             CCCCCCceEEeeccccccccccccccccchheeeeccc-CcccccCHHHhhhcchhhhhhcccc
Confidence            444455666666666665542 3445555666666665 556666553 334666666666555

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

Probab=95.33  E-value=0.0084  Score=56.25  Aligned_cols=64  Identities=20%  Similarity=0.287  Sum_probs=47.1

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      +..+.+|++|++++|.|+.+.. +..++.|+.|++.+ +.+..++. +..+.+|+.+++++| .+..+
T Consensus       114 l~~~~~L~~L~ls~N~I~~i~~-l~~l~~L~~L~l~~-N~i~~~~~-~~~l~~L~~l~l~~n-~i~~i  177 (414)
T KOG0531|consen  114 LSSLVNLQVLDLSFNKITKLEG-LSTLTLLKELNLSG-NLISDISG-LESLKSLKLLDLSYN-RIVDI  177 (414)
T ss_pred             hhhhhcchheeccccccccccc-hhhccchhhheecc-CcchhccC-CccchhhhcccCCcc-hhhhh
Confidence            6678888888888888887744 77777788888887 67777764 666778888888777 44433

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=95.32  E-value=0.017  Score=53.78  Aligned_cols=41  Identities=20%  Similarity=0.156  Sum_probs=32.2

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHH
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRIT   41 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~   41 (348)
                      ++|+||||+|+++++.......|+.+.||.++...+....+
T Consensus       202 ppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI  242 (459)
T PRK11331        202 PPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFI  242 (459)
T ss_pred             CCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHh
Confidence            58999999999999854444567788899998887755554

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

Probab=94.93  E-value=0.012  Score=53.15  Aligned_cols=65  Identities=22%  Similarity=0.276  Sum_probs=48.6

Q ss_pred             cccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCC
Q 043181          277 EIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~  343 (348)
                      .|..|++|+.++|++|.++.+ +.++..+.+++.|.|.. +++..+... +..+..|+.|+|++| .+.
T Consensus       269 cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~-N~l~~v~~~~f~~ls~L~tL~L~~N-~it  335 (498)
T KOG4237|consen  269 CFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTR-NKLEFVSSGMFQGLSGLKTLSLYDN-QIT  335 (498)
T ss_pred             HHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCc-chHHHHHHHhhhccccceeeeecCC-eeE
Confidence            367889999999999998876 45667777778777777 677777664 456777788888777 443

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=94.85  E-value=0.069  Score=48.53  Aligned_cols=20  Identities=45%  Similarity=0.707  Sum_probs=16.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF   23 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F   23 (348)
                      +|+||||||+.+..  .....|
T Consensus        57 PG~GKTTlA~liA~--~~~~~f   76 (436)
T COG2256          57 PGTGKTTLARLIAG--TTNAAF   76 (436)
T ss_pred             CCCCHHHHHHHHHH--hhCCce
Confidence            69999999999998  555544

>PRK07261 topology modulation protein; Provisional

Probab=94.79  E-value=0.047  Score=44.42  Aligned_cols=29  Identities=24%  Similarity=0.313  Sum_probs=19.0

Q ss_pred             CCCCcHHHHHHHHhcchhh-hcCCCeeEEE
Q 043181            1 MGGVGKTTLAQLLCNNVKV-KNRFHLETWV   29 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~-~~~F~~~~wv   29 (348)
                      ++|+||||||+++.....+ .-+.|...|-
T Consensus         8 ~~GsGKSTla~~l~~~~~~~~i~~D~~~~~   37 (171)
T PRK07261          8 YSGSGKSTLARKLSQHYNCPVLHLDTLHFQ   37 (171)
T ss_pred             CCCCCHHHHHHHHHHHhCCCeEecCCEEec
Confidence            4799999999999863222 1234555554

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

Probab=94.65  E-value=0.02  Score=27.03  Aligned_cols=16  Identities=31%  Similarity=0.553  Sum_probs=5.9

Q ss_pred             CccEEecCCCCCccCc
Q 043181          283 ILRYLNFSDAQVETSP  298 (348)
Q Consensus       283 ~L~~l~l~~~~~~~lp  298 (348)
                      +|+.|++++|+++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            3455555555544443

...

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

Probab=94.52  E-value=0.026  Score=48.12  Aligned_cols=38  Identities=32%  Similarity=0.472  Sum_probs=18.9

Q ss_pred             ccCCCCccEEecCCCCCc---cCchhhhccCCCCEeeccCCC
Q 043181          278 IGDLKILRYLNFSDAQVE---TSPESVCKLHNLETLKLQNCN  316 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~---~lp~~~~~l~~L~~L~l~~c~  316 (348)
                      ...+++|+++++++|++.   ++++ +.++.+|..|++.+|.
T Consensus        87 ~e~~P~l~~l~ls~Nki~~lstl~p-l~~l~nL~~Ldl~n~~  127 (260)
T KOG2739|consen   87 AEKAPNLKVLNLSGNKIKDLSTLRP-LKELENLKSLDLFNCS  127 (260)
T ss_pred             hhhCCceeEEeecCCccccccccch-hhhhcchhhhhcccCC
Confidence            334455555555555543   2222 4445555555555543

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=94.51  E-value=0.31  Score=42.44  Aligned_cols=28  Identities=11%  Similarity=0.287  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHcCCCchhHHHHHhhhcCC
Q 043181           92 KEIGEKIVKKCNGLPLASEILGGLLHGK  119 (348)
Q Consensus        92 ~~~~~~i~~~c~GlPLal~~ig~~L~~~  119 (348)
                      ..+.+-+++..+|=|.++..++..+...
T Consensus       263 ~k~L~~li~~f~GgPVGl~tia~~lge~  290 (332)
T COG2255         263 RKYLRALIEQFGGGPVGLDTIAAALGED  290 (332)
T ss_pred             HHHHHHHHHHhCCCCccHHHHHHHhcCc
Confidence            4677778888899999999999998876

>PRK13342 recombination factor protein RarA; Reviewed

Probab=94.48  E-value=0.16  Score=47.68  Aligned_cols=44  Identities=11%  Similarity=0.159  Sum_probs=29.3

Q ss_pred             CCChHHHHHHHHHhhcCCC-CC-CcChhHHHHHHHHHHHcCCCchhHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRT-DF-NMHMHLKEIGEKIVKKCNGLPLASEI  111 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~-~~-~~~~~~~~~~~~i~~~c~GlPLal~~  111 (348)
                      +++.++.+.++.+...... .. ...   .+..+.+++.|+|-+..+..
T Consensus       150 ~ls~e~i~~lL~~~l~~~~~~~i~i~---~~al~~l~~~s~Gd~R~aln  195 (413)
T PRK13342        150 PLSEEDIEQLLKRALEDKERGLVELD---DEALDALARLANGDARRALN  195 (413)
T ss_pred             CCCHHHHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHhCCCCHHHHHH
Confidence            8899999999988653211 11 111   35677889999998866543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.40  E-value=0.035  Score=43.87  Aligned_cols=28  Identities=29%  Similarity=0.570  Sum_probs=20.2

Q ss_pred             CCCCcHHHHHHHHhcchhhhcC-CCeeEEEE
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNR-FHLETWVY   30 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~-F~~~~wv~   30 (348)
                      |.|+||||+++.+.+  .++.. |...-+++
T Consensus        13 ~PGvGKtTl~~ki~e--~L~~~g~kvgGf~t   41 (179)
T COG1618          13 RPGVGKTTLVLKIAE--KLREKGYKVGGFIT   41 (179)
T ss_pred             CCCccHHHHHHHHHH--HHHhcCceeeeEEe
Confidence            689999999999999  44443 65444443

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=94.39  E-value=0.023  Score=43.13  Aligned_cols=16  Identities=44%  Similarity=0.546  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .+|+||||+|+.+.+.
T Consensus         7 ~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    7 PPGSGKSTLAKELAER   22 (121)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999883

...

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=94.24  E-value=0.34  Score=42.76  Aligned_cols=54  Identities=13%  Similarity=0.105  Sum_probs=39.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCC------eeEEEEcCCCCCHHHHHHHHHHhccccccCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFH------LETWVYLFEDFDVFRITKTMLQSISTEAVRDND   57 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~------~~~wv~~~~~~~~~~l~~~il~~l~~~~~~~~~   57 (348)
                      +|+|||+++++..+.  .-..++      .++.|......+...+...|+..++.+....+.
T Consensus        70 snnGKT~Ii~rF~~~--hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~  129 (302)
T PF05621_consen   70 SNNGKTMIIERFRRL--HPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDR  129 (302)
T ss_pred             CCCcHHHHHHHHHHH--CCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCC
Confidence            589999999998863  111221      366677788889999999999999877544433

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

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

Probab=94.19  E-value=0.013  Score=56.98  Aligned_cols=61  Identities=30%  Similarity=0.301  Sum_probs=43.3

Q ss_pred             cccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+..+++|++|||++|.+..+|.--..--+|+.|.+++ +-+++|- +|.+|.+|+.||++.|
T Consensus       204 ~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrn-N~l~tL~-gie~LksL~~LDlsyN  264 (1096)
T KOG1859|consen  204 NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRN-NALTTLR-GIENLKSLYGLDLSYN  264 (1096)
T ss_pred             HHHhcccccccccccchhccccccchhhhhheeeeecc-cHHHhhh-hHHhhhhhhccchhHh
Confidence            56677788888888888877765211122477788877 6677775 4888888888888776

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

Probab=94.11  E-value=0.018  Score=54.11  Aligned_cols=61  Identities=26%  Similarity=0.343  Sum_probs=42.6

Q ss_pred             cccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~  339 (348)
                      .+..+..|+.|++++|.+..++. +..+.+|+.+++++ +.+..++.. ..++.+|+.+.+.+|
T Consensus       135 ~l~~l~~L~~L~l~~N~i~~~~~-~~~l~~L~~l~l~~-n~i~~ie~~~~~~~~~l~~l~l~~n  196 (414)
T KOG0531|consen  135 GLSTLTLLKELNLSGNLISDISG-LESLKSLKLLDLSY-NRIVDIENDELSELISLEELDLGGN  196 (414)
T ss_pred             chhhccchhhheeccCcchhccC-CccchhhhcccCCc-chhhhhhhhhhhhccchHHHhccCC
Confidence            45566667788888887776644 55577788888877 566666653 466777777777777

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

Probab=94.02  E-value=0.0082  Score=58.29  Aligned_cols=62  Identities=21%  Similarity=0.218  Sum_probs=37.9

Q ss_pred             CccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~  339 (348)
                      ..++.-++.|+.|+|+.|++...- .+..+++|++|||+. +.+..+|. ++..+ .|+.|++++|
T Consensus       180 D~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsy-N~L~~vp~l~~~gc-~L~~L~lrnN  242 (1096)
T KOG1859|consen  180 DESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSY-NCLRHVPQLSMVGC-KLQLLNLRNN  242 (1096)
T ss_pred             HHHHHHHHHhhhhccchhhhhhhH-HHHhccccccccccc-chhccccccchhhh-hheeeeeccc
Confidence            344455566777777777766654 566667777777776 66666665 12222 3666766666

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=93.85  E-value=0.27  Score=44.19  Aligned_cols=15  Identities=47%  Similarity=0.656  Sum_probs=14.0

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|.|||-||++|+|.
T Consensus       194 PGTGKTLLAkAVA~~  208 (406)
T COG1222         194 PGTGKTLLAKAVANQ  208 (406)
T ss_pred             CCCcHHHHHHHHHhc
Confidence            699999999999994

>PRK05541 adenylylsulfate kinase; Provisional

Probab=93.78  E-value=0.058  Score=44.02  Aligned_cols=27  Identities=30%  Similarity=0.572  Sum_probs=21.6

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEE
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWV   29 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv   29 (348)
                      +.|.||||+|+.+++  +....+...+++
T Consensus        15 ~~GsGKst~a~~l~~--~l~~~~~~~~~~   41 (176)
T PRK05541         15 LAGSGKTTIAKALYE--RLKLKYSNVIYL   41 (176)
T ss_pred             CCCCCHHHHHHHHHH--HHHHcCCcEEEE
Confidence            469999999999999  666666666666

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=93.60  E-value=0.11  Score=47.87  Aligned_cols=47  Identities=11%  Similarity=0.221  Sum_probs=33.6

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCC------eeEEEEcCCCCCHHHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFH------LETWVYLFEDFDVFRITKTMLQSIS   49 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~------~~~wv~~~~~~~~~~l~~~il~~l~   49 (348)
                      .+|+||||+++++++.  +....+      ..+|++.....+...++..++.++.
T Consensus        48 ~~GtGKT~l~~~~~~~--l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~  100 (365)
T TIGR02928        48 KTGTGKTAVTKYVMKE--LEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLR  100 (365)
T ss_pred             CCCCCHHHHHHHHHHH--HHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3699999999999984  322211      3556776666677788888888874

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=93.53  E-value=0.041  Score=42.01  Aligned_cols=16  Identities=44%  Similarity=0.644  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ..|+||||+|+.+.+.
T Consensus         6 ~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    6 IPGSGKTTIAKELAER   21 (129)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4699999999999983

...

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=93.25  E-value=0.088  Score=41.89  Aligned_cols=27  Identities=33%  Similarity=0.310  Sum_probs=19.1

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEE
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWV   29 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv   29 (348)
                      .+|.||||||+++.+  ++...-..+.++
T Consensus        10 lsGsGKtTlA~~L~~--~L~~~g~~~~~L   36 (156)
T PF01583_consen   10 LSGSGKTTLARALER--RLFARGIKVYLL   36 (156)
T ss_dssp             STTSSHHHHHHHHHH--HHHHTTS-EEEE
T ss_pred             CCCCCHHHHHHHHHH--HHHHcCCcEEEe
Confidence            479999999999999  554443344444

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>smart00370 LRR Leucine-rich repeats, outliers

Probab=93.19  E-value=0.085  Score=27.84  Aligned_cols=21  Identities=33%  Similarity=0.487  Sum_probs=14.2

Q ss_pred             CCCccEEecCCCCCccCchhh
Q 043181          281 LKILRYLNFSDAQVETSPESV  301 (348)
Q Consensus       281 l~~L~~l~l~~~~~~~lp~~~  301 (348)
                      |.+|++|++++|.++.+|+..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00370        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356777777777777776653

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

Probab=93.19  E-value=0.085  Score=27.84  Aligned_cols=21  Identities=33%  Similarity=0.487  Sum_probs=14.2

Q ss_pred             CCCccEEecCCCCCccCchhh
Q 043181          281 LKILRYLNFSDAQVETSPESV  301 (348)
Q Consensus       281 l~~L~~l~l~~~~~~~lp~~~  301 (348)
                      |.+|++|++++|.++.+|+..
T Consensus         1 L~~L~~L~L~~N~l~~lp~~~   21 (26)
T smart00369        1 LPNLRELDLSNNQLSSLPPGA   21 (26)
T ss_pred             CCCCCEEECCCCcCCcCCHHH
Confidence            356777777777777776653

>PF05729 NACHT: NACHT domain

Probab=93.17  E-value=0.1  Score=41.71  Aligned_cols=33  Identities=24%  Similarity=0.318  Sum_probs=22.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcC----CCeeEEEEcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR----FHLETWVYLFED   34 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~~~~~   34 (348)
                      +|+||||+++.++........    +...+|+.....
T Consensus         9 ~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~   45 (166)
T PF05729_consen    9 PGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDI   45 (166)
T ss_pred             CCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhh
Confidence            799999999999985433333    334556655443

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=92.97  E-value=0.2  Score=48.43  Aligned_cols=15  Identities=53%  Similarity=0.709  Sum_probs=13.9

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|.||||+|+++.+.
T Consensus       477 PGC~KT~lAkalAne  491 (693)
T KOG0730|consen  477 PGCGKTLLAKALANE  491 (693)
T ss_pred             CCcchHHHHHHHhhh
Confidence            799999999999993

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=92.83  E-value=0.14  Score=39.62  Aligned_cols=31  Identities=26%  Similarity=0.196  Sum_probs=20.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFED   34 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~   34 (348)
                      +|+||||+|+++++.  ....-...+++.....
T Consensus        28 ~G~GKT~l~~~i~~~--~~~~~~~v~~~~~~~~   58 (151)
T cd00009          28 PGTGKTTLARAIANE--LFRPGAPFLYLNASDL   58 (151)
T ss_pred             CCCCHHHHHHHHHHH--hhcCCCCeEEEehhhh
Confidence            699999999999994  3222234556655443

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PRK08727 hypothetical protein; Validated

Probab=92.81  E-value=0.38  Score=41.27  Aligned_cols=29  Identities=31%  Similarity=0.429  Sum_probs=20.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      .|+|||.||+++++  ..........|+++.
T Consensus        50 ~G~GKThL~~a~~~--~~~~~~~~~~y~~~~   78 (233)
T PRK08727         50 AGTGKTHLALALCA--AAEQAGRSSAYLPLQ   78 (233)
T ss_pred             CCCCHHHHHHHHHH--HHHHcCCcEEEEeHH
Confidence            69999999999988  333333345566543

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=92.72  E-value=0.14  Score=44.71  Aligned_cols=43  Identities=23%  Similarity=0.200  Sum_probs=29.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCe-eEEEEcCCCC-CHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHL-ETWVYLFEDF-DVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~-~~~~l~~~il~   46 (348)
                      +|+||||||+++++  .++.+|+. ++++.+++.. ++.++.+++..
T Consensus        78 ~G~GKTtLa~~i~~--~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~  122 (274)
T cd01133          78 AGVGKTVLIMELIN--NIAKAHGGYSVFAGVGERTREGNDLYHEMKE  122 (274)
T ss_pred             CCCChhHHHHHHHH--HHHhcCCCEEEEEEeccCcHHHHHHHHHHHh
Confidence            59999999999999  56555654 4556666654 45555555543

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=92.69  E-value=0.16  Score=41.47  Aligned_cols=19  Identities=32%  Similarity=0.529  Sum_probs=15.7

Q ss_pred             CCCcHHHHHHHHhcchhhh
Q 043181            2 GGVGKTTLAQLLCNNVKVK   20 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~   20 (348)
                      +|+|||||.++++......
T Consensus        33 ~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen   33 SGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhc
Confidence            7999999999999944444

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=92.33  E-value=0.15  Score=40.63  Aligned_cols=38  Identities=32%  Similarity=0.386  Sum_probs=28.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc-----CCCCCHHHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL-----FEDFDVFRITKTMLQSI   48 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~-----~~~~~~~~l~~~il~~l   48 (348)
                      -|.||||+|.++.+      .|..  |-.+     ..+ ....+.+.+++.+
T Consensus         8 iGCGKTTva~aL~~------LFg~--wgHvQnDnI~~k-~~~~f~~~~l~~L   50 (168)
T PF08303_consen    8 IGCGKTTVALALSN------LFGE--WGHVQNDNITGK-RKPKFIKAVLELL   50 (168)
T ss_pred             CCcCHHHHHHHHHH------HcCC--CCccccCCCCCC-CHHHHHHHHHHHH
Confidence            39999999999987      4554  5543     333 5777888888888

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=92.25  E-value=0.043  Score=41.84  Aligned_cols=20  Identities=50%  Similarity=0.655  Sum_probs=14.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF   23 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F   23 (348)
                      .|+||||+|+++..  .+...|
T Consensus         8 PG~GKT~la~~lA~--~~~~~f   27 (131)
T PF07726_consen    8 PGVGKTTLAKALAR--SLGLSF   27 (131)
T ss_dssp             --HHHHHHHHHHHH--HTT--E
T ss_pred             CccHHHHHHHHHHH--HcCCce
Confidence            59999999999999  666666

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=92.02  E-value=0.19  Score=45.15  Aligned_cols=37  Identities=27%  Similarity=0.156  Sum_probs=23.5

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHH
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFR   39 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~   39 (348)
                      .|||||||+|.+..-  ........++-|+...-.+...
T Consensus        10 KGGVGKTT~aaA~A~--~lA~~g~kvLlvStDPAhsL~d   46 (322)
T COG0003          10 KGGVGKTTIAAATAV--KLAESGKKVLLVSTDPAHSLGD   46 (322)
T ss_pred             CCcccHHHHHHHHHH--HHHHcCCcEEEEEeCCCCchHh
Confidence            489999999999666  4444444566665544444333

>PF13173 AAA_14: AAA domain

Probab=91.92  E-value=0.13  Score=39.43  Aligned_cols=31  Identities=26%  Similarity=0.265  Sum_probs=21.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDF   35 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~   35 (348)
                      .|+|||||+++++++..   .-...+++++.+..
T Consensus        11 R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~   41 (128)
T PF13173_consen   11 RGVGKTTLLKQLAKDLL---PPENILYINFDDPR   41 (128)
T ss_pred             CCCCHHHHHHHHHHHhc---ccccceeeccCCHH
Confidence            59999999999998432   22456677665543

>PTZ00301 uridine kinase; Provisional

Probab=91.82  E-value=0.16  Score=42.83  Aligned_cols=20  Identities=20%  Similarity=0.429  Sum_probs=15.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF   23 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F   23 (348)
                      +|.||||||+.+.+  ++...+
T Consensus        12 SgSGKTTla~~l~~--~l~~~~   31 (210)
T PTZ00301         12 SGSGKSSLSTNIVS--ELMAHC   31 (210)
T ss_pred             CcCCHHHHHHHHHH--HHHhhc
Confidence            69999999999987  554443

>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=91.77  E-value=0.18  Score=43.89  Aligned_cols=30  Identities=37%  Similarity=0.306  Sum_probs=21.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC-CeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF-HLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~~~~   33 (348)
                      ||+||||+|-.+..  ..+.+- ..++.|+...
T Consensus        12 GGvGKTT~a~nLa~--~La~~~~~kVLliDlDp   42 (259)
T COG1192          12 GGVGKTTTAVNLAA--ALAKRGGKKVLLIDLDP   42 (259)
T ss_pred             CCccHHHHHHHHHH--HHHHhcCCcEEEEeCCC
Confidence            89999999999998  444222 3466665543

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=91.73  E-value=0.29  Score=41.12  Aligned_cols=38  Identities=16%  Similarity=0.181  Sum_probs=27.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITK   42 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~   42 (348)
                      +|.|||++|.++..  .....-..++|++.-. ++..++.+
T Consensus        21 ~GsGKT~l~~~~~~--~~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        21 PGSGKTNICMILAV--NAARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCCCHHHHHHHHHH--HHHhCCCeEEEEECCC-CCHHHHHH
Confidence            69999999999887  3434446788998865 56555444

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK08084 DNA replication initiation factor; Provisional

Probab=91.64  E-value=1  Score=38.60  Aligned_cols=15  Identities=27%  Similarity=0.669  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||+||+++++.
T Consensus        54 ~G~GKThLl~a~~~~   68 (235)
T PRK08084         54 EGAGRSHLLHAACAE   68 (235)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999983

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

Probab=91.57  E-value=0.031  Score=51.12  Aligned_cols=66  Identities=17%  Similarity=0.166  Sum_probs=48.1

Q ss_pred             cCCCCccEEecCCCCCccCc--hhhhccCCCCEeeccCCCccchh--HHH-----hcccccCcEeeccCCCCCCCCC
Q 043181          279 GDLKILRYLNFSDAQVETSP--ESVCKLHNLETLKLQNCNRLQKL--FAD-----IGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp--~~~~~l~~L~~L~l~~c~~l~~l--p~~-----i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .-+..|+.|||++|.+...|  ...+.++.|..|+++. +.+.++  |+.     -..+++|++|++..| ++...|
T Consensus       243 ~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~-tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N-~I~~w~  317 (505)
T KOG3207|consen  243 KILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSS-TGIASIAEPDVESLDKTHTFPKLEYLNISEN-NIRDWR  317 (505)
T ss_pred             hhhhHHhhccccCCcccccccccccccccchhhhhccc-cCcchhcCCCccchhhhcccccceeeecccC-cccccc
Confidence            45677899999999877666  6688899999999987 455444  321     246788999999988 554443

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

Probab=91.54  E-value=0.13  Score=47.15  Aligned_cols=63  Identities=25%  Similarity=0.417  Sum_probs=47.1

Q ss_pred             ccccCCCCccEEecCCCCCccC--chh-----hhccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETS--PES-----VCKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~l--p~~-----~~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~  339 (348)
                      ...+.++.|..|+++.|++.++  |+.     ...++.|++|++.. +++.+.+.  .+..+.+|++|....+
T Consensus       265 ~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~-N~I~~w~sl~~l~~l~nlk~l~~~~n  336 (505)
T KOG3207|consen  265 YKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISE-NNIRDWRSLNHLRTLENLKHLRITLN  336 (505)
T ss_pred             cccccccchhhhhccccCcchhcCCCccchhhhcccccceeeeccc-Cccccccccchhhccchhhhhhcccc
Confidence            4578899999999999998864  554     35689999999998 67766664  3455667777776555

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=91.49  E-value=0.23  Score=40.96  Aligned_cols=31  Identities=35%  Similarity=0.365  Sum_probs=20.1

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCC
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFE   33 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~   33 (348)
                      -||+||||+|..+......++  ..++.++...
T Consensus         7 kGG~GKTt~a~~la~~la~~g--~~VlliD~D~   37 (195)
T PF01656_consen    7 KGGVGKTTIAANLAQALARKG--KKVLLIDLDP   37 (195)
T ss_dssp             STTSSHHHHHHHHHHHHHHTT--S-EEEEEEST
T ss_pred             CCCccHHHHHHHHHhcccccc--ccccccccCc
Confidence            389999999999998433322  2455555533

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=91.37  E-value=0.16  Score=38.81  Aligned_cols=30  Identities=27%  Similarity=0.176  Sum_probs=19.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~   33 (348)
                      +|+||||+|+.+..  .........++++...
T Consensus        11 ~G~GKTtl~~~l~~--~~~~~~~~~~~~~~~~   40 (148)
T smart00382       11 PGSGKTTLARALAR--ELGPPGGGVIYIDGED   40 (148)
T ss_pred             CCCcHHHHHHHHHh--ccCCCCCCEEEECCEE
Confidence            69999999999998  4433322345554433

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=91.36  E-value=0.22  Score=44.59  Aligned_cols=29  Identities=34%  Similarity=0.369  Sum_probs=18.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      |||||||+|.+..-...-+++  .++-++..
T Consensus        10 GGVGKTT~aaA~A~~~A~~G~--rtLlvS~D   38 (305)
T PF02374_consen   10 GGVGKTTVAAALALALARRGK--RTLLVSTD   38 (305)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTS---EEEEESS
T ss_pred             CCCCcHHHHHHHHHHHhhCCC--CeeEeecC
Confidence            899999999887764333332  34444443

...

>PRK03839 putative kinase; Provisional

Probab=91.26  E-value=0.11  Score=42.51  Aligned_cols=16  Identities=50%  Similarity=0.775  Sum_probs=14.5

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      |.|.||||+|+++++.
T Consensus         8 ~pGsGKsT~~~~La~~   23 (180)
T PRK03839          8 TPGVGKTTVSKLLAEK   23 (180)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            5799999999999983

>PHA02518 ParA-like protein; Provisional

Probab=91.20  E-value=0.33  Score=40.63  Aligned_cols=33  Identities=33%  Similarity=0.240  Sum_probs=20.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFD   36 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~   36 (348)
                      ||+||||+|..+..  ..+..=..++-++.....+
T Consensus        10 GGvGKTT~a~~la~--~la~~g~~vlliD~D~q~~   42 (211)
T PHA02518         10 GGAGKTTVATNLAS--WLHADGHKVLLVDLDPQGS   42 (211)
T ss_pred             CCCCHHHHHHHHHH--HHHhCCCeEEEEeCCCCCC
Confidence            89999999999877  3332212345555544333

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=91.10  E-value=0.11  Score=39.83  Aligned_cols=15  Identities=53%  Similarity=0.674  Sum_probs=13.8

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+||||+|+.+++.
T Consensus         7 ~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    7 PGTGKTTLARALAQY   21 (132)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCeeHHHHHHHhh
Confidence            699999999999994

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

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

Probab=91.10  E-value=0.13  Score=43.96  Aligned_cols=65  Identities=29%  Similarity=0.345  Sum_probs=50.1

Q ss_pred             CccccCCCCccEEecCCC--CCc-cCchhhhccCCCCEeeccCCCccc---hhHHHhcccccCcEeeccCCCC
Q 043181          275 PSEIGDLKILRYLNFSDA--QVE-TSPESVCKLHNLETLKLQNCNRLQ---KLFADIGNLNNLHHLDNFVTFS  341 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~--~~~-~lp~~~~~l~~L~~L~l~~c~~l~---~lp~~i~~l~~L~~L~l~~~~~  341 (348)
                      -..+..|++|++|.++.|  ++. .++...-++++|+++++++ +.+.   .+++ ...+.+|..|++.+|+.
T Consensus        58 ~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~-Nki~~lstl~p-l~~l~nL~~Ldl~n~~~  128 (260)
T KOG2739|consen   58 LTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSG-NKIKDLSTLRP-LKELENLKSLDLFNCSV  128 (260)
T ss_pred             cccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecC-Cccccccccch-hhhhcchhhhhcccCCc
Confidence            345678899999999999  544 5777677789999999998 5544   3433 56777889999999954

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=90.98  E-value=0.13  Score=37.67  Aligned_cols=15  Identities=60%  Similarity=0.709  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||+|..+...
T Consensus         9 gG~Gkst~~~~la~~   23 (104)
T cd02042           9 GGVGKTTTAVNLAAA   23 (104)
T ss_pred             CCcCHHHHHHHHHHH
Confidence            899999999998873

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=90.96  E-value=0.19  Score=42.67  Aligned_cols=28  Identities=29%  Similarity=0.446  Sum_probs=19.4

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      .|+||||||+++++.  ........++++.
T Consensus        47 ~G~GKT~la~~~~~~--~~~~~~~~~~i~~   74 (226)
T TIGR03420        47 SGSGKSHLLQAACAA--AEERGKSAIYLPL   74 (226)
T ss_pred             CCCCHHHHHHHHHHH--HHhcCCcEEEEeH
Confidence            699999999999983  3333334455554

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

>PRK09087 hypothetical protein; Validated

Probab=90.96  E-value=0.71  Score=39.39  Aligned_cols=42  Identities=12%  Similarity=0.030  Sum_probs=27.5

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASE  110 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~  110 (348)
                      ++++++-.+++.+.+-... ...+   +++..-|++++.|..-++.
T Consensus       152 ~pd~e~~~~iL~~~~~~~~-~~l~---~ev~~~La~~~~r~~~~l~  193 (226)
T PRK09087        152 EPDDALLSQVIFKLFADRQ-LYVD---PHVVYYLVSRMERSLFAAQ  193 (226)
T ss_pred             CCCHHHHHHHHHHHHHHcC-CCCC---HHHHHHHHHHhhhhHHHHH
Confidence            8888888888888774332 2222   3566667777777665554

>PRK08233 hypothetical protein; Provisional

Probab=90.82  E-value=0.14  Score=41.79  Aligned_cols=15  Identities=47%  Similarity=0.643  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|.||||+|+.+..
T Consensus        11 ~~GsGKtTla~~L~~   25 (182)
T PRK08233         11 VSGGGKTTLTERLTH   25 (182)
T ss_pred             CCCCCHHHHHHHHHh
Confidence            369999999999987

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=90.81  E-value=0.43  Score=40.43  Aligned_cols=36  Identities=25%  Similarity=0.229  Sum_probs=22.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFR   39 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~   39 (348)
                      ||.||||++..++.  ....+=..+.-++...+..+.+
T Consensus        11 GGaGKTT~~~~LAs--~la~~G~~V~lIDaDpn~pl~~   46 (231)
T PF07015_consen   11 GGAGKTTAAMALAS--ELAARGARVALIDADPNQPLAK   46 (231)
T ss_pred             CCCcHHHHHHHHHH--HHHHCCCeEEEEeCCCCCcHHH
Confidence            89999999999998  4433222444454444434333

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

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

Probab=90.76  E-value=0.37  Score=39.81  Aligned_cols=63  Identities=24%  Similarity=0.267  Sum_probs=47.8

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhc-cCCCCEeeccCCCccchhHH--HhcccccCcEeeccCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCK-LHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~-l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~  339 (348)
                      ..+..+..|.+|.+.+|.|+.+-+.+.. +++|..|.|.+ +.+++|-+  .+..+++|++|.+=+|
T Consensus        58 ~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~Ltn-Nsi~~l~dl~pLa~~p~L~~Ltll~N  123 (233)
T KOG1644|consen   58 DNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTN-NSIQELGDLDPLASCPKLEYLTLLGN  123 (233)
T ss_pred             ccCCCccccceEEecCCcceeeccchhhhccccceEEecC-cchhhhhhcchhccCCccceeeecCC
Confidence            3567888999999999999988776754 56799999988 67776643  2556777888877666

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=90.69  E-value=0.13  Score=42.74  Aligned_cols=17  Identities=53%  Similarity=0.718  Sum_probs=14.4

Q ss_pred             CCCCcHHHHHHHHhcch
Q 043181            1 MGGVGKTTLAQLLCNNV   17 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~   17 (348)
                      |=|+||||||+.+.++.
T Consensus        12 ~IG~GKSTLa~~La~~l   28 (216)
T COG1428          12 MIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccccCHHHHHHHHHHHh
Confidence            45999999999999943

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=90.56  E-value=0.16  Score=39.54  Aligned_cols=15  Identities=47%  Similarity=0.587  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+..
T Consensus         7 ~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    7 PPGSGKSTLAKRLAK   21 (143)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999986

...

>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]

Probab=90.54  E-value=0.46  Score=39.83  Aligned_cols=43  Identities=23%  Similarity=0.163  Sum_probs=28.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      =|.||||.++.++.  ..+...-.++|..-.....+.+..++++.
T Consensus        12 DGaGKTT~~~~L~~--~l~~~g~~v~~trEP~~~~ige~iR~~ll   54 (208)
T COG0125          12 DGAGKTTQAELLKE--RLEERGIKVVLTREPGGTPIGEKIRELLL   54 (208)
T ss_pred             CCCCHHHHHHHHHH--HHHHcCCeEEEEeCCCCChHHHHHHHHHc
Confidence            39999999999999  55555445666655555455555555443

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=90.53  E-value=0.13  Score=38.10  Aligned_cols=14  Identities=50%  Similarity=0.769  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+|||++|+.+..
T Consensus         7 ~G~GKS~l~~~l~~   20 (107)
T PF00910_consen    7 PGIGKSTLAKELAK   20 (107)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999887

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PRK00625 shikimate kinase; Provisional

Probab=90.49  E-value=0.16  Score=41.41  Aligned_cols=15  Identities=33%  Similarity=0.565  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |.|+||||+|+.+.+
T Consensus         8 ~pGsGKTT~~k~La~   22 (173)
T PRK00625          8 LPTVGKTSFGKALAK   22 (173)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            689999999999988

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=90.28  E-value=0.18  Score=34.00  Aligned_cols=15  Identities=40%  Similarity=0.656  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|.||||+|+++.+.
T Consensus         8 ~gsGKst~~~~l~~~   22 (69)
T cd02019           8 SGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999884

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=90.27  E-value=0.64  Score=42.34  Aligned_cols=20  Identities=35%  Similarity=0.549  Sum_probs=16.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF   23 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F   23 (348)
                      .|.|||-||++||.  +....|
T Consensus       254 PGTGKTlLAKAvAT--Ec~tTF  273 (491)
T KOG0738|consen  254 PGTGKTLLAKAVAT--ECGTTF  273 (491)
T ss_pred             CCCcHHHHHHHHHH--hhcCeE
Confidence            69999999999998  554444

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=90.26  E-value=0.16  Score=38.71  Aligned_cols=14  Identities=43%  Similarity=0.601  Sum_probs=12.8

Q ss_pred             CCcHHHHHHHHhcc
Q 043181            3 GVGKTTLAQLLCNN   16 (348)
Q Consensus         3 GiGKTtLa~~v~~~   16 (348)
                      |.||||++|.+...
T Consensus        25 GaGKTtf~r~l~~~   38 (123)
T PF02367_consen   25 GAGKTTFVRGLARA   38 (123)
T ss_dssp             TSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            89999999999883

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

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

Probab=90.25  E-value=0.14  Score=51.15  Aligned_cols=64  Identities=28%  Similarity=0.378  Sum_probs=50.0

Q ss_pred             CCcccc-CCCCccEEecCCCCCc--cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          274 LPSEIG-DLKILRYLNFSDAQVE--TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       274 ~p~~~~-~l~~L~~l~l~~~~~~--~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      +|..++ .+|.|+.|.+++-.+.  ++-.-..+++||..||+++ +++..+ .+|++|++|+.|.+.+=
T Consensus       139 W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~-TnI~nl-~GIS~LknLq~L~mrnL  205 (699)
T KOG3665|consen  139 WPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISG-TNISNL-SGISRLKNLQVLSMRNL  205 (699)
T ss_pred             HHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCC-CCccCc-HHHhccccHHHHhccCC
Confidence            344444 4689999999986653  3334456789999999999 789999 68999999999988754

>COG3899 Predicted ATPase [General function prediction only]

Probab=90.25  E-value=3.4  Score=42.58  Aligned_cols=139  Identities=18%  Similarity=0.089  Sum_probs=83.6

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCC------CCchhHHHHhcC-------
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGK------VDCIDWEDVLNS-------  131 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~------~~~~~w~~~l~~-------  131 (348)
                      ||+..|.-.+..........     ...+..+.|+++..|.|+-+.-+-..+...      .+...|+.-...       
T Consensus       218 PL~~~d~~~lV~~~l~~~~~-----~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~  292 (849)
T COG3899         218 PLSRADTNQLVAATLGCTKL-----LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATT  292 (849)
T ss_pred             cCchhhHHHHHHHHhCCccc-----ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhh
Confidence            66666666666665422111     135789999999999999988777777664      223334322111       


Q ss_pred             ------cccccccCchHHHHHHhHhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeC-
Q 043181          132 ------KAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSS-  204 (348)
Q Consensus       132 ------~~~s~~~L~~~~k~~fl~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~-  204 (348)
                            +..-.+.||...|......||+...+  +...|...+-.           .....+...++.|.+..++..++ 
T Consensus       293 ~~vv~~l~~rl~kL~~~t~~Vl~~AA~iG~~F--~l~~La~l~~~-----------~~~~~a~~l~~al~e~lI~~~~~~  359 (849)
T COG3899         293 DAVVEFLAARLQKLPGTTREVLKAAACIGNRF--DLDTLAALAED-----------SPALEAAALLDALQEGLILPLSET  359 (849)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCccC--CHHHHHHHHhh-----------chHHHHHHHHHHhHhhceeccccc
Confidence                  12445678888888888888886544  44554444311           23455666677777777665321 


Q ss_pred             ----CCcceE---eechHHHHHHH
Q 043181          205 ----SNVSRF---AMHDFINDLAH  221 (348)
Q Consensus       205 ----~~~~~~---~mh~li~~~~~  221 (348)
                          .+....   -.|+.+++.+-
T Consensus       360 yr~~~~~~~~~Y~F~H~~vqqaaY  383 (849)
T COG3899         360 YRFGSNVDIATYKFLHDRVQQAAY  383 (849)
T ss_pred             cccccccchhhHHhhHHHHHHHHh
Confidence                111122   57899888886

>PRK06762 hypothetical protein; Provisional

Probab=90.13  E-value=0.17  Score=40.78  Aligned_cols=15  Identities=47%  Similarity=0.583  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        10 ~~GsGKST~A~~L~~   24 (166)
T PRK06762         10 NSGSGKTTIAKQLQE   24 (166)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=90.09  E-value=0.55  Score=36.44  Aligned_cols=35  Identities=26%  Similarity=0.172  Sum_probs=22.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRIT   41 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~   41 (348)
                      .|+|||+||+.++.  ....   ...-+.++...+..++.
T Consensus         8 ~G~GKt~l~~~la~--~~~~---~~~~i~~~~~~~~~dl~   42 (139)
T PF07728_consen    8 PGTGKTTLARELAA--LLGR---PVIRINCSSDTTEEDLI   42 (139)
T ss_dssp             SSSSHHHHHHHHHH--HHTC---EEEEEE-TTTSTHHHHH
T ss_pred             CCCCHHHHHHHHHH--Hhhc---ceEEEEeccccccccce
Confidence            69999999999998  4421   23345566666655544

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=90.08  E-value=0.46  Score=40.64  Aligned_cols=41  Identities=22%  Similarity=0.199  Sum_probs=27.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcC----CCeeEEEEcCCCCCHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR----FHLETWVYLFEDFDVFRITK   42 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~~~~~~~~~~l~~   42 (348)
                      +|.||||||.+++-.......    -..++|++....++..++.+
T Consensus        28 ~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123          28 FGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             CCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            699999999999753222221    25788998877776554433

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=90.06  E-value=0.16  Score=44.44  Aligned_cols=31  Identities=26%  Similarity=0.225  Sum_probs=19.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFED   34 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~   34 (348)
                      |||||||+|..+..-...+++  .++-|+....
T Consensus        10 GGvGKTT~~~nLA~~La~~G~--kVlliD~Dpq   40 (270)
T cd02040          10 GGIGKSTTTQNLSAALAEMGK--KVMIVGCDPK   40 (270)
T ss_pred             CcCCHHHHHHHHHHHHHhCCC--eEEEEEcCCC
Confidence            899999999998883332221  3455555433

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=90.03  E-value=0.25  Score=44.48  Aligned_cols=29  Identities=38%  Similarity=0.472  Sum_probs=20.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFED   34 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~   34 (348)
                      +|+||||||+.+.+...-.+    ..||..+-.
T Consensus       171 pG~GKTtlArlia~tsk~~S----yrfvelSAt  199 (554)
T KOG2028|consen  171 PGTGKTTLARLIASTSKKHS----YRFVELSAT  199 (554)
T ss_pred             CCCchHHHHHHHHhhcCCCc----eEEEEEecc
Confidence            69999999999999554443    345655433

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=89.84  E-value=0.17  Score=41.95  Aligned_cols=14  Identities=57%  Similarity=0.755  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||+|+++..
T Consensus         8 sgSGKTTla~~L~~   21 (194)
T PF00485_consen    8 SGSGKTTLAKRLAQ   21 (194)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999998

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=89.79  E-value=0.18  Score=40.79  Aligned_cols=15  Identities=53%  Similarity=0.696  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||+|..+...
T Consensus         9 gG~GKTt~a~~LA~~   23 (169)
T cd02037           9 GGVGKSTVAVNLALA   23 (169)
T ss_pred             CcCChhHHHHHHHHH
Confidence            899999999998883

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>PRK12608 transcription termination factor Rho; Provisional

Probab=89.79  E-value=0.82  Score=41.85  Aligned_cols=46  Identities=17%  Similarity=0.182  Sum_probs=32.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC-Ce-eEEEEcCCC-CCHHHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF-HL-ETWVYLFED-FDVFRITKTMLQSIS   49 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F-~~-~~wv~~~~~-~~~~~l~~~il~~l~   49 (348)
                      .|+|||||++.+.+  .+...- +. .+|+.+++. .++.++.+.+...+.
T Consensus       142 pGtGKTTLl~~la~--~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vv  190 (380)
T PRK12608        142 PRAGKTVLLQQIAA--AVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVY  190 (380)
T ss_pred             CCCCHHHHHHHHHH--HHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEE
Confidence            59999999999998  444333 33 367777655 467778888776444

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=89.75  E-value=0.19  Score=40.85  Aligned_cols=16  Identities=50%  Similarity=0.590  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .||+||||+|..+...
T Consensus         8 kgG~GKtt~a~~la~~   23 (179)
T cd02036           8 KGGVGKTTTTANLGTA   23 (179)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3899999999999883

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>PRK05642 DNA replication initiation factor; Validated

Probab=89.75  E-value=1.4  Score=37.82  Aligned_cols=14  Identities=43%  Similarity=0.767  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||.||+++++
T Consensus        54 ~G~GKTHLl~a~~~   67 (234)
T PRK05642         54 DGVGRSHLLQAACL   67 (234)
T ss_pred             CCCCHHHHHHHHHH
Confidence            59999999999987

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=89.53  E-value=0.22  Score=40.19  Aligned_cols=16  Identities=38%  Similarity=0.625  Sum_probs=14.4

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .+|.||||||.+++..
T Consensus        31 LSGsGKSTiA~ale~~   46 (197)
T COG0529          31 LSGSGKSTIANALEEK   46 (197)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999993

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=89.49  E-value=0.32  Score=41.98  Aligned_cols=32  Identities=31%  Similarity=0.313  Sum_probs=23.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDF   35 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~   35 (348)
                      ||+||||+|..++-  .....|...+.-+..+.+
T Consensus        11 GGtGKTTva~~la~--~l~~~~~~~l~DcDVe~P   42 (284)
T COG1149          11 GGTGKTTVAANLAV--LLGDKYKLVLADCDVEAP   42 (284)
T ss_pred             CCCChhhHHHHHHH--HhccccceEEEecCCCCC
Confidence            89999999999988  677777655554443333

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

Probab=89.47  E-value=0.27  Score=25.82  Aligned_cols=17  Identities=41%  Similarity=0.378  Sum_probs=10.1

Q ss_pred             ccCcEeeccCCCCCCCCC
Q 043181          329 NNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       329 ~~L~~L~l~~~~~l~~lp  346 (348)
                      ++|+.|++++| .++.+|
T Consensus         2 ~~L~~L~L~~N-~l~~lp   18 (26)
T smart00369        2 PNLRELDLSNN-QLSSLP   18 (26)
T ss_pred             CCCCEEECCCC-cCCcCC
Confidence            45666666666 555555

>smart00370 LRR Leucine-rich repeats, outliers

Probab=89.47  E-value=0.27  Score=25.82  Aligned_cols=17  Identities=41%  Similarity=0.378  Sum_probs=10.1

Q ss_pred             ccCcEeeccCCCCCCCCC
Q 043181          329 NNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       329 ~~L~~L~l~~~~~l~~lp  346 (348)
                      ++|+.|++++| .++.+|
T Consensus         2 ~~L~~L~L~~N-~l~~lp   18 (26)
T smart00370        2 PNLRELDLSNN-QLSSLP   18 (26)
T ss_pred             CCCCEEECCCC-cCCcCC
Confidence            45666666666 555555

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=89.47  E-value=0.59  Score=40.00  Aligned_cols=16  Identities=50%  Similarity=0.771  Sum_probs=14.0

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      ||+||||+|..+..-.
T Consensus        11 GGvGKTT~a~nLA~~l   26 (231)
T PRK13849         11 GGAGKTTALMGLCAAL   26 (231)
T ss_pred             CCccHHHHHHHHHHHH
Confidence            8999999999988743

>PRK13947 shikimate kinase; Provisional

Probab=89.41  E-value=0.21  Score=40.43  Aligned_cols=15  Identities=33%  Similarity=0.532  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |+|+||||+|+.+.+
T Consensus         9 ~~GsGKst~a~~La~   23 (171)
T PRK13947          9 FMGTGKTTVGKRVAT   23 (171)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999988

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=89.41  E-value=0.59  Score=39.72  Aligned_cols=36  Identities=17%  Similarity=0.127  Sum_probs=25.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRI   40 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l   40 (348)
                      +|.||||+|.++..+  ....-..++|++.- .++..++
T Consensus        32 ~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         32 PGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHH
Confidence            699999999999874  33334568898876 5555443

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=89.40  E-value=0.5  Score=40.00  Aligned_cols=34  Identities=38%  Similarity=0.435  Sum_probs=19.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFD   36 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~   36 (348)
                      ||+||||+|..+....--++-|+ ++-|+...+++
T Consensus         9 GG~GKTtiaalll~~l~~~~~~~-VLvVDaDpd~n   42 (255)
T COG3640           9 GGVGKTTIAALLLKRLLSKGGYN-VLVVDADPDSN   42 (255)
T ss_pred             CCccHHHHHHHHHHHHHhcCCce-EEEEeCCCCCC
Confidence            89999999999555222222232 33344444544

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=89.33  E-value=0.2  Score=43.91  Aligned_cols=14  Identities=43%  Similarity=0.691  Sum_probs=12.6

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      |||||||+|..+..
T Consensus         9 GGVGKTT~~~nLA~   22 (268)
T TIGR01281         9 GGIGKSTTSSNLSV   22 (268)
T ss_pred             CcCcHHHHHHHHHH
Confidence            89999998888776

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=89.29  E-value=0.21  Score=43.68  Aligned_cols=15  Identities=33%  Similarity=0.640  Sum_probs=13.7

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||+|..+...
T Consensus        11 GGvGKTT~a~nLA~~   25 (264)
T PRK13231         11 GGIGKSTTVSNMAAA   25 (264)
T ss_pred             CCCcHHHHHHHHhcc
Confidence            899999999999883

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=89.20  E-value=0.23  Score=39.17  Aligned_cols=15  Identities=33%  Similarity=0.654  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+.+
T Consensus         7 ~~GsGKST~a~~l~~   21 (150)
T cd02021           7 VSGSGKSTVGKALAE   21 (150)
T ss_pred             CCCCCHHHHHHHHHh
Confidence            479999999999988

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK06217 hypothetical protein; Validated

Probab=89.12  E-value=0.22  Score=40.91  Aligned_cols=16  Identities=38%  Similarity=0.538  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ++|.||||+|+++...
T Consensus         9 ~~GsGKSTla~~L~~~   24 (183)
T PRK06217          9 ASGSGTTTLGAALAER   24 (183)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3799999999999984

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=89.09  E-value=0.22  Score=42.66  Aligned_cols=15  Identities=60%  Similarity=0.742  Sum_probs=13.7

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||++..+..-
T Consensus        11 GGvG~TTltAnLA~a   25 (243)
T PF06564_consen   11 GGVGKTTLTANLAWA   25 (243)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999999883

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK10037 cell division protein; Provisional

Probab=89.08  E-value=0.22  Score=43.23  Aligned_cols=15  Identities=40%  Similarity=0.691  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||+|..+..-
T Consensus        11 GGvGKTT~a~nLA~~   25 (250)
T PRK10037         11 GGVGTTSITAALAWS   25 (250)
T ss_pred             CCccHHHHHHHHHHH
Confidence            899999999998873

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.07  E-value=0.26  Score=43.15  Aligned_cols=61  Identities=23%  Similarity=0.280  Sum_probs=41.2

Q ss_pred             ccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCcc--chhHHHhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRL--QKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l--~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ..+|++|++|+++.|++..-..+. -.+.+|++|-|.| +.+  ..+-+....++.++.|.++.|
T Consensus        93 le~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNg-T~L~w~~~~s~l~~lP~vtelHmS~N  156 (418)
T KOG2982|consen   93 LEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNG-TGLSWTQSTSSLDDLPKVTELHMSDN  156 (418)
T ss_pred             HhcCccceEeeccCCcCCCccccCcccccceEEEEEcC-CCCChhhhhhhhhcchhhhhhhhccc
Confidence            468899999999999865322222 3567888888877 433  333345566777777777766

>PTZ00202 tuzin; Provisional

Probab=89.03  E-value=0.75  Score=43.01  Aligned_cols=43  Identities=9%  Similarity=0.170  Sum_probs=31.1

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHHhcccc
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTE   51 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~~l~~~   51 (348)
                      ++|+|||||++.+...  ..  +.  .++....  ...++++.++.+++..
T Consensus       294 ~~G~GKTTLlR~~~~~--l~--~~--qL~vNpr--g~eElLr~LL~ALGV~  336 (550)
T PTZ00202        294 FRGCGKSSLCRSAVRK--EG--MP--AVFVDVR--GTEDTLRSVVKALGVP  336 (550)
T ss_pred             CCCCCHHHHHHHHHhc--CC--ce--EEEECCC--CHHHHHHHHHHHcCCC
Confidence            4799999999999973  32  21  3333333  6799999999999963

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.02  E-value=2.6  Score=43.05  Aligned_cols=44  Identities=14%  Similarity=0.071  Sum_probs=27.7

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCch-hHHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPL-ASEIL  112 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPL-al~~i  112 (348)
                      +++.++....+...+-.... ...   .+....|++.++|.|- |+..+
T Consensus       177 pLs~eEI~~~L~~il~~EgI-~~e---deAL~lIA~~S~Gd~R~ALnLL  221 (944)
T PRK14949        177 SLTQDEIGTQLNHILTQEQL-PFE---AEALTLLAKAANGSMRDALSLT  221 (944)
T ss_pred             CCCHHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHcCCCHHHHHHHH
Confidence            78888888877776533221 111   3567788999999774 44433

>PRK00131 aroK shikimate kinase; Reviewed

Probab=89.01  E-value=0.23  Score=40.14  Aligned_cols=15  Identities=40%  Similarity=0.727  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+..
T Consensus        12 ~~GsGKstla~~La~   26 (175)
T PRK00131         12 FMGAGKSTIGRLLAK   26 (175)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999998

>PRK10646 ADP-binding protein; Provisional

Probab=89.00  E-value=0.21  Score=39.54  Aligned_cols=14  Identities=36%  Similarity=0.539  Sum_probs=12.9

Q ss_pred             CCcHHHHHHHHhcc
Q 043181            3 GVGKTTLAQLLCNN   16 (348)
Q Consensus         3 GiGKTtLa~~v~~~   16 (348)
                      |.||||++|.+.+.
T Consensus        38 GaGKTtf~rgl~~~   51 (153)
T PRK10646         38 GAGKTTFSRGFLQA   51 (153)
T ss_pred             CCCHHHHHHHHHHH
Confidence            89999999999883

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=88.99  E-value=0.63  Score=39.50  Aligned_cols=38  Identities=21%  Similarity=0.098  Sum_probs=26.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC------CeeEEEEcCCCCCHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF------HLETWVYLFEDFDVFRIT   41 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F------~~~~wv~~~~~~~~~~l~   41 (348)
                      +|.||||||.++.-..  ...-      ..++|++....++..++.
T Consensus        28 ~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          28 FGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH
Confidence            6999999999987632  2222      457888887777765544

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=88.96  E-value=0.22  Score=43.88  Aligned_cols=14  Identities=43%  Similarity=0.667  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      |||||||.|..+..
T Consensus        11 GGVGKTT~a~nLA~   24 (275)
T PRK13233         11 GGIGKSTTTQNTAA   24 (275)
T ss_pred             CCCcHHHHHHHHHH
Confidence            89999999998887

>PHA00729 NTP-binding motif containing protein

Probab=88.90  E-value=0.22  Score=42.14  Aligned_cols=15  Identities=40%  Similarity=0.510  Sum_probs=13.7

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|+||||||.++.+.
T Consensus        26 pGvGKT~LA~aLa~~   40 (226)
T PHA00729         26 QGSGKTTYALKVARD   40 (226)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999983

>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2

Probab=88.89  E-value=0.64  Score=38.17  Aligned_cols=42  Identities=21%  Similarity=0.267  Sum_probs=25.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC-CCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF-EDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~l~~~il~   46 (348)
                      -|.||||+++.+++  ..+..--. +.++.. .........++++.
T Consensus         5 DGsGKtT~~~~L~~--~l~~~~~~-~~~~~~~~~~~~g~~ir~~l~   47 (186)
T PF02223_consen    5 DGSGKTTQIRLLAE--ALKEKGYK-VIITFPPGSTPIGELIRELLR   47 (186)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTEE-EEEEESSTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH--HHHHcCCc-ccccCCCCCChHHHHHHHHHh
Confidence            49999999999999  55444323 333332 22334556666665

7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=88.88  E-value=0.35  Score=39.11  Aligned_cols=15  Identities=47%  Similarity=0.621  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||||++.+.+.
T Consensus         8 pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    8 PGVGKTTLLKKVIEE   22 (168)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999983

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=88.78  E-value=0.24  Score=43.51  Aligned_cols=15  Identities=40%  Similarity=0.680  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      |||||||+|..+..-
T Consensus        11 GGVGKTT~~~nLA~~   25 (270)
T PRK13185         11 GGIGKSTTSSNLSAA   25 (270)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999988873

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=88.71  E-value=0.24  Score=43.77  Aligned_cols=16  Identities=31%  Similarity=0.584  Sum_probs=13.8

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      |||||||+|..+..-.
T Consensus        10 GGVGKTT~a~nLA~~L   25 (279)
T PRK13230         10 GGIGKSTTVCNIAAAL   25 (279)
T ss_pred             CCCcHHHHHHHHHHHH
Confidence            8999999999988743

>PRK05480 uridine/cytidine kinase; Provisional

Probab=88.71  E-value=0.23  Score=41.73  Aligned_cols=14  Identities=43%  Similarity=0.646  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||||+.++.
T Consensus        15 sGsGKTTl~~~l~~   28 (209)
T PRK05480         15 SGSGKTTVASTIYE   28 (209)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=88.70  E-value=0.24  Score=42.79  Aligned_cols=14  Identities=50%  Similarity=0.667  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||+|..++.
T Consensus        10 GGvGKTt~a~~LA~   23 (251)
T TIGR01969        10 GGTGKTTITANLGV   23 (251)
T ss_pred             CCCcHHHHHHHHHH
Confidence            89999999999887

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=88.64  E-value=0.48  Score=37.50  Aligned_cols=32  Identities=31%  Similarity=0.324  Sum_probs=22.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDF   35 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~   35 (348)
                      +|.||||+|+.+..  .....-..++|++.....
T Consensus         8 ~G~GKT~l~~~i~~--~~~~~~~~v~~~~~e~~~   39 (165)
T cd01120           8 TGSGKTTLALQLAL--NIATKGGKVVYVDIEEEI   39 (165)
T ss_pred             CCCCHHHHHHHHHH--HHHhcCCEEEEEECCcch
Confidence            69999999999988  443333456777765543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=88.64  E-value=0.24  Score=38.30  Aligned_cols=16  Identities=50%  Similarity=0.520  Sum_probs=13.8

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      -|.||||+++.+.+..
T Consensus        31 lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        31 LGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCCCHHHHHHHHHHHc
Confidence            4999999999999843

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.62  E-value=0.095  Score=45.37  Aligned_cols=62  Identities=19%  Similarity=0.180  Sum_probs=39.5

Q ss_pred             cCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCCCC
Q 043181          279 GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTFSL  342 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~~l  342 (348)
                      .+|+.|+.|.|+-|+|+++-+ +..+++|+.|-|+. +.+..|.+  -+.+|++|+.|.|..|+-.
T Consensus        38 ~kMp~lEVLsLSvNkIssL~p-l~rCtrLkElYLRk-N~I~sldEL~YLknlpsLr~LWL~ENPCc  101 (388)
T KOG2123|consen   38 EKMPLLEVLSLSVNKISSLAP-LQRCTRLKELYLRK-NCIESLDELEYLKNLPSLRTLWLDENPCC  101 (388)
T ss_pred             HhcccceeEEeeccccccchh-HHHHHHHHHHHHHh-cccccHHHHHHHhcCchhhhHhhccCCcc
Confidence            456677777777777777643 66667777777765 45555543  2456667777777666433

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=88.58  E-value=0.25  Score=43.51  Aligned_cols=14  Identities=50%  Similarity=0.769  Sum_probs=12.9

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      |||||||+|..+..
T Consensus        10 GGVGKTT~a~nLA~   23 (273)
T PRK13232         10 GGIGKSTTTQNLTA   23 (273)
T ss_pred             CCCcHHHHHHHHHH
Confidence            89999999998887

>TIGR01287 nifH nitrogenase iron protein

Probab=88.57  E-value=0.25  Score=43.55  Aligned_cols=17  Identities=35%  Similarity=0.651  Sum_probs=14.2

Q ss_pred             CCCcHHHHHHHHhcchh
Q 043181            2 GGVGKTTLAQLLCNNVK   18 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~   18 (348)
                      |||||||+|..+..-..
T Consensus         9 GGVGKTT~a~nLA~~La   25 (275)
T TIGR01287         9 GGIGKSTTTQNIAAALA   25 (275)
T ss_pred             CcCcHHHHHHHHHHHHH
Confidence            89999999999887433

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=88.57  E-value=2.1  Score=42.23  Aligned_cols=41  Identities=2%  Similarity=-0.078  Sum_probs=23.9

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLAS  109 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal  109 (348)
                      .++.++..+.+.+.+...+. ...   .+..+.|++.++|.|...
T Consensus       182 ~ls~eei~~~L~~Il~~Egi-~~d---~eAL~~IA~~A~Gs~RdA  222 (700)
T PRK12323        182 QMPPGHIVSHLDAILGEEGI-AHE---VNALRLLAQAAQGSMRDA  222 (700)
T ss_pred             CCChHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHcCCCHHHH
Confidence            56777777766665432221 111   234567888888888543

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=88.56  E-value=0.28  Score=39.59  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=16.7

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCC
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRF   23 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F   23 (348)
                      |.|.||||+.+++++  +..-.|
T Consensus        10 ~mGaGKSTIGr~LAk--~L~~~F   30 (172)
T COG0703          10 FMGAGKSTIGRALAK--ALNLPF   30 (172)
T ss_pred             CCCCCHhHHHHHHHH--HcCCCc
Confidence            579999999999998  554444

>cd01394 radB RadB

Probab=88.56  E-value=0.77  Score=38.78  Aligned_cols=33  Identities=18%  Similarity=0.089  Sum_probs=22.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFD   36 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~   36 (348)
                      +|+||||+|.++..  .....=..++|++....++
T Consensus        28 ~GsGKT~l~~~~a~--~~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          28 PGTGKTNIAIQLAV--ETAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCCCHHHHHHHHHH--HHHhcCCeEEEEECCCCCH
Confidence            69999999999987  3333323567887654443

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=88.45  E-value=0.26  Score=40.12  Aligned_cols=15  Identities=27%  Similarity=0.406  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+..
T Consensus        10 ~~gsGKst~a~~l~~   24 (175)
T cd00227          10 GSSAGKSSIARALQS   24 (175)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=88.32  E-value=0.26  Score=43.41  Aligned_cols=14  Identities=43%  Similarity=0.655  Sum_probs=12.8

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      |||||||+|..+..
T Consensus        10 GGVGKTT~~~nLA~   23 (274)
T PRK13235         10 GGIGKSTTTQNTVA   23 (274)
T ss_pred             CCccHHHHHHHHHH
Confidence            89999999998877

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=88.27  E-value=0.55  Score=40.42  Aligned_cols=20  Identities=30%  Similarity=0.373  Sum_probs=16.3

Q ss_pred             CCCCcHHHHHHHHhcchhhh
Q 043181            1 MGGVGKTTLAQLLCNNVKVK   20 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~   20 (348)
                      ++|.||||+++.+.+.....
T Consensus         4 paGSGKTT~~~~~~~~~~~~   23 (238)
T PF03029_consen    4 PAGSGKTTFCKGLSEWLESN   23 (238)
T ss_dssp             STTSSHHHHHHHHHHHHTTT
T ss_pred             CCCCCHHHHHHHHHHHHHhc
Confidence            68999999999999954433

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK12377 putative replication protein; Provisional

Probab=88.22  E-value=0.43  Score=41.29  Aligned_cols=29  Identities=24%  Similarity=0.198  Sum_probs=21.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      .|+|||+||.++.+  .+......++++++.
T Consensus       110 ~GtGKThLa~AIa~--~l~~~g~~v~~i~~~  138 (248)
T PRK12377        110 PGTGKNHLAAAIGN--RLLAKGRSVIVVTVP  138 (248)
T ss_pred             CCCCHHHHHHHHHH--HHHHcCCCeEEEEHH
Confidence            59999999999999  444443445677654

>PRK07952 DNA replication protein DnaC; Validated

Probab=88.17  E-value=0.33  Score=41.90  Aligned_cols=28  Identities=29%  Similarity=0.379  Sum_probs=19.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      +|+|||+||.++.+.  +...-..++++++
T Consensus       108 ~GtGKThLa~aia~~--l~~~g~~v~~it~  135 (244)
T PRK07952        108 PGTGKNHLAAAICNE--LLLRGKSVLIITV  135 (244)
T ss_pred             CCCCHHHHHHHHHHH--HHhcCCeEEEEEH
Confidence            699999999999994  4333234566644

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=88.16  E-value=1  Score=37.16  Aligned_cols=15  Identities=53%  Similarity=0.804  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      -|+||||+++.+.+.
T Consensus         9 ~GsGKtT~~~~L~~~   23 (200)
T cd01672           9 DGAGKTTLIELLAER   23 (200)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            599999999999984

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>TIGR00235 udk uridine kinase

Probab=88.15  E-value=0.28  Score=41.23  Aligned_cols=14  Identities=43%  Similarity=0.658  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||||+++..
T Consensus        15 sGsGKSTl~~~l~~   28 (207)
T TIGR00235        15 SGSGKTTVARKIYE   28 (207)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999987

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=88.08  E-value=2.5  Score=41.80  Aligned_cols=39  Identities=8%  Similarity=-0.058  Sum_probs=22.2

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCch
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPL  107 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPL  107 (348)
                      +++.++....+.+.+-+.+.. ..   .+....|++.++|-+-
T Consensus       176 pLs~eEI~k~L~~Il~kEgI~-id---~eAL~~IA~~S~GdLR  214 (702)
T PRK14960        176 PLAVDEITKHLGAILEKEQIA-AD---QDAIWQIAESAQGSLR  214 (702)
T ss_pred             CCCHHHHHHHHHHHHHHcCCC-CC---HHHHHHHHHHcCCCHH
Confidence            567777766666655332211 11   2456667778887663

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=88.07  E-value=13  Score=38.32  Aligned_cols=48  Identities=10%  Similarity=0.034  Sum_probs=26.4

Q ss_pred             CCCCcHHHHHHHHhcchhh---hcCCC--eeEEEEcCCCCCHHHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCNNVKV---KNRFH--LETWVYLFEDFDVFRITKTMLQSI   48 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~---~~~F~--~~~wv~~~~~~~~~~l~~~il~~l   48 (348)
                      ..|.|||+.++.|.+..+-   +...+  ..++|+-..-.+...+...|..++
T Consensus       789 ~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qqL  841 (1164)
T PTZ00112        789 MPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQL  841 (1164)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHHH
Confidence            3699999999999874321   11222  234554333334444444444444

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=88.05  E-value=0.3  Score=39.89  Aligned_cols=14  Identities=50%  Similarity=0.790  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||+|..+.-
T Consensus         9 gG~GKSt~a~nLA~   22 (179)
T cd03110           9 GGTGKTTVTAALAA   22 (179)
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999999987

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

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

Probab=88.04  E-value=0.12  Score=45.14  Aligned_cols=63  Identities=17%  Similarity=0.265  Sum_probs=41.8

Q ss_pred             ccCCCCccEEecCCCCCcc-CchhhhccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCC
Q 043181          278 IGDLKILRYLNFSDAQVET-SPESVCKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~-lp~~~~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~  340 (348)
                      ++++.+|+-|.+.++.+.. +-..+.+-.+|+.|+++.|+.+.+.-.  -+.++++|..|++++|.
T Consensus       206 Ls~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~  271 (419)
T KOG2120|consen  206 LSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCF  271 (419)
T ss_pred             HHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhh
Confidence            3455667777777776653 555666667777777777777665543  25567777777777773

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=88.00  E-value=0.94  Score=39.51  Aligned_cols=39  Identities=18%  Similarity=0.059  Sum_probs=29.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTM   44 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~i   44 (348)
                      +|.|||++|.++..  +.......++||+..+.  ...+.+..
T Consensus        32 pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~--~~~l~~~~   70 (260)
T COG0467          32 PGTGKTIFALQFLY--EGAREGEPVLYVSTEES--PEELLENA   70 (260)
T ss_pred             CCCcHHHHHHHHHH--HHHhcCCcEEEEEecCC--HHHHHHHH
Confidence            69999999999888  55556788999998874  33444433

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=87.77  E-value=0.29  Score=40.32  Aligned_cols=14  Identities=57%  Similarity=0.641  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||+|+.+..
T Consensus         8 sgsGKTtla~~l~~   21 (187)
T cd02024           8 TNSGKTTLAKLLQR   21 (187)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999988

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>PRK06547 hypothetical protein; Provisional

Probab=87.77  E-value=0.31  Score=39.62  Aligned_cols=16  Identities=50%  Similarity=0.580  Sum_probs=13.9

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .+|.||||+|+.+.+.
T Consensus        23 ~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         23 RSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3799999999999873

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=87.66  E-value=0.32  Score=39.67  Aligned_cols=16  Identities=31%  Similarity=0.362  Sum_probs=13.9

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ++|+||||+|+++...
T Consensus         9 ~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         9 PSGAGKDTLLDYARAR   24 (179)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999873

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=87.50  E-value=3.9  Score=36.74  Aligned_cols=44  Identities=14%  Similarity=0.310  Sum_probs=26.0

Q ss_pred             CCCcHHHHHHHHhcch----hhhcCCCeeEEEEc-CCCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNV----KVKNRFHLETWVYL-FEDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~----~~~~~F~~~~wv~~-~~~~~~~~l~~~il~   46 (348)
                      .|+||||+|+++++..    ....|.|...|... +....+.+ .+++..
T Consensus        35 ~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~~   83 (313)
T PRK05564         35 DGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNIIE   83 (313)
T ss_pred             CCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHHH
Confidence            5999999999998732    12355666566552 33333333 344444

>PRK06696 uridine kinase; Validated

Probab=87.46  E-value=0.3  Score=41.53  Aligned_cols=14  Identities=43%  Similarity=0.503  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||+|+.+.+
T Consensus        31 sgsGKSTlA~~L~~   44 (223)
T PRK06696         31 TASGKTTFADELAE   44 (223)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=87.40  E-value=0.43  Score=40.07  Aligned_cols=19  Identities=37%  Similarity=0.511  Sum_probs=15.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR   22 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~   22 (348)
                      +|.||||+|+.+++  .+...
T Consensus        17 SgSGKTTva~~l~~--~~~~~   35 (218)
T COG0572          17 SGSGKTTVAKELSE--QLGVE   35 (218)
T ss_pred             CCCCHHHHHHHHHH--HhCcC
Confidence            69999999999998  55433

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=87.38  E-value=0.33  Score=40.92  Aligned_cols=14  Identities=50%  Similarity=0.795  Sum_probs=12.8

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||++..+..
T Consensus         9 GGvGKTt~~~nLA~   22 (212)
T cd02117           9 GGIGKSTTSQNLSA   22 (212)
T ss_pred             CcCcHHHHHHHHHH
Confidence            89999999888887

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=87.30  E-value=0.47  Score=40.39  Aligned_cols=15  Identities=33%  Similarity=0.596  Sum_probs=13.7

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||+||+++++.
T Consensus        51 ~G~GKT~La~ai~~~   65 (227)
T PRK08903         51 AGSGRSHLLQALVAD   65 (227)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            599999999999984

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=87.18  E-value=0.55  Score=34.72  Aligned_cols=19  Identities=47%  Similarity=0.623  Sum_probs=15.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR   22 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~   22 (348)
                      ||+||||+|..+..  .....
T Consensus         9 gg~gkt~~~~~la~--~~~~~   27 (106)
T cd03111           9 GGVGATTLAANLAV--ALAKE   27 (106)
T ss_pred             CCCcHHHHHHHHHH--HHHhc
Confidence            89999999999887  44443

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=87.17  E-value=0.51  Score=38.63  Aligned_cols=14  Identities=57%  Similarity=0.774  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||||+.+..
T Consensus         8 sgsGKttla~~l~~   21 (179)
T cd02028           8 SGSGKTTFAKKLSN   21 (179)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=87.17  E-value=0.38  Score=34.23  Aligned_cols=14  Identities=71%  Similarity=0.923  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||++..+..
T Consensus         8 ~G~Gktt~~~~l~~   21 (99)
T cd01983           8 GGVGKTTLAANLAA   21 (99)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=87.15  E-value=4.3  Score=39.18  Aligned_cols=15  Identities=47%  Similarity=0.789  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+||||+|+.+.+.
T Consensus        47 ~G~GKTt~A~~lAk~   61 (509)
T PRK14958         47 RGVGKTTISRILAKC   61 (509)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            599999999998873

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=87.04  E-value=4.1  Score=39.01  Aligned_cols=14  Identities=50%  Similarity=0.721  Sum_probs=12.5

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+.+.+
T Consensus        44 ~G~GKTT~ArilAk   57 (491)
T PRK14964         44 SGVGKTTCARIISL   57 (491)
T ss_pred             CCccHHHHHHHHHH
Confidence            59999999999876

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=87.03  E-value=0.37  Score=38.62  Aligned_cols=15  Identities=40%  Similarity=0.698  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|.||||+|+.+.+
T Consensus         6 ~~GsGKSTla~~l~~   20 (163)
T TIGR01313         6 VAGSGKSTIASALAH   20 (163)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999988

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=87.03  E-value=0.34  Score=41.17  Aligned_cols=14  Identities=43%  Similarity=0.480  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||+|+.+.+
T Consensus         8 sGSGKTTla~~L~~   21 (220)
T cd02025           8 VAVGKSTTARVLQA   21 (220)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=86.99  E-value=0.69  Score=40.52  Aligned_cols=15  Identities=40%  Similarity=0.638  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      |||||||+|..+..-
T Consensus         9 GGvGKTT~a~nLA~~   23 (267)
T cd02032           9 GGIGKSTTSSNLSVA   23 (267)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999988873

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>PRK08116 hypothetical protein; Validated

Probab=86.93  E-value=0.56  Score=41.14  Aligned_cols=28  Identities=29%  Similarity=0.306  Sum_probs=20.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      .|+|||.||.++++  .+..+--.++++++
T Consensus       123 ~GtGKThLa~aia~--~l~~~~~~v~~~~~  150 (268)
T PRK08116        123 VGTGKTYLAACIAN--ELIEKGVPVIFVNF  150 (268)
T ss_pred             CCCCHHHHHHHHHH--HHHHcCCeEEEEEH
Confidence            59999999999999  44433334566653

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=86.79  E-value=0.36  Score=39.50  Aligned_cols=15  Identities=47%  Similarity=0.685  Sum_probs=13.8

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|.||||+|+.+.+.
T Consensus         9 pGaGK~T~A~~La~~   23 (178)
T COG0563           9 PGAGKSTLAKKLAKK   23 (178)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999984

>PRK00889 adenylylsulfate kinase; Provisional

Probab=86.75  E-value=0.38  Score=39.11  Aligned_cols=16  Identities=44%  Similarity=0.758  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ++|.||||+|+++...
T Consensus        12 ~~GsGKST~a~~la~~   27 (175)
T PRK00889         12 LSGAGKTTIARALAEK   27 (175)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999984

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=86.63  E-value=0.38  Score=41.44  Aligned_cols=29  Identities=38%  Similarity=0.272  Sum_probs=19.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..  ....+=..++.|+..
T Consensus        11 GGvGKTt~a~nla~--~la~~g~~VlliD~D   39 (246)
T TIGR03371        11 GGVGKTTLTANLAS--ALKLLGEPVLAIDLD   39 (246)
T ss_pred             CCccHHHHHHHHHH--HHHhCCCcEEEEeCC
Confidence            89999999999988  333221134555543

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK13976 thymidylate kinase; Provisional

Probab=86.61  E-value=1.1  Score=37.75  Aligned_cols=43  Identities=19%  Similarity=0.194  Sum_probs=24.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCC--eeEEEEcCCCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFH--LETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~--~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      -|.||||+++.+++  ..+....  .+.+..-.......+.+++++.
T Consensus         9 DGsGKsTq~~~L~~--~L~~~~g~~~v~~~~eP~~~~~g~~ir~~l~   53 (209)
T PRK13976          9 DGSGKTTQSRLLAE--YLSDIYGENNVVLTREPGGTSFNELVRGLLL   53 (209)
T ss_pred             CCCCHHHHHHHHHH--HHHHhcCCcceEEeeCCCCCHHHHHHHHHHc
Confidence            49999999999999  4444321  2233333333345555555443

>PRK04040 adenylate kinase; Provisional

Probab=86.57  E-value=0.39  Score=39.67  Aligned_cols=15  Identities=40%  Similarity=0.494  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+++.+.+
T Consensus        10 ~pG~GKtt~~~~l~~   24 (188)
T PRK04040         10 VPGVGKTTVLNKALE   24 (188)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=86.46  E-value=0.4  Score=38.58  Aligned_cols=14  Identities=29%  Similarity=0.548  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||+|+.+..
T Consensus         4 sGsGKSTla~~la~   17 (163)
T PRK11545          4 SGSGKSAVASEVAH   17 (163)
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999988

>PRK13948 shikimate kinase; Provisional

Probab=86.39  E-value=0.4  Score=39.39  Aligned_cols=15  Identities=27%  Similarity=0.401  Sum_probs=13.9

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |.|.||||+++.+.+
T Consensus        18 ~~GsGKSTvg~~La~   32 (182)
T PRK13948         18 FMGTGKSRIGWELSR   32 (182)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999988

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=86.26  E-value=0.4  Score=41.61  Aligned_cols=14  Identities=57%  Similarity=0.715  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||+|..+..
T Consensus        11 GGvGKTt~a~~lA~   24 (261)
T TIGR01968        11 GGVGKTTTTANLGT   24 (261)
T ss_pred             CCccHHHHHHHHHH
Confidence            89999999999888

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>PRK13975 thymidylate kinase; Provisional

Probab=86.26  E-value=0.41  Score=39.62  Aligned_cols=15  Identities=53%  Similarity=0.771  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+.+
T Consensus        10 ~~GsGKtT~~~~L~~   24 (196)
T PRK13975         10 IDGSGKTTQAKLLAE   24 (196)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999999

>PRK07667 uridine kinase; Provisional

Probab=86.14  E-value=0.83  Score=37.89  Aligned_cols=15  Identities=33%  Similarity=0.379  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|.||||+|+.+..
T Consensus        25 ~~gsGKStla~~L~~   39 (193)
T PRK07667         25 LSRSGKTTFVANLKE   39 (193)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999998

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=86.10  E-value=0.43  Score=37.64  Aligned_cols=15  Identities=53%  Similarity=0.787  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+..
T Consensus         7 ~~GsGKstla~~la~   21 (154)
T cd00464           7 MMGAGKTTVGRLLAK   21 (154)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=86.09  E-value=0.41  Score=39.82  Aligned_cols=14  Identities=43%  Similarity=0.632  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||||+.+.+
T Consensus         8 ~GsGKSTl~~~l~~   21 (198)
T cd02023           8 SGSGKTTVAEEIIE   21 (198)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999987

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=86.08  E-value=0.4  Score=41.92  Aligned_cols=14  Identities=50%  Similarity=0.741  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||+|+.+++
T Consensus        51 pGtGKTtlA~~ia~   64 (261)
T TIGR02881        51 PGTGKTTVARILGK   64 (261)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999987

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=86.06  E-value=0.42  Score=42.46  Aligned_cols=15  Identities=33%  Similarity=0.541  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      |||||||.|..+..-
T Consensus         9 GGVGKTTta~nLA~~   23 (290)
T CHL00072          9 GGIGKSTTSCNISIA   23 (290)
T ss_pred             CCCcHHHHHHHHHHH
Confidence            899999999988873

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=86.05  E-value=2.6  Score=42.26  Aligned_cols=43  Identities=5%  Similarity=0.000  Sum_probs=23.3

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCc-hhHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLP-LASEI  111 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlP-Lal~~  111 (348)
                      .++.++..+.+.+.....+. ...   .+..+.|++.++|-. -|+..
T Consensus       177 ~Ls~eeIv~~L~~Il~~EgI-~id---~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        177 QMPAGHIVSHLERILGEERI-AFE---PQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             CcCHHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            56677777666665433221 111   245666777777754 44444

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=86.03  E-value=0.48  Score=39.03  Aligned_cols=15  Identities=33%  Similarity=0.419  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.|||||++.+..
T Consensus        10 ~sGsGKsTl~~~l~~   24 (186)
T PRK10078         10 PSGSGKDSLLAALRQ   24 (186)
T ss_pred             CCCCCHHHHHHHHhc
Confidence            479999999999987

>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2

Probab=85.97  E-value=0.38  Score=38.45  Aligned_cols=14  Identities=43%  Similarity=0.691  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+++.+..
T Consensus         1 ~GsGKStvg~~lA~   14 (158)
T PF01202_consen    1 MGSGKSTVGKLLAK   14 (158)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            49999999999999

7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....

>PRK06761 hypothetical protein; Provisional

Probab=85.86  E-value=0.98  Score=39.78  Aligned_cols=16  Identities=38%  Similarity=0.598  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ..|.||||+|+.+++.
T Consensus        11 ~~GsGKTTla~~L~~~   26 (282)
T PRK06761         11 LPGFGKSTTAKMLNDI   26 (282)
T ss_pred             CCCCCHHHHHHHHHHh
Confidence            3699999999999994

>PRK13946 shikimate kinase; Provisional

Probab=85.83  E-value=0.47  Score=39.00  Aligned_cols=15  Identities=33%  Similarity=0.587  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |.|.||||+|+.+.+
T Consensus        18 ~~GsGKsti~~~LA~   32 (184)
T PRK13946         18 LMGAGKSTVGRRLAT   32 (184)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999998

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=85.81  E-value=0.44  Score=37.31  Aligned_cols=14  Identities=50%  Similarity=0.717  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||+|.++..
T Consensus        16 PG~GKstl~~~lae   29 (176)
T KOG3347|consen   16 PGTGKSTLAERLAE   29 (176)
T ss_pred             CCCCchhHHHHHHH
Confidence            69999999999986

>PRK13949 shikimate kinase; Provisional

Probab=85.80  E-value=0.47  Score=38.44  Aligned_cols=15  Identities=47%  Similarity=0.609  Sum_probs=13.9

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |.|.||||+++.+.+
T Consensus         9 ~~GsGKstl~~~La~   23 (169)
T PRK13949          9 YMGAGKTTLGKALAR   23 (169)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999998

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=85.75  E-value=1.3  Score=43.66  Aligned_cols=41  Identities=17%  Similarity=0.264  Sum_probs=26.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHHh
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQS   47 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~~   47 (348)
                      +|+||||||.-++++.    .| -++=++.|++.....+-..|...
T Consensus       335 pGlGKTTLAHViAkqa----GY-sVvEINASDeRt~~~v~~kI~~a  375 (877)
T KOG1969|consen  335 PGLGKTTLAHVIAKQA----GY-SVVEINASDERTAPMVKEKIENA  375 (877)
T ss_pred             CCCChhHHHHHHHHhc----Cc-eEEEecccccccHHHHHHHHHHH
Confidence            7999999999998832    11 24456666666555554444443

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

Probab=85.74  E-value=5.1  Score=33.95  Aligned_cols=15  Identities=47%  Similarity=0.736  Sum_probs=13.7

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||.|.+++++.
T Consensus        43 ~G~GKTHLL~Ai~~~   57 (219)
T PF00308_consen   43 SGLGKTHLLQAIANE   57 (219)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            599999999999993

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

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=85.74  E-value=0.46  Score=35.55  Aligned_cols=16  Identities=50%  Similarity=0.856  Sum_probs=14.0

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      .|+|||||.+.+.+..
T Consensus         8 ~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    8 SGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             TTSSHHHHHHHHHHSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999999754

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=85.70  E-value=0.48  Score=37.02  Aligned_cols=16  Identities=56%  Similarity=0.632  Sum_probs=13.8

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      .|.|||||++++-...
T Consensus        10 ~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen   10 SGSGKTTLAQALNGEE   25 (143)
T ss_pred             CCCCHHHHHHHHcCCC
Confidence            4999999999998743

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK10818 cell division inhibitor MinD; Provisional

Probab=85.63  E-value=0.46  Score=41.69  Aligned_cols=29  Identities=28%  Similarity=0.350  Sum_probs=18.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..-...++  ..++.|+..
T Consensus        12 GGvGKTt~a~nlA~~la~~g--~~vllvD~D   40 (270)
T PRK10818         12 GGVGKTTSSAAIATGLAQKG--KKTVVIDFD   40 (270)
T ss_pred             CCCcHHHHHHHHHHHHHHCC--CeEEEEECC
Confidence            89999999999988333222  134455443

>CHL00181 cbbX CbbX; Provisional

Probab=85.60  E-value=0.64  Score=41.25  Aligned_cols=14  Identities=43%  Similarity=0.615  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||+|+.+++
T Consensus        68 pGtGKT~lAr~la~   81 (287)
T CHL00181         68 PGTGKTTVALKMAD   81 (287)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999987

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=85.56  E-value=0.44  Score=37.38  Aligned_cols=15  Identities=40%  Similarity=0.645  Sum_probs=13.1

Q ss_pred             CCcHHHHHHHHhcch
Q 043181            3 GVGKTTLAQLLCNNV   17 (348)
Q Consensus         3 GiGKTtLa~~v~~~~   17 (348)
                      |.|||||+|.+..-.
T Consensus        35 GAGKTtf~rgi~~~L   49 (149)
T COG0802          35 GAGKTTLVRGIAKGL   49 (149)
T ss_pred             cCChHHHHHHHHHHc
Confidence            899999999998843

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=85.43  E-value=0.63  Score=40.30  Aligned_cols=21  Identities=38%  Similarity=0.521  Sum_probs=17.1

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCC
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRF   23 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F   23 (348)
                      |+|.||||+.+.++.+  +...+
T Consensus        27 MAGSGKTTF~QrL~~h--l~~~~   47 (366)
T KOG1532|consen   27 MAGSGKTTFMQRLNSH--LHAKK   47 (366)
T ss_pred             cCCCCchhHHHHHHHH--Hhhcc
Confidence            8999999999999984  44444

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=85.32  E-value=1.5  Score=38.25  Aligned_cols=41  Identities=24%  Similarity=0.310  Sum_probs=29.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC----CeeEEEEcCCCCCHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF----HLETWVYLFEDFDVFRITK   42 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~~~~~~~~~~l~~   42 (348)
                      +|+|||.||.+++-+..+....    ..++|++-...+...++.+
T Consensus        47 ~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~   91 (256)
T PF08423_consen   47 SGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQ   91 (256)
T ss_dssp             TTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHH
T ss_pred             cccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHH
Confidence            6999999999887544433222    2488999888898877764

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=85.31  E-value=1.6  Score=36.00  Aligned_cols=17  Identities=47%  Similarity=0.577  Sum_probs=14.3

Q ss_pred             CCCcHHHHHHHHhcchh
Q 043181            2 GGVGKTTLAQLLCNNVK   18 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~   18 (348)
                      -|+||||+|+.+.+...
T Consensus        12 ~GsGKsT~~~~L~~~l~   28 (195)
T TIGR00041        12 DGAGKTTQANLLKKLLQ   28 (195)
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            59999999999998433

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=85.27  E-value=4  Score=40.43  Aligned_cols=39  Identities=3%  Similarity=-0.101  Sum_probs=24.2

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCch
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPL  107 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPL  107 (348)
                      +++.++....+.+..-..+.. ..   ......|++.++|.+-
T Consensus       177 ~Ls~~ei~~~L~~il~~e~i~-~e---~~aL~~Ia~~s~Gs~R  215 (647)
T PRK07994        177 ALDVEQIRQQLEHILQAEQIP-FE---PRALQLLARAADGSMR  215 (647)
T ss_pred             CCCHHHHHHHHHHHHHHcCCC-CC---HHHHHHHHHHcCCCHH
Confidence            788888877777654222211 11   2456678888999774

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=85.19  E-value=0.54  Score=38.32  Aligned_cols=16  Identities=44%  Similarity=0.663  Sum_probs=14.3

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .+|+|||||+++++.+
T Consensus        12 PSG~GKsTl~k~L~~~   27 (191)
T COG0194          12 PSGVGKSTLVKALLED   27 (191)
T ss_pred             CCCCCHHHHHHHHHhh
Confidence            3799999999999994

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=85.13  E-value=1.4  Score=39.58  Aligned_cols=42  Identities=24%  Similarity=0.244  Sum_probs=29.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcC----CCeeEEEEcCCCCCHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR----FHLETWVYLFEDFDVFRITKT   43 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~~~~~~~~~~l~~~   43 (348)
                      +|+||||+|.+++-+......    =..++||+.-..++..++.+.
T Consensus       104 ~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~  149 (310)
T TIGR02236       104 FGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQM  149 (310)
T ss_pred             CCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHH
Confidence            699999999999764332111    126889999888887765543

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=85.12  E-value=0.52  Score=37.88  Aligned_cols=13  Identities=62%  Similarity=0.841  Sum_probs=12.1

Q ss_pred             CCCcHHHHHHHHh
Q 043181            2 GGVGKTTLAQLLC   14 (348)
Q Consensus         2 gGiGKTtLa~~v~   14 (348)
                      +|+||||+|+.+.
T Consensus         9 PGvGKTT~~~~L~   21 (180)
T COG1936           9 PGVGKTTVCKLLR   21 (180)
T ss_pred             CCCchHHHHHHHH
Confidence            6999999999987

>smart00364 LRR_BAC Leucine-rich repeats, bacterial type

Probab=85.09  E-value=0.59  Score=24.69  Aligned_cols=18  Identities=39%  Similarity=0.530  Sum_probs=12.9

Q ss_pred             CCccEEecCCCCCccCch
Q 043181          282 KILRYLNFSDAQVETSPE  299 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~  299 (348)
                      .+|++|++++|+++++|+
T Consensus         2 ~~L~~L~vs~N~Lt~LPe   19 (26)
T smart00364        2 PSLKELNVSNNQLTSLPE   19 (26)
T ss_pred             cccceeecCCCccccCcc
Confidence            357777777777777775

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=85.06  E-value=1.6  Score=37.37  Aligned_cols=15  Identities=47%  Similarity=0.682  Sum_probs=13.9

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|.|||.||++|+|+
T Consensus       198 pg~gktml~kava~~  212 (408)
T KOG0727|consen  198 PGTGKTMLAKAVANH  212 (408)
T ss_pred             CCCcHHHHHHHHhhc
Confidence            699999999999995

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=85.01  E-value=0.52  Score=38.55  Aligned_cols=15  Identities=27%  Similarity=0.268  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|+||||+|+.+..
T Consensus         7 ~pGsGKst~a~~la~   21 (183)
T TIGR01359         7 GPGSGKGTQCAKIVE   21 (183)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=84.97  E-value=0.99  Score=34.01  Aligned_cols=15  Identities=67%  Similarity=0.973  Sum_probs=13.8

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||++..+...
T Consensus         8 gG~GKTt~a~~la~~   22 (116)
T cd02034           8 GGVGKTTIAALLARY   22 (116)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999999883

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=84.97  E-value=0.52  Score=38.28  Aligned_cols=15  Identities=33%  Similarity=0.512  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        12 ~~GaGKStl~~~La~   26 (172)
T PRK05057         12 PMGAGKSTIGRQLAQ   26 (172)
T ss_pred             CCCcCHHHHHHHHHH
Confidence            469999999999998

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=84.88  E-value=1.4  Score=39.67  Aligned_cols=42  Identities=24%  Similarity=0.249  Sum_probs=30.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC----CeeEEEEcCCCCCHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF----HLETWVYLFEDFDVFRITKT   43 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~~~~~~~~~~l~~~   43 (348)
                      +|+|||++|.+++-+.......    ..++|++.-..++..++.+.
T Consensus       111 ~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~  156 (317)
T PRK04301        111 FGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM  156 (317)
T ss_pred             CCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH
Confidence            6999999999998643222111    36889999888887776544

>CHL00175 minD septum-site determining protein; Validated

Probab=84.87  E-value=0.52  Score=41.65  Aligned_cols=14  Identities=57%  Similarity=0.650  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||+|..+..
T Consensus        25 GGvGKTt~a~nLA~   38 (281)
T CHL00175         25 GGVGKTTTTANLGM   38 (281)
T ss_pred             CCCcHHHHHHHHHH
Confidence            89999999999887

>PF14516 AAA_35: AAA-like domain

Probab=84.70  E-value=8.5  Score=34.92  Aligned_cols=47  Identities=13%  Similarity=0.138  Sum_probs=34.4

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCC
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGK  119 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~  119 (348)
                      .++.+|...|....-..     ..   ....+++...+||.|--+..++..+...
T Consensus       200 ~Ft~~ev~~L~~~~~~~-----~~---~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  200 DFTPEEVQELAQRYGLE-----FS---QEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             CCCHHHHHHHHHhhhcc-----CC---HHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            67777777777664321     11   1238899999999999999999888765

>PRK13973 thymidylate kinase; Provisional

Probab=84.61  E-value=1.9  Score=36.35  Aligned_cols=43  Identities=16%  Similarity=0.123  Sum_probs=24.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      -|.||||+++.+++....++ + .++...........+.+++++.
T Consensus        12 dGsGKtTq~~~l~~~l~~~g-~-~~~~~~~p~~~~~g~~ir~~l~   54 (213)
T PRK13973         12 EGAGKSTQIRLLAERLRAAG-Y-DVLVTREPGGSPGAEAIRHVLL   54 (213)
T ss_pred             CCCCHHHHHHHHHHHHHHCC-C-eEEEEECCCCCchHHHHHHHHc
Confidence            59999999999999443322 2 2223333333344555555543

>PRK13695 putative NTPase; Provisional

Probab=84.56  E-value=0.89  Score=36.89  Aligned_cols=15  Identities=47%  Similarity=0.552  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|+|||||++.+++.
T Consensus         9 ~G~GKTTll~~i~~~   23 (174)
T PRK13695          9 PGVGKTTLVLKIAEL   23 (174)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999884

>PRK03846 adenylylsulfate kinase; Provisional

Probab=84.54  E-value=0.56  Score=39.05  Aligned_cols=15  Identities=40%  Similarity=0.589  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||||+.+..
T Consensus        32 ~~GsGKSTla~~l~~   46 (198)
T PRK03846         32 LSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            359999999999988

>PRK06921 hypothetical protein; Provisional

Probab=84.50  E-value=0.89  Score=39.85  Aligned_cols=28  Identities=21%  Similarity=0.189  Sum_probs=20.4

Q ss_pred             CCCcHHHHHHHHhcchhhhcC-CCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR-FHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~-F~~~~wv~~   31 (348)
                      .|+|||.||.++++  .+... -..++|++.
T Consensus       126 ~G~GKThLa~aia~--~l~~~~g~~v~y~~~  154 (266)
T PRK06921        126 PGSGKTHLLTAAAN--ELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCCcHHHHHHHHHH--HHhhhcCceEEEEEH
Confidence            59999999999999  44433 234567765

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=84.44  E-value=0.59  Score=38.93  Aligned_cols=15  Identities=33%  Similarity=0.693  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|+||||+|+.+.+
T Consensus        11 ~~G~GKst~a~~l~~   25 (197)
T PRK12339         11 IPGVGKTSISGYIAR   25 (197)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999998

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=84.33  E-value=0.58  Score=37.80  Aligned_cols=15  Identities=40%  Similarity=0.556  Sum_probs=13.9

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        10 ~~GsGKst~~~~la~   24 (171)
T PRK03731         10 ARGCGKTTVGMALAQ   24 (171)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999998

>PF00693 Herpes_TK: Thymidine kinase from herpesvirus; InterPro: IPR001889 The thymidine kinase from Herpesviridae catalyses the reaction: ATP + THYMIDINE = ADP + THYMIDINE 5'-PHOSPHATE

Probab=84.28  E-value=0.54  Score=41.01  Aligned_cols=14  Identities=50%  Similarity=0.660  Sum_probs=12.9

Q ss_pred             CCcHHHHHHHHhcc
Q 043181            3 GVGKTTLAQLLCNN   16 (348)
Q Consensus         3 GiGKTtLa~~v~~~   16 (348)
                      ||||||+++++.+.
T Consensus         4 GvGKTT~~~~l~~~   17 (281)
T PF00693_consen    4 GVGKTTTLKALAEA   17 (281)
T ss_dssp             TSSHHHHHHHHHHC
T ss_pred             CcCHHHHHHHHHHc
Confidence            99999999999883

The enzyme is not subject to feedback inhibition by its product and the crystal structure of the enzyme from Human herpesvirus 1 (HHV-1) has been reported [].; GO: 0004797 thymidine kinase activity, 0005524 ATP binding, 0006230 TMP biosynthetic process; PDB: 1P73_B 1P75_C 1P6X_A 1P72_A 1OSN_D 1E2J_B 1KI3_A 3RDP_B 1P7C_A 3F0T_A ....

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=84.16  E-value=0.56  Score=38.93  Aligned_cols=18  Identities=39%  Similarity=0.623  Sum_probs=15.2

Q ss_pred             CCCcHHHHHHHHhcchhhhc
Q 043181            2 GGVGKTTLAQLLCNNVKVKN   21 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~   21 (348)
                      +|+||||+|+++..  .++.
T Consensus        10 PgsGKTtfakeLak--~L~~   27 (261)
T COG4088          10 PGSGKTTFAKELAK--ELRQ   27 (261)
T ss_pred             CCCCchHHHHHHHH--HHHH
Confidence            69999999999998  5544

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=84.13  E-value=0.58  Score=40.53  Aligned_cols=16  Identities=38%  Similarity=0.686  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ++|.||||+|+++...
T Consensus         7 ~pGSGKST~a~~La~~   22 (249)
T TIGR03574         7 LPGVGKSTFSKELAKK   22 (249)
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999883

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=84.04  E-value=0.59  Score=43.06  Aligned_cols=19  Identities=32%  Similarity=0.487  Sum_probs=15.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR   22 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~   22 (348)
                      +|+||||+|+++++  +....
T Consensus       165 pGtGKT~lakaia~--~l~~~  183 (364)
T TIGR01242       165 PGTGKTLLAKAVAH--ETNAT  183 (364)
T ss_pred             CCCCHHHHHHHHHH--hCCCC
Confidence            69999999999999  44444

Many proteins may score above the trusted cutoff because an internal

>PRK06835 DNA replication protein DnaC; Validated

Probab=83.94  E-value=0.95  Score=40.96  Aligned_cols=29  Identities=21%  Similarity=0.198  Sum_probs=20.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      .|+|||.||.++++  ++...-..++++++.
T Consensus       192 ~GtGKThLa~aIa~--~l~~~g~~V~y~t~~  220 (329)
T PRK06835        192 TGTGKTFLSNCIAK--ELLDRGKSVIYRTAD  220 (329)
T ss_pred             CCCcHHHHHHHHHH--HHHHCCCeEEEEEHH
Confidence            59999999999999  443332356666653

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=83.90  E-value=1.1  Score=36.29  Aligned_cols=30  Identities=30%  Similarity=0.275  Sum_probs=21.1

Q ss_pred             CCCcHHHHHHHHhcchhhh-cCCCeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVK-NRFHLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~~~~   33 (348)
                      .|+|||.||+++.+  .+. +.....+-++.+.
T Consensus        12 sGvGKT~la~~la~--~l~~~~~~~~~~~d~s~   42 (171)
T PF07724_consen   12 SGVGKTELAKALAE--LLFVGSERPLIRIDMSE   42 (171)
T ss_dssp             TTSSHHHHHHHHHH--HHT-SSCCEEEEEEGGG
T ss_pred             CCCCHHHHHHHHHH--HhccCCccchHHHhhhc
Confidence            69999999999998  444 4444555555543

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments

Probab=83.88  E-value=0.66  Score=39.75  Aligned_cols=15  Identities=53%  Similarity=0.713  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||.|.+++--
T Consensus        10 GGvGKSTva~~lA~a   24 (261)
T PF09140_consen   10 GGVGKSTVAVNLAVA   24 (261)
T ss_dssp             TTTTHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            899999999998874

Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=83.74  E-value=0.68  Score=37.92  Aligned_cols=15  Identities=27%  Similarity=0.310  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ..|+||||+|+.+..
T Consensus        11 ~~GsGKsTl~~~l~~   25 (188)
T TIGR01360        11 GPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999987

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK13236 nitrogenase reductase; Reviewed

Probab=83.70  E-value=0.62  Score=41.54  Aligned_cols=14  Identities=43%  Similarity=0.631  Sum_probs=12.5

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      |||||||+|..+..
T Consensus        15 GGVGKTt~a~NLA~   28 (296)
T PRK13236         15 GGIGKSTTSQNTLA   28 (296)
T ss_pred             CcCCHHHHHHHHHH
Confidence            89999998888776

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

Probab=83.64  E-value=0.9  Score=37.60  Aligned_cols=59  Identities=24%  Similarity=0.352  Sum_probs=47.5

Q ss_pred             CCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhccc-ccCcEeeccCCCCCC
Q 043181          282 KILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNL-NNLHHLDNFVTFSLE  343 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l-~~L~~L~l~~~~~l~  343 (348)
                      .+...+||++|.+..++. +..+++|.+|.+.+ +.+.++-+.+..+ ++|..|.+.+| ++.
T Consensus        42 d~~d~iDLtdNdl~~l~~-lp~l~rL~tLll~n-NrIt~I~p~L~~~~p~l~~L~LtnN-si~  101 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDN-LPHLPRLHTLLLNN-NRITRIDPDLDTFLPNLKTLILTNN-SIQ  101 (233)
T ss_pred             cccceecccccchhhccc-CCCccccceEEecC-CcceeeccchhhhccccceEEecCc-chh
Confidence            456788999999887754 77889999999998 8999998877764 46999999887 443

>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=83.58  E-value=0.96  Score=36.43  Aligned_cols=26  Identities=31%  Similarity=0.296  Sum_probs=21.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEE
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVY   30 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~   30 (348)
                      +|+||+||.+.+|-+....+   +.+||.
T Consensus        46 SG~GKStllr~LYaNY~~d~---G~I~v~   71 (235)
T COG4778          46 SGSGKSTLLRSLYANYLPDE---GQILVR   71 (235)
T ss_pred             CCCcHHHHHHHHHhccCCCC---ceEEEE
Confidence            69999999999999876654   567774

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=83.55  E-value=0.66  Score=46.60  Aligned_cols=15  Identities=60%  Similarity=0.857  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|+||||+|+.+++
T Consensus        60 PpGtGKTTLA~aIA~   74 (725)
T PRK13341         60 PPGVGKTTLARIIAN   74 (725)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            379999999999998

>PHA02519 plasmid partition protein SopA; Reviewed

Probab=83.53  E-value=0.63  Score=43.16  Aligned_cols=27  Identities=22%  Similarity=0.163  Sum_probs=18.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEE
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVY   30 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~   30 (348)
                      |||||||.|.++..-...++.  .++-|+
T Consensus       116 GGVGKTTta~nLA~~LA~~G~--rVLlID  142 (387)
T PHA02519        116 GGVYKTSSAVHTAQWLALQGH--RVLLIE  142 (387)
T ss_pred             CCCcHHHHHHHHHHHHHhCCC--cEEEEe
Confidence            899999999998884333332  344555

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=83.51  E-value=0.54  Score=37.69  Aligned_cols=14  Identities=43%  Similarity=0.513  Sum_probs=12.8

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||||++++..
T Consensus         8 ~stGKTTL~~~L~~   21 (163)
T PF13521_consen    8 PSTGKTTLIEALAA   21 (163)
T ss_dssp             TTSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            48999999999997

>cd00880 Era_like Era (E

Probab=83.43  E-value=0.74  Score=35.84  Aligned_cols=15  Identities=27%  Similarity=0.403  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|+|||||++++++.
T Consensus         5 ~gsGKstl~~~l~~~   19 (163)
T cd00880           5 TNAGKSSLLNALLGQ   19 (163)
T ss_pred             CCCCHHHHHHHHhCc
Confidence            699999999999874

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=83.35  E-value=1.2  Score=38.29  Aligned_cols=28  Identities=29%  Similarity=0.354  Sum_probs=22.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      +|.||||+.+.+..  .....|+.+.+++-
T Consensus        22 sGSGKT~li~~lL~--~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   22 SGSGKTTLIKSLLY--YLRHKFDHIFLITP   49 (241)
T ss_pred             CCCCHHHHHHHHHH--hhcccCCEEEEEec
Confidence            69999999999988  67888877666644

This is thought to be an ATPase involved in viral DNA packaging [].

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=83.34  E-value=0.71  Score=38.84  Aligned_cols=17  Identities=53%  Similarity=0.675  Sum_probs=14.7

Q ss_pred             CCCCcHHHHHHHHhcch
Q 043181            1 MGGVGKTTLAQLLCNNV   17 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~   17 (348)
                      .+|+|||||+.++.++.
T Consensus        13 ~~g~GKTtl~~~l~~~~   29 (219)
T COG1100          13 DGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             CCCccHHHHHHHHhcCc
Confidence            48999999999999853

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=83.31  E-value=0.71  Score=36.50  Aligned_cols=15  Identities=40%  Similarity=0.623  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|.||||+|+.+...
T Consensus         8 ~GsGKSTla~~L~~~   22 (149)
T cd02027           8 SGSGKSTIARALEEK   22 (149)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999883

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=83.31  E-value=2.3  Score=36.76  Aligned_cols=51  Identities=22%  Similarity=0.319  Sum_probs=35.2

Q ss_pred             CCCcHHHHHHHHhcch-----------------------------hhhcCCCeeEEEEc------CCCC-----CHHHHH
Q 043181            2 GGVGKTTLAQLLCNNV-----------------------------KVKNRFHLETWVYL------FEDF-----DVFRIT   41 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~-----------------------------~~~~~F~~~~wv~~------~~~~-----~~~~l~   41 (348)
                      .|.|||-+|+++.|..                             +.+..-+|++|++-      .+.+     |+.++.
T Consensus       160 pGTGKTm~Akalane~kvp~l~vkat~liGehVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiV  239 (368)
T COG1223         160 PGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIV  239 (368)
T ss_pred             CCccHHHHHHHHhcccCCceEEechHHHHHHHhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHH
Confidence            6999999999999953                             12233378888862      2222     677788


Q ss_pred             HHHHHhccccc
Q 043181           42 KTMLQSISTEA   52 (348)
Q Consensus        42 ~~il~~l~~~~   52 (348)
                      ..++..+.+..
T Consensus       240 NALLTelDgi~  250 (368)
T COG1223         240 NALLTELDGIK  250 (368)
T ss_pred             HHHHHhccCcc
Confidence            88888776544

>PRK06620 hypothetical protein; Validated

Probab=83.18  E-value=0.7  Score=39.05  Aligned_cols=16  Identities=31%  Similarity=0.331  Sum_probs=13.9

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      .|+|||+|++++++..
T Consensus        53 ~G~GKThLl~a~~~~~   68 (214)
T PRK06620         53 SSSGKTYLTKIWQNLS   68 (214)
T ss_pred             CCCCHHHHHHHHHhcc
Confidence            6999999999988843

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=83.17  E-value=0.71  Score=36.01  Aligned_cols=15  Identities=47%  Similarity=0.722  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ..|.||||+|+.+..
T Consensus         7 ~~GsGKst~a~~la~   21 (147)
T cd02020           7 PAGSGKSTVAKLLAK   21 (147)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999987

>TIGR03263 guanyl_kin guanylate kinase

Probab=83.15  E-value=0.78  Score=37.37  Aligned_cols=14  Identities=50%  Similarity=0.762  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||||+.+.+
T Consensus        10 ~GsGKsTl~~~L~~   23 (180)
T TIGR03263        10 SGVGKSTLVKALLE   23 (180)
T ss_pred             CCCCHHHHHHHHHc
Confidence            69999999999998

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=83.09  E-value=0.65  Score=43.12  Aligned_cols=27  Identities=30%  Similarity=0.321  Sum_probs=18.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEE
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVY   30 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~   30 (348)
                      |||||||+|..+..-...++.  .++-|+
T Consensus       116 GGVGKTT~a~nLA~~LA~~G~--rVLlID  142 (388)
T PRK13705        116 GGVYKTSVSVHLAQDLALKGL--RVLLVE  142 (388)
T ss_pred             CCchHHHHHHHHHHHHHhcCC--CeEEEc
Confidence            899999999998884333332  344454

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=83.04  E-value=1  Score=39.92  Aligned_cols=14  Identities=43%  Similarity=0.577  Sum_probs=12.6

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||+|+.+++
T Consensus        67 pGTGKT~lA~~ia~   80 (284)
T TIGR02880        67 PGTGKTTVALRMAQ   80 (284)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999988877

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=82.88  E-value=11  Score=34.10  Aligned_cols=40  Identities=18%  Similarity=0.149  Sum_probs=25.4

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEIL  112 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~i  112 (348)
                      +++.+++.+.+.... ...   .    .+.+..++..++|.|.....+
T Consensus       164 ~~~~~~~~~~L~~~~-~~~---~----~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        164 LPSNEESLQWLQQAL-PES---D----ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             CcCHHHHHHHHHHhc-ccC---C----hHHHHHHHHHcCCCHHHHHHH
Confidence            677888887777643 111   1    233567788999999755444

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=82.87  E-value=1.3  Score=39.84  Aligned_cols=34  Identities=21%  Similarity=0.094  Sum_probs=25.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDV   37 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~   37 (348)
                      +|+||||||.+++-.  .+..-..++|++.-..++.
T Consensus        64 ~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~   97 (325)
T cd00983          64 ESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDP   97 (325)
T ss_pred             CCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHH
Confidence            699999999998773  3333346789987776665

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=82.81  E-value=0.69  Score=43.00  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=18.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..-....++  .++.|+..
T Consensus       114 GGvGKTT~a~nLA~~La~~G~--rVLlID~D  142 (387)
T TIGR03453       114 GGSGKTTTAAHLAQYLALRGY--RVLAIDLD  142 (387)
T ss_pred             CCcCHHHHHHHHHHHHHhcCC--CEEEEecC
Confidence            899999999998873332221  34455543

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=82.76  E-value=1.4  Score=35.97  Aligned_cols=30  Identities=30%  Similarity=0.256  Sum_probs=20.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~   33 (348)
                      +|.|||+||.++.......+  ..++|++...
T Consensus         8 ~G~GKT~l~~~~~~~~~~~g--~~v~~~s~e~   37 (187)
T cd01124           8 PGTGKTTFALQFLYAGLARG--EPGLYVTLEE   37 (187)
T ss_pred             CCCCHHHHHHHHHHHHHHCC--CcEEEEECCC
Confidence            69999999999876332222  3567887655

A related protein is found in archaea.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=82.76  E-value=1.3  Score=39.49  Aligned_cols=29  Identities=17%  Similarity=0.014  Sum_probs=19.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..  ....+=..++-|+..
T Consensus         9 GGvGKTT~a~nLA~--~La~~g~rVLlID~D   37 (296)
T TIGR02016         9 GGSGKSFTTTNLSH--MMAEMGKRVLQLGCD   37 (296)
T ss_pred             CCCCHHHHHHHHHH--HHHHCCCeEEEEEec
Confidence            89999999999988  343332234455443

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=82.73  E-value=0.78  Score=33.95  Aligned_cols=13  Identities=54%  Similarity=0.698  Sum_probs=11.9

Q ss_pred             CCCcHHHHHHHHh
Q 043181            2 GGVGKTTLAQLLC   14 (348)
Q Consensus         2 gGiGKTtLa~~v~   14 (348)
                      +|.|||||++.+.
T Consensus        24 SGsGKSTLl~~l~   36 (107)
T cd00820          24 SGIGKTELALELI   36 (107)
T ss_pred             CCCCHHHHHHHhh
Confidence            6999999999976

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=82.72  E-value=1.2  Score=38.01  Aligned_cols=14  Identities=57%  Similarity=0.871  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||||+.+.-
T Consensus        42 SGsGKSTL~r~l~G   55 (252)
T COG1124          42 SGSGKSTLARLLAG   55 (252)
T ss_pred             CCCCHHHHHHHHhc
Confidence            69999999999987

>PRK13768 GTPase; Provisional

Probab=82.67  E-value=1.4  Score=38.23  Aligned_cols=16  Identities=44%  Similarity=0.582  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .||+||||++..+...
T Consensus        10 ~~G~GKTt~~~~~~~~   25 (253)
T PRK13768         10 TAGSGKTTLTKALSDW   25 (253)
T ss_pred             CCCccHHHHHHHHHHH
Confidence            3899999999998873

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=82.60  E-value=0.7  Score=40.42  Aligned_cols=35  Identities=23%  Similarity=0.209  Sum_probs=22.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRIT   41 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~   41 (348)
                      +|+|||++|+++.+  ....   ....++...+.+..+++
T Consensus        30 ~GtGKT~lA~~la~--~lg~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640        30 AGTGKTTLAMHVAR--KRDR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             CCCCHHHHHHHHHH--HhCC---CEEEEeCCccCCHHHHh
Confidence            69999999999987  3321   23445555554444443

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=82.56  E-value=1.1  Score=43.24  Aligned_cols=15  Identities=47%  Similarity=0.660  Sum_probs=13.9

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|.|||-||++|+|.
T Consensus       554 PGCGKTLlAKAVANE  568 (802)
T KOG0733|consen  554 PGCGKTLLAKAVANE  568 (802)
T ss_pred             CCccHHHHHHHHhhh
Confidence            699999999999994

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=82.52  E-value=6.4  Score=34.04  Aligned_cols=14  Identities=36%  Similarity=0.482  Sum_probs=12.5

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.|||-+|++.+.
T Consensus       214 PGTGKTlmARAcAa  227 (424)
T KOG0652|consen  214 PGTGKTLMARACAA  227 (424)
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999876

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=82.49  E-value=2.2  Score=37.42  Aligned_cols=45  Identities=11%  Similarity=0.107  Sum_probs=31.0

Q ss_pred             CCCcHHHHHHHHhcchhh--hcCCCeeEEEEcCCCC-CHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKV--KNRFHLETWVYLFEDF-DVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~--~~~F~~~~wv~~~~~~-~~~~l~~~il~   46 (348)
                      +|+|||||+..+.++..+  ++.-+.++++.+++.. +..++.+++..
T Consensus        78 ~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~  125 (276)
T cd01135          78 SGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEE  125 (276)
T ss_pred             CCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhh
Confidence            599999999998884331  2335778899998765 45555555444

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=82.39  E-value=2.7  Score=36.60  Aligned_cols=47  Identities=21%  Similarity=0.268  Sum_probs=32.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHHhcccc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSISTE   51 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~~l~~~   51 (348)
                      +|+||||+|.++..+...... ..++|++.  ..+..++...++......
T Consensus        28 pg~GKT~~~l~ia~~~a~~~~-~~vly~Sl--Em~~~~l~~R~la~~s~v   74 (259)
T PF03796_consen   28 PGVGKTAFALQIALNAALNGG-YPVLYFSL--EMSEEELAARLLARLSGV   74 (259)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTS-SEEEEEES--SS-HHHHHHHHHHHHHTS
T ss_pred             ccCCchHHHHHHHHHHHHhcC-CeEEEEcC--CCCHHHHHHHHHHHhhcc
Confidence            699999999999996555432 45555554  345667777777776544

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=82.30  E-value=1.4  Score=35.07  Aligned_cols=15  Identities=40%  Similarity=0.452  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+||||++.++...
T Consensus         8 ~gsGKTtl~~~l~~~   22 (155)
T TIGR00176         8 KNSGKTTLIERLVKA   22 (155)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            599999999999993

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=82.27  E-value=1.7  Score=37.78  Aligned_cols=29  Identities=28%  Similarity=0.233  Sum_probs=19.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|.++...  ....=..++.|+..
T Consensus         9 gG~GKtt~a~~la~~--~a~~g~~vLlvd~D   37 (254)
T cd00550           9 GGVGKTTISAATAVR--LAEQGKKVLLVSTD   37 (254)
T ss_pred             CCchHHHHHHHHHHH--HHHCCCCceEEeCC
Confidence            899999999999884  33332345566543

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=82.13  E-value=2  Score=40.69  Aligned_cols=44  Identities=23%  Similarity=0.193  Sum_probs=31.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCC-CHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDF-DVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~l~~~il~   46 (348)
                      +|+|||||+..+.++.... +-+.++++.+++.. ++.++..++..
T Consensus       152 ~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~  196 (461)
T PRK12597        152 AGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKE  196 (461)
T ss_pred             CCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHh
Confidence            5999999999988854433 56788888887664 45666666654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=82.01  E-value=2  Score=39.98  Aligned_cols=14  Identities=50%  Similarity=0.736  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++..
T Consensus        56 pG~GKT~lAraLA~   69 (441)
T TIGR00390        56 TGVGKTEIARRLAK   69 (441)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=81.99  E-value=0.75  Score=42.78  Aligned_cols=14  Identities=43%  Similarity=0.624  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+|||++|+++++
T Consensus       174 pGtGKT~lAkaia~  187 (389)
T PRK03992        174 PGTGKTLLAKAVAH  187 (389)
T ss_pred             CCCChHHHHHHHHH
Confidence            69999999999998

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=81.95  E-value=1.9  Score=39.27  Aligned_cols=46  Identities=22%  Similarity=0.197  Sum_probs=31.8

Q ss_pred             CCCcHHHHHHHHhcchhhh---c-CCCeeEEEEcCCCCCHHHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCNNVKVK---N-RFHLETWVYLFEDFDVFRITKTMLQSI   48 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~---~-~F~~~~wv~~~~~~~~~~l~~~il~~l   48 (348)
                      .|+|||+|+.+++-+....   + .-..++|++.-..|++.++.+. ++.+
T Consensus       135 ~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~i-a~~~  184 (344)
T PLN03187        135 FRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPI-AERF  184 (344)
T ss_pred             CCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHH-HHHc
Confidence            6999999999986433321   1 1235789999998998887654 4443

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=81.92  E-value=1.3  Score=36.25  Aligned_cols=28  Identities=29%  Similarity=0.292  Sum_probs=18.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      .|+|||.||.++.+..-.++  ..+.|+++
T Consensus        56 ~G~GKThLa~ai~~~~~~~g--~~v~f~~~   83 (178)
T PF01695_consen   56 PGTGKTHLAVAIANEAIRKG--YSVLFITA   83 (178)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT----EEEEEH
T ss_pred             HhHHHHHHHHHHHHHhccCC--cceeEeec
Confidence            59999999999998432222  23566653

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.87  E-value=0.44  Score=39.32  Aligned_cols=35  Identities=26%  Similarity=0.331  Sum_probs=20.1

Q ss_pred             cCCCCEeeccCCCccchhHH-HhcccccCcEeeccC
Q 043181          304 LHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFV  338 (348)
Q Consensus       304 l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~  338 (348)
                      .++|+.|++++|+.+++-=- .+..+++|+.|.+++
T Consensus       150 ~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~  185 (221)
T KOG3864|consen  150 APSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYD  185 (221)
T ss_pred             ccchheeeccCCCeechhHHHHHHHhhhhHHHHhcC
Confidence            45677777777766654321 345556666665554

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=81.84  E-value=3.1  Score=36.81  Aligned_cols=29  Identities=24%  Similarity=0.209  Sum_probs=19.0

Q ss_pred             CCCcHHHHHHHHhcchhhh-cCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVK-NRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~-~~F~~~~wv~~   31 (348)
                      +|+||||++..+......+ +.+ .+..++.
T Consensus       203 tGvGKTTt~~kLa~~~~~~~g~~-~V~li~~  232 (282)
T TIGR03499       203 TGVGKTTTLAKLAARFVLEHGNK-KVALITT  232 (282)
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCC-eEEEEEC
Confidence            6999999999998744333 222 3455554

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

Probab=81.77  E-value=0.078  Score=44.66  Aligned_cols=66  Identities=14%  Similarity=0.036  Sum_probs=55.3

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      +...++.++.|..|+++.|.+..+|+.++.+..+..+++-. +....+|-+.+.++.++++++.++.
T Consensus        57 ~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~-n~~~~~p~s~~k~~~~k~~e~k~~~  122 (326)
T KOG0473|consen   57 LGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHK-NNHSQQPKSQKKEPHPKKNEQKKTE  122 (326)
T ss_pred             hccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhc-cchhhCCccccccCCcchhhhccCc
Confidence            45566777788888999888888999999888888888876 7788999999999999998887774

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=81.73  E-value=2.2  Score=38.88  Aligned_cols=43  Identities=23%  Similarity=0.395  Sum_probs=37.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSIS   49 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~~l~   49 (348)
                      +|.|||.+.+++++....     ..+|++..+.+..+.++..|+.+..
T Consensus        39 sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~~~~   81 (438)
T KOG2543|consen   39 SGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNKSQ   81 (438)
T ss_pred             CCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHHhc
Confidence            599999999999995422     4689999999999999999999986

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=81.73  E-value=2.1  Score=39.33  Aligned_cols=46  Identities=13%  Similarity=0.283  Sum_probs=37.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCe--eEEEEcCCCCCHHHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHL--ETWVYLFEDFDVFRITKTMLQSIS   49 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~--~~wv~~~~~~~~~~l~~~il~~l~   49 (348)
                      .|.|||+.++.|.+  +++.....  .++|+.-......++...|+++++
T Consensus        51 ~GTGKT~~~~~v~~--~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~   98 (366)
T COG1474          51 TGTGKTATVKFVME--ELEESSANVEVVYINCLELRTPYQVLSKILNKLG   98 (366)
T ss_pred             CCCCHhHHHHHHHH--HHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcC
Confidence            59999999999999  55554332  578887777888999999999886

>PRK14532 adenylate kinase; Provisional

Probab=81.69  E-value=0.86  Score=37.47  Aligned_cols=15  Identities=33%  Similarity=0.286  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+..
T Consensus         8 ~pGsGKsT~a~~la~   22 (188)
T PRK14532          8 PPAAGKGTQAKRLVE   22 (188)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>PLN02924 thymidylate kinase

Probab=81.67  E-value=2.4  Score=35.96  Aligned_cols=44  Identities=20%  Similarity=0.200  Sum_probs=25.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      -|.||||+|+.+++..+.++ +....+-..+......+.+++++.
T Consensus        25 DGsGKsTq~~~L~~~l~~~g-~~v~~~~ep~~~~~~g~~ir~~l~   68 (220)
T PLN02924         25 DRSGKSTQCAKLVSFLKGLG-VAAELWRFPDRTTSVGQMISAYLS   68 (220)
T ss_pred             CCCCHHHHHHHHHHHHHhcC-CCceeeeCCCCCChHHHHHHHHHh
Confidence            49999999999999554432 333222112223445556666554

>TIGR02012 tigrfam_recA protein RecA

Probab=81.63  E-value=1.6  Score=39.24  Aligned_cols=34  Identities=21%  Similarity=0.129  Sum_probs=23.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDV   37 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~   37 (348)
                      .|+||||||.++...  ....=..++|++.-+.++.
T Consensus        64 ~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~   97 (321)
T TIGR02012        64 ESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDP   97 (321)
T ss_pred             CCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHH
Confidence            599999999998773  3333345678877665554

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=81.61  E-value=0.97  Score=35.17  Aligned_cols=14  Identities=50%  Similarity=0.707  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+|||||++.+..
T Consensus         8 sGsGKstl~~~L~~   21 (137)
T cd00071           8 SGVGKSTLLKRLLE   21 (137)
T ss_pred             CCCCHHHHHHHHHh
Confidence            69999999999988

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]

Probab=81.57  E-value=0.86  Score=35.66  Aligned_cols=17  Identities=29%  Similarity=0.587  Sum_probs=14.7

Q ss_pred             CCCcHHHHHHHHhcchhhh
Q 043181            2 GGVGKTTLAQLLCNNVKVK   20 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~   20 (348)
                      +|.||||++++++.  +..
T Consensus         4 sG~GKStvg~~lA~--~lg   20 (161)
T COG3265           4 SGSGKSTVGSALAE--RLG   20 (161)
T ss_pred             CccCHHHHHHHHHH--HcC
Confidence            59999999999998  544

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=81.55  E-value=0.82  Score=42.73  Aligned_cols=17  Identities=41%  Similarity=0.587  Sum_probs=14.4

Q ss_pred             CCCcHHHHHHHHhcchh
Q 043181            2 GGVGKTTLAQLLCNNVK   18 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~   18 (348)
                      ||+||||.|.++..-..
T Consensus       131 GGvGKTTta~nLA~~LA  147 (405)
T PRK13869        131 GGSGKTTTSAHLAQYLA  147 (405)
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            89999999999887433

>PRK05973 replicative DNA helicase; Provisional

Probab=81.52  E-value=2.9  Score=35.83  Aligned_cols=39  Identities=21%  Similarity=0.156  Sum_probs=23.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTM   44 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~i   44 (348)
                      +|+||||+|.++..+.. +.. ..+++++.-.  +..++...+
T Consensus        73 PG~GKT~lalqfa~~~a-~~G-e~vlyfSlEe--s~~~i~~R~  111 (237)
T PRK05973         73 PGHGKTLLGLELAVEAM-KSG-RTGVFFTLEY--TEQDVRDRL  111 (237)
T ss_pred             CCCCHHHHHHHHHHHHH-hcC-CeEEEEEEeC--CHHHHHHHH
Confidence            69999999999876432 222 2455665544  345555554

>PRK14530 adenylate kinase; Provisional

Probab=81.32  E-value=0.88  Score=38.41  Aligned_cols=15  Identities=33%  Similarity=0.395  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        11 ~pGsGKsT~~~~La~   25 (215)
T PRK14530         11 APGAGKGTQSSNLAE   25 (215)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=81.25  E-value=1.8  Score=40.39  Aligned_cols=14  Identities=50%  Similarity=0.736  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++..
T Consensus        59 ~G~GKT~LAr~LAk   72 (443)
T PRK05201         59 TGVGKTEIARRLAK   72 (443)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999988

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

Probab=81.19  E-value=1.6  Score=39.12  Aligned_cols=63  Identities=22%  Similarity=0.210  Sum_probs=30.6

Q ss_pred             cccCCCCccEEecCCCCCcc-----Cchhh-hccCCCCEeeccCCCcc----chhHHHhcccccCcEeeccCC
Q 043181          277 EIGDLKILRYLNFSDAQVET-----SPESV-CKLHNLETLKLQNCNRL----QKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~-----lp~~~-~~l~~L~~L~l~~c~~l----~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .++.+++|+.+++++|.++.     +-..+ ...++|++|.+.+|.--    .-+-..+...+.|+.|++++|
T Consensus       236 aL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN  308 (382)
T KOG1909|consen  236 ALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGN  308 (382)
T ss_pred             HhcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcc
Confidence            34445555555555554431     11111 12455666665553211    112224556777777888777

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

Probab=81.04  E-value=0.72  Score=40.56  Aligned_cols=61  Identities=23%  Similarity=0.307  Sum_probs=42.9

Q ss_pred             cCCCCccEEecCCCC-Cc-cCchhhhccCCCCEeeccCCCccchhHH---HhcccccCcEeeccCCCC
Q 043181          279 GDLKILRYLNFSDAQ-VE-TSPESVCKLHNLETLKLQNCNRLQKLFA---DIGNLNNLHHLDNFVTFS  341 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~-~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~---~i~~l~~L~~L~l~~~~~  341 (348)
                      ...++|..|||+.+- ++ ..-..+-+++.|++|+++.|..+  .|.   .++..++|.+|++.+|.+
T Consensus       310 ~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i--~p~~~~~l~s~psl~yLdv~g~vs  375 (419)
T KOG2120|consen  310 RRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDI--IPETLLELNSKPSLVYLDVFGCVS  375 (419)
T ss_pred             HhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCC--ChHHeeeeccCcceEEEEeccccC
Confidence            456778888888875 43 24455678888888888888754  233   356777888888888743

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=80.98  E-value=3  Score=34.67  Aligned_cols=48  Identities=23%  Similarity=0.162  Sum_probs=30.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC-CCCCHHHHHHHHHHhcccc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF-EDFDVFRITKTMLQSISTE   51 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~l~~~il~~l~~~   51 (348)
                      .|+||||.+..++.....+  =..+..++.. ....-.+.++...+.++.+
T Consensus        10 tGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp   58 (196)
T PF00448_consen   10 TGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVP   58 (196)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEE
T ss_pred             CCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccc
Confidence            6999999888777743333  2345666653 3334566777777777755

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK04182 cytidylate kinase; Provisional

Probab=80.83  E-value=0.95  Score=36.70  Aligned_cols=15  Identities=53%  Similarity=0.700  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus         8 ~~GsGKstia~~la~   22 (180)
T PRK04182          8 PPGSGKTTVARLLAE   22 (180)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=80.69  E-value=1.8  Score=39.06  Aligned_cols=14  Identities=50%  Similarity=0.714  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||+|..+..
T Consensus       103 GGvGkTT~a~nLA~  116 (322)
T TIGR03815       103 GGAGASTLAAALAL  116 (322)
T ss_pred             CCCcHHHHHHHHHH
Confidence            89999999999887

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=80.55  E-value=1.9  Score=39.23  Aligned_cols=46  Identities=17%  Similarity=0.200  Sum_probs=31.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcC---C-CeeEEEEcCCCCCHHHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR---F-HLETWVYLFEDFDVFRITKTMLQSI   48 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~---F-~~~~wv~~~~~~~~~~l~~~il~~l   48 (348)
                      +|+|||+||..++-+......   - ..++|++.-..+++.++.+ +++.+
T Consensus       132 ~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~q-ia~~~  181 (342)
T PLN03186        132 FRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQ-IAERF  181 (342)
T ss_pred             CCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHH-HHHHc
Confidence            699999999988753332111   1 2588999999888877643 34433

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=80.51  E-value=0.97  Score=40.30  Aligned_cols=14  Identities=43%  Similarity=0.631  Sum_probs=12.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      |||||||.|..+..
T Consensus        13 GGvGKTt~~~nLa~   26 (295)
T PRK13234         13 GGIGKSTTSQNTLA   26 (295)
T ss_pred             CCccHHHHHHHHHH
Confidence            89999998888766

>PRK00698 tmk thymidylate kinase; Validated

Probab=80.43  E-value=3.1  Score=34.52  Aligned_cols=16  Identities=38%  Similarity=0.518  Sum_probs=14.0

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      .|.||||+++.+.+..
T Consensus        12 ~gsGKsT~~~~L~~~l   27 (205)
T PRK00698         12 DGAGKSTQIELLKELL   27 (205)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            5999999999999843

>PRK00300 gmk guanylate kinase; Provisional

Probab=80.36  E-value=1  Score=37.64  Aligned_cols=15  Identities=40%  Similarity=0.645  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|+||||||+.+...
T Consensus        14 sGsGKstl~~~l~~~   28 (205)
T PRK00300         14 SGAGKSTLVKALLER   28 (205)
T ss_pred             CCCCHHHHHHHHHhh
Confidence            699999999999983

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=80.25  E-value=1  Score=37.73  Aligned_cols=14  Identities=36%  Similarity=0.242  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||+|..+..
T Consensus        45 gG~GkSt~a~nLA~   58 (207)
T TIGR03018        45 PGEGKSFTAINLAI   58 (207)
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999998887

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=80.18  E-value=1.1  Score=35.71  Aligned_cols=15  Identities=40%  Similarity=0.727  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|+|||||+.++.+.
T Consensus         9 ~~~GKTsli~~~~~~   23 (164)
T smart00173        9 GGVGKSALTIQFVQG   23 (164)
T ss_pred             CCCCHHHHHHHHHhC
Confidence            699999999998763

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=80.17  E-value=1.5  Score=36.71  Aligned_cols=30  Identities=20%  Similarity=0.141  Sum_probs=22.6

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEE
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVY   30 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~   30 (348)
                      .+|.|||.||.+..-+.-..+.|+..+++.
T Consensus        27 ~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen   27 PAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             -TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             CCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            379999999999887665668888777664

; GO: 0005524 ATP binding; PDB: 3B85_A.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=80.17  E-value=1.1  Score=35.51  Aligned_cols=15  Identities=40%  Similarity=0.707  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|+|||||+.++.++
T Consensus         9 ~~~GKTsl~~~l~~~   23 (164)
T cd04139           9 GGVGKSALTLQFMYD   23 (164)
T ss_pred             CCCCHHHHHHHHHhC
Confidence            699999999999864

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PRK09183 transposase/IS protein; Provisional

Probab=80.14  E-value=1.6  Score=38.11  Aligned_cols=15  Identities=53%  Similarity=0.605  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||+||.++.+.
T Consensus       111 ~GtGKThLa~al~~~  125 (259)
T PRK09183        111 SGVGKTHLAIALGYE  125 (259)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999873

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=80.12  E-value=3.4  Score=35.36  Aligned_cols=44  Identities=20%  Similarity=0.194  Sum_probs=28.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSI   48 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~~l   48 (348)
                      +|+||||+|.++..+...+.. ..++|++.-.  +..++.++++...
T Consensus        22 ~G~GKT~~~~~~~~~~~~~~g-~~vly~s~E~--~~~~~~~r~~~~~   65 (242)
T cd00984          22 PSMGKTAFALNIAENIAKKQG-KPVLFFSLEM--SKEQLLQRLLASE   65 (242)
T ss_pred             CCCCHHHHHHHHHHHHHHhCC-CceEEEeCCC--CHHHHHHHHHHHh
Confidence            699999999998775433312 2456666554  5566666665543

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=80.03  E-value=1  Score=38.43  Aligned_cols=14  Identities=50%  Similarity=0.707  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.|||||++.+..
T Consensus        42 ~GsGKTTl~~~L~~   55 (229)
T PRK09270         42 PGAGKSTLAEFLEA   55 (229)
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	348
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-42
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	3e-32
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-24
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	7e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-10
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-10
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-10
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-09
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	9e-09
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-07
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	4e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	4e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	7e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	7e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-04

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

 Score =  153 bits (389), Expect = 3e-42
 Identities = 56/425 (13%), Positives = 110/425 (25%), Gaps = 117/425 (27%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLET--WVYLFEDFDVFRITKT------MLQSISTEA 52
           M G GK+ LA     +  +          WV + +      + K       + Q  S   
Sbjct: 155 MAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQ 214

Query: 53  VRDNDLNLLQLKK------------------WSDDDCLC-------VFTQRSS------R 81
               ++   + +                   W              + T R         
Sbjct: 215 RLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVM 274

Query: 82  RTDFNMHM----------------------HLKEIGEKIVKKCNGLPLASEILGGLLHGK 119
              + + +                       L E    I+K+C G PL   ++G LL   
Sbjct: 275 GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDF 334

Query: 120 VD-CIDWEDVLNSK--------------------AISCHYLLPHLKRCFSYCSIFPEDCK 158
            +    +   L +K                    +IS   L   +K  ++  SI  +D K
Sbjct: 335 PNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVK 394

Query: 159 FEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSS-SNVSRFAMHDFIN 217
              + L +L   +             +       E  ++S           R+ +HD   
Sbjct: 395 VPTKVLCILWDME------------TEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQV 442

Query: 218 DLAHK-----YDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHLN--------------RN 258
           D   +        + +       ++ +       +    Y +                  
Sbjct: 443 DFLTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQEDCMYWYNFLAYHMASAKMHKELCA 502

Query: 259 VLFDLS-LKLQCFRYELPSEIGDLKILR-YLNFSDAQVETSPESVCKLHNLETLKLQNCN 316
           ++F L  +K +         I +    R  L+  D  V  + +    L+    L  Q   
Sbjct: 503 LMFSLDWIKAKTELVGPAHLIHEFVEYRHILDEKDCAVSENFQEFLSLNGH-LLGRQPFP 561

Query: 317 RLQKL 321
            + +L
Sbjct: 562 NIVQL 566

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

 Score =  125 bits (316), Expect = 3e-32
 Identities = 34/344 (9%), Positives = 70/344 (20%), Gaps = 93/344 (27%)

Query: 1   MGGVGKTTLAQLLCNN--VKVKNRFHLETWVYL-----FEDFDVFRITKTMLQSI----- 48
             G GK+ +A    +     +   +    W+          FD+F     ML+S      
Sbjct: 160 RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLN 219

Query: 49  --STEAVRDNDLNLLQLKK--------------WSDDDCLCVFTQRSS------------ 80
             S E V    L  +                    ++        R              
Sbjct: 220 FPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISN 279

Query: 81  -----------------------RRTDFNMHMH--LKEIGEKIVKKCNGLPLASEILGGL 115
                                        M +    +++  K ++  +G P    +    
Sbjct: 280 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKS 339

Query: 116 LHGKVDCIDWEDVLNSK-----------------------AISCHYLLPHLKRCFSYCSI 152
              K        + N                               L    +   ++  +
Sbjct: 340 CEPKTF-EKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVV 398

Query: 153 FPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSS-SNVSRFA 211
            P       +    +          N E+ ++         L  R          V  F 
Sbjct: 399 MPPGVDIPVKLWSCVIPVDI---CSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFK 455

Query: 212 MHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWDYSHL 255
           +   I+         +       +   R     ++ V     H+
Sbjct: 456 IDHIIHMFLKHVVDAQTIANGISILEQRLLEIGNNNVSVPERHI 499

>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 =  103 bits (257), Expect = 2e-24
 Identities = 62/430 (14%), Positives = 130/430 (30%), Gaps = 129/430 (30%)

Query: 1   MGGVGKTTLAQLLCNNVKVKNRFHLET-WV---YLFEDFDVFRITKTMLQSIS------- 49
           + G GKT +A  +C + KV+ +   +  W+          V  + + +L  I        
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

Query: 50  ---------TEAVRDNDLNLLQLKKWSD-----DD-------------CLCVFTQRSSRR 82
                      +++     LL+ K + +      +             C  + T R  + 
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV 277

Query: 83  TDFNMHMHLKEI-------------GEKIVKK-------------CNGLPLASEILGGLL 116
           TDF        I              + ++ K                 P    I+   +
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESI 337

Query: 117 HGKVDCID-WEDVLNSK-----AISCHYLLPH-LKRCFSYCSIFPEDCK----------- 158
              +   D W+ V   K       S + L P   ++ F   S+FP               
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF 397

Query: 159 ---FEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDF 215
                +  +++ ++ +  L  +  ++    +   Y   L+ +            +A+H  
Sbjct: 398 DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY---LELKVKLEN------EYALHRS 448

Query: 216 INDLAHKYDGIKRFEAIDGVK-------------HLRTSLPISSRVVWDYSHLNRNVLFD 262
           I D    Y+  K F++ D +              HL+           +   L R V  D
Sbjct: 449 IVD---HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP------ERMTLFRMVFLD 499

Query: 263 LSL---KLQ------CFRYELPSEIGDLKILR-YLNFSDAQVETSPESVCK-LHNLET-- 309
                 K++           + + +  LK  + Y+  +D + E    ++   L  +E   
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559

Query: 310 LKLQNCNRLQ 319
           +  +  + L+
Sbjct: 560 ICSKYTDLLR 569

>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 = 67.7 bits (166), Expect = 7e-13
 Identities = 16/63 (25%), Positives = 27/63 (42%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
            LP+ I +L+ L+ L   ++ +     ++  L  LE L L+ C  L+      G    L 
Sbjct: 197 SLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLK 256

Query: 333 HLD 335
            L 
Sbjct: 257 RLI 259

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

 Score = 60.0 bits (146), Expect = 2e-10
 Identities = 18/64 (28%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 273 ELPSEIGDLKILRYLNFSDA-QVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNL 331
            L   I  L  L  L+      +   P        L+ L L++C+ L  L  DI  L  L
Sbjct: 220 ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQL 279

Query: 332 HHLD 335
             LD
Sbjct: 280 EKLD 283

>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 = 59.2 bits (144), Expect = 5e-10
 Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 5/76 (6%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
           ELP  +     L  L  +   +   P S+  L+ L  L ++ C  L +L   + + +   
Sbjct: 118 ELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASG 177

Query: 333 HLDNFVTFSLESLESL 348
                    L +L+SL
Sbjct: 178 EHQG-----LVNLQSL 188

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

 Score = 58.8 bits (143), Expect = 5e-10
 Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 1/64 (1%)

Query: 273 ELPSEIGDLKILRYLNFSDA-QVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNL 331
             P   G    L+ L   D   + T P  + +L  LE L L+ C  L +L + I  L   
Sbjct: 244 NYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPAN 303

Query: 332 HHLD 335
             + 
Sbjct: 304 CIIL 307

>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 = 56.9 bits (138), Expect = 3e-09
 Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 1/73 (1%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
           + P +   L  L+++    A +   P+++ +   LETL L     L+ L A I +LN L 
Sbjct: 95  QFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNP-LRALPASIASLNRLR 153

Query: 333 HLDNFVTFSLESL 345
            L       L  L
Sbjct: 154 ELSIRACPELTEL 166

>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 = 51.9 bits (125), Expect = 1e-07
 Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
           +   E   L  L+ L      + + P S+  L NL++LK++N + L  L   I +L  L 
Sbjct: 174 DASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRN-SPLSALGPAIHHLPKLE 232

Query: 333 HLD 335
            LD
Sbjct: 233 ELD 235

>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 = 50.5 bits (120), Expect = 4e-07
 Identities = 40/283 (14%), Positives = 99/283 (34%), Gaps = 11/283 (3%)

Query: 60  LLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGK 119
           L + +      C+ V  + +     F+  + +      ++   +  PL+ E        +
Sbjct: 236 LGRAEPHDVLCCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNR 295

Query: 120 VDCIDWEDVLNSKAISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENS 179
              + W   L + +++        +  ++      E    ++      R +    +    
Sbjct: 296 PSHV-WLCDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQLFRC 354

Query: 180 EKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHD-----FINDLAHKYDGIKRFEAIDG 234
           E  VE+       EL+S    ++         +        ++ L ++ + ++ F  +  
Sbjct: 355 ELSVEKSTV-LQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA 413

Query: 235 VKHLRTSLP--ISSRVVWDYSHLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDA 292
           V  +R +    + S+ + + S L         L L      +   +  L ++ +L+ S  
Sbjct: 414 VDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHN 473

Query: 293 QVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           ++   P ++  L  LE L+  + N L+ +   + NL  L  L 
Sbjct: 474 RLRALPPALAALRCLEVLQASD-NALENV-DGVANLPRLQELL 514

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

 Score = 50.3 bits (120), Expect = 5e-07
 Identities = 18/102 (17%), Positives = 36/102 (35%), Gaps = 24/102 (23%)

Query: 254 HLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSD--------------------AQ 293
            L    + +L+ ++      +   I  L  L+ + F++                     Q
Sbjct: 424 SLKDTQIGNLTNRIT----FISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQ 479

Query: 294 VETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
            E    S   L +L  ++L NC  + +L   + +L  L  L+
Sbjct: 480 YENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLN 521

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

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 13/64 (20%), Positives = 24/64 (37%), Gaps = 4/64 (6%)

Query: 275 PSEIGDLKILRYLNFSDAQVETSPESVCK-LHNLETLKLQNCNRLQKL--FADIGNLNNL 331
               G    L  L     Q+E  PE  C     +E L   + N+L+ +    +  ++  +
Sbjct: 588 LEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSH-NKLKYIPNIFNAKSVYVM 646

Query: 332 HHLD 335
             +D
Sbjct: 647 GSVD 650

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

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 15/93 (16%), Positives = 31/93 (33%), Gaps = 20/93 (21%)

Query: 275 PSEIGDLKILRYLNFSDAQVETSPESVC--------KLHNLETLKLQNCNRLQKLFADI- 325
                    +  +  S+  + + PE+            + L T+ L+  N+L  L  D  
Sbjct: 690 TELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRF-NKLTSLSDDFR 748

Query: 326 -GNLNNLHHLD---NFVT------FSLESLESL 348
              L  L ++D   N  +       +   L++ 
Sbjct: 749 ATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAF 781

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

 Score = 41.0 bits (96), Expect = 5e-04
 Identities = 12/88 (13%), Positives = 25/88 (28%), Gaps = 12/88 (13%)

Query: 273 ELPSEI--GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQ-----NCNRLQKLFAD- 324
            L  +     L  L  ++ S     + P        L+   ++       NR+ + +   
Sbjct: 742 SLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTG 801

Query: 325 IGNLNNLHHLD----NFVTFSLESLESL 348
           I    +L  L     +      +    L
Sbjct: 802 ITTCPSLIQLQIGSNDIRKVDEKLTPQL 829

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

 Score = 40.2 bits (94), Expect = 8e-04
 Identities = 16/87 (18%), Positives = 34/87 (39%), Gaps = 13/87 (14%)

Query: 273 ELPSE--IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIG-NLN 329
           E P+   +  +  L  L+    +V    E+      L  LKL   N+++++  D     +
Sbjct: 562 EFPASASLQKMVKLGLLDCVHNKV-RHLEAFGTNVKLTDLKLDY-NQIEEIPEDFCAFTD 619

Query: 330 NLHHLD---NFVT-----FSLESLESL 348
            +  L    N +      F+ +S+  +
Sbjct: 620 QVEGLGFSHNKLKYIPNIFNAKSVYVM 646

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

 Score = 40.2 bits (94), Expect = 8e-04
 Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 13/75 (17%)

Query: 273 ELPSEIGDLKILRYLNFSD----------AQVETSPESVCKLHNLETLKLQNCNRLQKL- 321
           +LP  + DL  L+ LN +           A      +       ++   +   N L++  
Sbjct: 506 QLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGY-NNLEEFP 564

Query: 322 -FADIGNLNNLHHLD 335
             A +  +  L  LD
Sbjct: 565 ASASLQKMVKLGLLD 579

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

 Score = 47.0 bits (112), Expect = 5e-06
 Identities = 16/102 (15%), Positives = 30/102 (29%), Gaps = 21/102 (20%)

Query: 255 LNRNVLFDLSLKLQCFR-YELPSEIGDLKILRYLNFSD--------------------AQ 293
            +R  L D  +         +   +  L  LR     +                     Q
Sbjct: 178 SSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQ 237

Query: 294 VETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
            +T       L +L  +++ NC  L KL   +  L  +  ++
Sbjct: 238 YKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLIN 279

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

 Score = 45.0 bits (107), Expect = 3e-05
 Identities = 8/64 (12%), Positives = 17/64 (26%), Gaps = 3/64 (4%)

Query: 274 LPSEIGDLKILRYLNFSDAQVETSPES--VCKLHNLETLKLQNCNRLQKLFADIGNLNNL 331
                 +  +L  ++    ++    +      L  L  + L   N   K      N + L
Sbjct: 480 ENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSY-NSFSKFPTQPLNSSTL 538

Query: 332 HHLD 335
               
Sbjct: 539 KGFG 542

>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 = 44.6 bits (106), Expect = 4e-05
 Identities = 12/64 (18%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADI-GNLNNL 331
            + + +  +K L  L     Q+E    +      L +L L   N++ ++ A+  G    +
Sbjct: 321 PVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAY-NQITEIPANFCGFTEQV 379

Query: 332 HHLD 335
            +L 
Sbjct: 380 ENLS 383

>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 = 43.9 bits (104), Expect = 6e-05
 Identities = 15/93 (16%), Positives = 29/93 (31%), Gaps = 20/93 (21%)

Query: 275 PSEIGDLKILRYLNFSD--------AQVETSPESVCKLHNLETLKLQNCNRLQKLFADI- 325
                    L  +N             ++   E+    + L ++ L+  N+L KL  D  
Sbjct: 450 KELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRF-NKLTKLSDDFR 508

Query: 326 -GNLNNLHHLD---NFVT------FSLESLESL 348
              L  L  +D   N  +       +  +L+  
Sbjct: 509 ATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGF 541

>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 = 6e-05
 Identities = 12/70 (17%), Positives = 28/70 (40%), Gaps = 10/70 (14%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETS-------PESVCKLHNLETLKLQNCNRLQKLFADI 325
           + P++  +   L+     + +           PE +    +L  L++ + N ++K+   I
Sbjct: 527 KFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGS-NDIRKVNEKI 585

Query: 326 GNLNNLHHLD 335
               N+  LD
Sbjct: 586 --TPNISVLD 593

>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 = 42.7 bits (101), Expect = 1e-04
 Identities = 10/87 (11%), Positives = 25/87 (28%), Gaps = 7/87 (8%)

Query: 263 LSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKL 321
            + +          +  +LK L  +   +    T  P  +  L  ++ + +   NR    
Sbjct: 230 ENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVAC-NRGISG 288

Query: 322 FADIGNLNNLHHLDNFVTFSLESLESL 348
                +   L           E ++ +
Sbjct: 289 EQLKDDWQALADAPV-----GEKIQII 310

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

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 9/91 (9%), Positives = 26/91 (28%), Gaps = 2/91 (2%)

Query: 260 LFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQ 319
           L    +     +  +            +      +    ++V +L  L    + N   + 
Sbjct: 161 LIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVA 220

Query: 320 KLFADIGNLNNLHHLDNFVTF--SLESLESL 348
           +   +     N  +   + T     ++L+ L
Sbjct: 221 ENICEAWENENSEYAQQYKTEDLKWDNLKDL 251

>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 = 47.2 bits (112), Expect = 5e-06
 Identities = 20/93 (21%), Positives = 30/93 (32%), Gaps = 18/93 (19%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH--------------NLETLKLQNCNRL 318
            LP     L  L   +     +   P  +CKL                L+ L + + N+L
Sbjct: 95  SLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSD-NQL 153

Query: 319 QKLFADIGNLNNLHHLDNFVTF---SLESLESL 348
             L A    L  L   +N +T        L+ L
Sbjct: 154 ASLPALPSELCKLWAYNNQLTSLPMLPSGLQEL 186

>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 = 44.1 bits (104), Expect = 4e-05
 Identities = 17/79 (21%), Positives = 29/79 (36%), Gaps = 10/79 (12%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
            LP+   +L     L   + Q+ + P        L+ L + + N+L  L      L  L 
Sbjct: 155 SLPALPSELC---KLWAYNNQLTSLPML---PSGLQELSVSD-NQLASLPTLPSELYKLW 207

Query: 333 HLDNFVTF---SLESLESL 348
             +N +T        L+ L
Sbjct: 208 AYNNRLTSLPALPSGLKEL 226

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 41.8 bits (98), Expect = 2e-04
 Identities = 18/79 (22%), Positives = 24/79 (30%), Gaps = 10/79 (12%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
            LP+   +L   R L  S  Q+ + P     L  L          L  L      L  L 
Sbjct: 75  SLPALPPEL---RTLEVSGNQLTSLPVLPPGLLELSIFSNPL-THLPAL---PSGLCKLW 127

Query: 333 HLDNFVTF---SLESLESL 348
              N +T        L+ L
Sbjct: 128 IFGNQLTSLPVLPPGLQEL 146

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 21/95 (22%), Positives = 30/95 (31%), Gaps = 22/95 (23%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQ----------------NCN 316
            LP     L   + L+ SD Q+ + P    +L+ L     +                + N
Sbjct: 175 SLPMLPSGL---QELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSGN 231

Query: 317 RLQKLFADIGNLNNLHHLDNFVTF---SLESLESL 348
           RL  L      L  L    N +T        L SL
Sbjct: 232 RLTSLPVLPSELKELMVSGNRLTSLPMLPSGLLSL 266

>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 = 46.4 bits (111), Expect = 1e-05
 Identities = 23/99 (23%), Positives = 35/99 (35%), Gaps = 15/99 (15%)

Query: 264 SLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLF- 322
           S  L      + S +  L  L  L  S++ +  S        +L +L L   N L     
Sbjct: 59  SKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSR-NSLSGPVT 117

Query: 323 --ADIGNLNNLHHLD---NFVTFS--------LESLESL 348
               +G+ + L  L+   N + F         L SLE L
Sbjct: 118 TLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVL 156

>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 = 43.7 bits (104), Expect = 6e-05
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 3/65 (4%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQ-KLFADIGNLNN 330
            +PS +G L  LR L      +E   P+ +  +  LETL L   N L  ++ + + N  N
Sbjct: 433 TIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDF-NDLTGEIPSGLSNCTN 491

Query: 331 LHHLD 335
           L+ + 
Sbjct: 492 LNWIS 496

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

 Score = 41.4 bits (98), Expect = 3e-04
 Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 3/65 (4%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQ-KLFADIGNLNN 330
           ++P  + +   L  L+ S   +  + P S+  L  L  LKL   N L+ ++  ++  +  
Sbjct: 409 KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL-NMLEGEIPQELMYVKT 467

Query: 331 LHHLD 335
           L  L 
Sbjct: 468 LETLI 472

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

 Score = 41.0 bits (97), Expect = 4e-04
 Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 3/65 (4%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQ-KLFADIGNLNN 330
           E+PS + +   L +++ S+ ++    P+ + +L NL  LKL N N     + A++G+  +
Sbjct: 481 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSN-NSFSGNIPAELGDCRS 539

Query: 331 LHHLD 335
           L  LD
Sbjct: 540 LIWLD 544

>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 = 44.1 bits (105), Expect = 4e-05
 Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 6/76 (7%)

Query: 276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           S + +L  +  LN       +    +  +  L  L +   ++++ +   I NL +L+ L 
Sbjct: 126 SPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTE-SKVKDVTP-IANLTDLYSLS 183

Query: 336 ---NFVTFSLESLESL 348
              N +   +  L SL
Sbjct: 184 LNYNQIE-DISPLASL 198

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

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 7/76 (9%)

Query: 276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLD 335
           S +  L  L Y      Q+ T    V  +  L +LK+ N N++  L   + NL+ L  L+
Sbjct: 193 SPLASLTSLHYFTAYVNQI-TDITPVANMTRLNSLKIGN-NKITDLSP-LANLSQLTWLE 249

Query: 336 ---NFVTFSLESLESL 348
              N ++  + +++ L
Sbjct: 250 IGTNQIS-DINAVKDL 264

>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 = 40.2 bits (95), Expect = 7e-04
 Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 3/62 (4%)

Query: 275 PSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHH 333
            S + +L  L  L  ++ Q+     E +  L NL TL L   N +  +   + +L+ +  
Sbjct: 280 ISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQ-NHITDIRP-LASLSKMDS 337

Query: 334 LD 335
            D
Sbjct: 338 AD 339

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 42.7 bits (101), Expect = 9e-05
 Identities = 11/63 (17%), Positives = 25/63 (39%), Gaps = 2/63 (3%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
           ++  ++     L+ L+ S  ++            +  + L+N N+L  +   +    NL 
Sbjct: 183 DVKGQVV-FAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRN-NKLVLIEKALRFSQNLE 240

Query: 333 HLD 335
           H D
Sbjct: 241 HFD 243

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 42.5 bits (101), Expect = 1e-04
 Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 3/65 (4%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQ-KLFADIGNLNN 330
            +P  I  L  L YL  +   V  + P+ + ++  L TL     N L   L   I +L N
Sbjct: 92  PIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSY-NALSGTLPPSISSLPN 150

Query: 331 LHHLD 335
           L  + 
Sbjct: 151 LVGIT 155

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 39.8 bits (94), Expect = 7e-04
 Identities = 15/66 (22%), Positives = 22/66 (33%), Gaps = 4/66 (6%)

Query: 274 LPSEIGDLKILRYLNFSDAQVETS---PESVCKLHNLETLKLQNCNRLQ-KLFADIGNLN 329
           L         +  L+ S   +      P S+  L  L  L +   N L   +   I  L 
Sbjct: 42  LCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLT 101

Query: 330 NLHHLD 335
            LH+L 
Sbjct: 102 QLHYLY 107

>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 = 42.3 bits (100), Expect = 2e-04
 Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 7/77 (9%)

Query: 275 PSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHL 334
              + +L  L  L+ S  +V +    + KL NLE+L   N N++  +   +G L NL  L
Sbjct: 170 LKPLANLTTLERLDISSNKV-SDISVLAKLTNLESLIATN-NQISDITP-LGILTNLDEL 226

Query: 335 D---NFVTFSLESLESL 348
               N +   + +L SL
Sbjct: 227 SLNGNQLK-DIGTLASL 242

>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 = 42.3 bits (100), Expect = 2e-04
 Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 3/76 (3%)

Query: 262 DLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKL 321
           DLS     F+            L+YL+ S   V T   +   L  LE L  Q+ + L+++
Sbjct: 353 DLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH-SNLKQM 411

Query: 322 --FADIGNLNNLHHLD 335
             F+   +L NL +LD
Sbjct: 412 SEFSVFLSLRNLIYLD 427

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 42.0 bits (99), Expect = 2e-04
 Identities = 14/81 (17%), Positives = 31/81 (38%), Gaps = 6/81 (7%)

Query: 273 ELPSEI-GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNL 331
           ++       ++ L  L  S+ ++         +  L+ L L + N L  +  +    + L
Sbjct: 262 KIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSH-NHLLHVERNQPQFDRL 320

Query: 332 HHLD----NFVTFSLESLESL 348
            +L     + VT  L +  +L
Sbjct: 321 ENLYLDHNSIVTLKLSTHHTL 341

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 40.0 bits (94), Expect = 7e-04
 Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 3/63 (4%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
            L      +  L+ L+ S   +     +  +   LE L L + N +  L   +   + L 
Sbjct: 286 ALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH-NSIVTL--KLSTHHTLK 342

Query: 333 HLD 335
           +L 
Sbjct: 343 NLT 345

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 41.8 bits (98), Expect = 2e-04
 Identities = 11/63 (17%), Positives = 25/63 (39%), Gaps = 2/63 (3%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
           ++  ++     L+ L+ S  ++            +  + L+N N+L  +   +    NL 
Sbjct: 183 DVKGQVV-FAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRN-NKLVLIEKALRFSQNLE 240

Query: 333 HLD 335
           H D
Sbjct: 241 HFD 243

>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 = 41.5 bits (98), Expect = 3e-04
 Identities = 18/97 (18%), Positives = 32/97 (32%), Gaps = 22/97 (22%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPES----------------VCKLHNLETLKLQNCN 316
           ELP     LK L   N +   +   P                  +     L+ + + N N
Sbjct: 105 ELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDN-N 163

Query: 317 RLQKLFADIGNLNNLHHLDNFVT-----FSLESLESL 348
            L+KL     +L  +   +N +       +L  L ++
Sbjct: 164 SLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAI 200

>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 = 41.1 bits (97), Expect = 4e-04
 Identities = 16/79 (20%), Positives = 27/79 (34%), Gaps = 7/79 (8%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
           E   E+ +L  L  +   +  ++T P+    L  L        N L  L     +L  L 
Sbjct: 228 EELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRD----NYLTDLPELPQSLTFLD 283

Query: 333 HLDNFVTF---SLESLESL 348
             +N  +       +L  L
Sbjct: 284 VSENIFSGLSELPPNLYYL 302

>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 = 40.0 bits (94), Expect = 8e-04
 Identities = 19/78 (24%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
           +LP     L    ++   + Q+E  PE +  L  L  +   N N L+KL     +L ++ 
Sbjct: 167 KLPDLPPSL---EFIAAGNNQLEELPE-LQNLPFLTAIYADN-NSLKKLPDLPLSLESIV 221

Query: 333 HLDNFVTF--SLESLESL 348
             +N +     L++L  L
Sbjct: 222 AGNNILEELPELQNLPFL 239

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 41.5 bits (97), Expect = 4e-04
 Identities = 24/79 (30%), Positives = 34/79 (43%), Gaps = 10/79 (12%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
            LP     LK   +L+  + Q+   PE       LE +   N N+L  L     +L  L 
Sbjct: 114 TLPELPASLK---HLDVDNNQLTMLPELPA---LLEYINADN-NQLTMLPELPTSLEVLS 166

Query: 333 HLDNFVTF---SLESLESL 348
             +N +TF     ESLE+L
Sbjct: 167 VRNNQLTFLPELPESLEAL 185

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 41.1 bits (96), Expect = 4e-04
 Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 6/66 (9%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQ---NCNRLQKLFADIGNLN 329
            LP     L     L+ S   +E+ P    + H+ E  ++      NR+  +  +I +L+
Sbjct: 174 FLPELPESL---EALDVSTNLLESLPAVPVRNHHSEETEIFFRCRENRITHIPENILSLD 230

Query: 330 NLHHLD 335
               + 
Sbjct: 231 PTCTII 236

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 40.3 bits (94), Expect = 7e-04
 Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 7/76 (9%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
            LP     L    YL+  D ++ T PE      +L+ L + N N+L  L      L  ++
Sbjct: 94  SLPELPASL---EYLDACDNRLSTLPEL---PASLKHLDVDN-NQLTMLPELPALLEYIN 146

Query: 333 HLDNFVTFSLESLESL 348
             +N +T   E   SL
Sbjct: 147 ADNNQLTMLPELPTSL 162

>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 = 40.5 bits (95), Expect = 7e-04
 Identities = 19/101 (18%), Positives = 33/101 (32%), Gaps = 17/101 (16%)

Query: 254 HLNRNVLFDLSLKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQ 313
            L++N L  +    +            LK L  L+ S       P+S      +  L L 
Sbjct: 367 VLSQNHLRSMQKTGEILL--------TLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLS 418

Query: 314 NCNRLQKLFADIGNLNNLHHLD------NFVTFSLESLESL 348
           +   ++ +   I     L  LD      +  +  L  L+ L
Sbjct: 419 S-TGIRVVKTCI--PQTLEVLDVSNNNLDSFSLFLPRLQEL 456

>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 = 40.3 bits (94), Expect = 7e-04
 Identities = 14/81 (17%), Positives = 31/81 (38%), Gaps = 6/81 (7%)

Query: 273 ELPSEI-GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNL 331
           ++       ++ L  L  S+ ++         +  L+ L L + N L  +  +    + L
Sbjct: 268 KIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSH-NHLLHVERNQPQFDRL 326

Query: 332 HHLD----NFVTFSLESLESL 348
            +L     + VT  L +  +L
Sbjct: 327 ENLYLDHNSIVTLKLSTHHTL 347

>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 = 40.3 bits (94), Expect = 9e-04
 Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 3/63 (4%)

Query: 273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH 332
            L      +  L+ L+ S   +     +  +   LE L L + N +  L   +   + L 
Sbjct: 292 ALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDH-NSIVTL--KLSTHHTLK 348

Query: 333 HLD 335
           +L 
Sbjct: 349 NLT 351

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	348
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.93
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.92
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.89
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	98.75
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	98.75
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.73
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.67
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.62
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.59
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.58
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.58
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.54
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.54
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.52
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.52
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.51
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.46
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.45
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.44
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.43
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	98.43
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.42
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	98.42
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.41
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	98.41
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	98.4
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.4
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	98.39
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.39
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.38
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.38
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.37
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	98.37
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.37
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	98.36
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	98.35
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	98.35
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	98.35
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.34
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	98.33
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.33
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	98.33
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	98.33
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.32
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	98.32
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.31
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.31
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.31
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	98.29
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	98.29
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	98.28
3m19_A	251	Variable lymphocyte receptor A diversity region; a	98.28
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.27
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.27
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.27
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	98.25
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	98.25
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	98.24
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	98.23
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	98.23
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	98.23
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	98.22
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	98.22
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	98.22
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	98.22
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	98.21
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	98.2
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.2
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	98.19
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.19
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	98.19
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	98.17
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.17
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	98.15
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	98.15
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	98.15
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	98.13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	98.13
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	98.13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	98.13
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	98.12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	98.12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	98.11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	98.11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	98.1
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	98.1
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.08
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	98.06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	98.06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	98.05
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	98.04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	98.03
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.03
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	98.03
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	98.03
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	98.02
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.01
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	98.01
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	98.01
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	97.99
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.96
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.96
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	97.95
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.95
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	97.94
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	97.94
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	97.94
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	97.93
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	97.92
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	97.91
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	97.9
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.89
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	97.87
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.84
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	97.84
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	97.84
1o6v_A	466	Internalin A; bacterial infection, extracellular r	97.84
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	97.81
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.78
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.78
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	97.75
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	97.72
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	97.72
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	97.68
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	97.68
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.67
2fna_A	357	Conserved hypothetical protein; structural genomic	97.64
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	97.62
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	97.59
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	97.57
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	97.53
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.52
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	97.47
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.46
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.42
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	97.32
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.17
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	97.16
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	96.99
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	96.98
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.88
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	96.85
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	96.72
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	96.67
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	96.65
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.59
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	96.56
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	96.33
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	96.06
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.94
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	95.83
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	95.4
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	95.39
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	95.28
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	95.25
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	95.09
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	95.08
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	94.45
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	94.43
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	94.2
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	94.08
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	93.87
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	93.79
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	93.49
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	93.17
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	92.73
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	91.95
3bos_A	242	Putative DNA replication factor; P-loop containing	91.36
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	90.6
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	90.51
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	90.43
3cwq_A	209	Para family chromosome partitioning protein; alpha	90.38
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	90.03
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	90.0
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	90.0
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	89.81
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	89.66
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	89.65
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	89.61
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	89.52
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	89.46
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	89.37
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	89.25
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	88.98
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	88.75
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	88.54
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	88.38
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	88.28
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	88.26
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	88.26
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	88.17
1via_A	175	Shikimate kinase; structural genomics, transferase	88.12
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	88.11
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	88.03
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	87.89
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	87.8
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	87.66
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	87.64
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	87.45
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	87.36
2cvh_A	220	DNA repair and recombination protein RADB; filamen	87.28
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	87.25
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	87.14
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	87.04
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	87.03
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	87.03
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	87.01
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	86.96
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	86.91
3co5_A	143	Putative two-component system transcriptional RES	86.9
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	86.89
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	86.76
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	86.71
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	86.61
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	86.6
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	86.34
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	86.3
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	86.29
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	86.22
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	86.21
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	86.21
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	86.16
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	86.05
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	85.93
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	85.89
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	85.79
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	85.78
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	85.76
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	85.76
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	85.74
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	85.73
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	85.64
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	85.54
2qgz_A	308	Helicase loader, putative primosome component; str	85.49
3fwy_A	314	Light-independent protochlorophyllide reductase I	85.47
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	85.43
3end_A	307	Light-independent protochlorophyllide reductase ir	85.41
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	85.39
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	85.26
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	85.2
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	85.14
2vli_A	183	Antibiotic resistance protein; transferase, tunica	84.96
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	84.81
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	84.74
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	84.65
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	84.65
2z43_A	324	DNA repair and recombination protein RADA; archaea	84.63
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	84.59
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	84.48
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	84.46
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	84.45
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	84.44
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	84.44
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	84.31
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	84.22
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	84.2
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	84.19
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	84.18
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	84.13
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	84.1
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	84.07
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	83.99
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	83.94
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	83.82
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	83.79
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	83.77
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	83.74
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	83.72
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	83.65
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	83.62
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	83.6
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	83.5
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	83.43
1u94_A	356	RECA protein, recombinase A; homologous recombinat	83.36
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	83.09
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	82.96
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	82.93
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	82.91
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	82.81
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	82.76
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	82.68
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	82.67
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	82.52
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	82.44
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	82.4
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	82.39
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	82.37
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	82.35
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	82.21
4a74_A	231	DNA repair and recombination protein RADA; hydrola	82.19
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	82.18
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	82.09
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	82.08
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	81.92
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	81.91
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	81.91
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	81.87
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	81.85
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	81.85
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	81.84
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	81.67
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	81.57
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	81.54
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	81.53
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	81.44
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	81.35
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	81.34
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	81.3
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	81.15
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	81.11
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	81.05
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	80.99
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	80.9
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	80.82
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	80.81
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	80.77
3io5_A	333	Recombination and repair protein; storage dimer, i	80.56
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	80.53
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	80.32
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	80.18
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	80.09

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

Probab=100.00  E-value=1.6e-33  Score=270.87  Aligned_cols=219  Identities=13%  Similarity=0.161  Sum_probs=168.3

Q ss_pred             CCCCcHHHHHHHHhc--chhhhcCCCeeEEEEcCCCC--CHHHHHHHHHHhcccccc-----CCCC--------------
Q 043181            1 MGGVGKTTLAQLLCN--NVKVKNRFHLETWVYLFEDF--DVFRITKTMLQSISTEAV-----RDND--------------   57 (348)
Q Consensus         1 mgGiGKTtLa~~v~~--~~~~~~~F~~~~wv~~~~~~--~~~~l~~~il~~l~~~~~-----~~~~--------------   57 (348)
                      ||||||||||+++|+  +.+++.+|++++||++++..  +...+++.|+.+++....     ..++              
T Consensus       160 ~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L  239 (549)
T 2a5y_B          160 RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNAL  239 (549)
T ss_dssp             STTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHHHhcCcccccccccccccHHHHHHHHHHHH
Confidence            899999999999998  67899999999999999885  788899999988865411     0000              


Q ss_pred             ---------------hhh------------------------------hhcCCCChHHHHHHHHHhhcCCCCCCcChhHH
Q 043181           58 ---------------LNL------------------------------LQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLK   92 (348)
Q Consensus        58 ---------------~~~------------------------------l~~~~l~~~~a~~Lf~~~a~~~~~~~~~~~~~   92 (348)
                                     .++                              +...+|+.++||+||.+.+|+...   ++.+.
T Consensus       240 ~~~kr~LlVLDdv~~~~~~~~~~~~gs~ilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~---~~~~~  316 (549)
T 2a5y_B          240 IDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV---GEKEE  316 (549)
T ss_dssp             TTSTTEEEEEEEECCHHHHHHHHHTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHH
T ss_pred             cCCCcEEEEEECCCCchhhcccccCCCEEEEEcCCHHHHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCC---chhHH
Confidence                           000                              011189999999999999987642   46788


Q ss_pred             HHHHHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhc-------------CcccccccCchHHHHHHh-----------
Q 043181           93 EIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLN-------------SKAISCHYLLPHLKRCFS-----------  148 (348)
Q Consensus        93 ~~~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~-------------~~~~s~~~L~~~~k~~fl-----------  148 (348)
                      +++++|+++|+|+||||+++|+.|+.+ ..+ |...+.             .+.+||+.||.++|.||+           
T Consensus       317 ~~~~~I~~~c~GlPLAl~~~g~~l~~~-~w~-~~~~l~~~l~~~~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~  394 (549)
T 2a5y_B          317 DVLNKTIELSSGNPATLMMFFKSCEPK-TFE-KMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALA  394 (549)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHTTCCSS-SHH-HHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTT
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHhccc-hHH-HHHHhHHHhhcccHHHHHHHHhcccccccHHHHHHHhccchhhhhHhh
Confidence            999999999999999999999999876 322 222221             123999999999999999           


Q ss_pred             HhccCCCCCccchhHHHHHHHHc--CCCccCCCCchHHHHHHHHHHHHHhCCccceeCC-CcceEeechHHHHHHHhhcc
Q 043181          149 YCSIFPEDCKFEEEELILLRMAQ--GFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSS-NVSRFAMHDFINDLAHKYDG  225 (348)
Q Consensus       149 ~~~~fp~~~~i~~~~li~~w~a~--g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~~-~~~~~~mh~li~~~~~~~~~  225 (348)
                      |||+||+++.++    +..|+|+  ||+.........++.++ ++.+|+++||++.... ....|+|||+||+||++...
T Consensus       395 ~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~~-~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~  469 (549)
T 2a5y_B          395 FAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVAD-RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVD  469 (549)
T ss_dssp             GGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHHH-HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSC
T ss_pred             heeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHHH-HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHH
Confidence            999999999988    8899999  99987543556677777 9999999999998653 35689999999999997654


Q ss_pred             cccc
Q 043181          226 IKRF  229 (348)
Q Consensus       226 ~~~~  229 (348)
                      .+..
T Consensus       470 ~~~~  473 (549)
T 2a5y_B          470 AQTI  473 (549)
T ss_dssp             THHH
T ss_pred             HHHH
Confidence            4433

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.93  E-value=1.3e-25  Score=221.54  Aligned_cols=198  Identities=14%  Similarity=0.169  Sum_probs=151.2

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCe-eEEEEcCCCCCHHHHHHHHHHhccccc---c-----------------------
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHL-ETWVYLFEDFDVFRITKTMLQSISTEA---V-----------------------   53 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~l~~~il~~l~~~~---~-----------------------   53 (348)
                      ||||||||||+++|++.+++.+|+. ++|+++++.++...++..++..++...   .                       
T Consensus       158 mGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~l  237 (1221)
T 1vt4_I          158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL  237 (1221)
T ss_dssp             STTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhcCcccccccccccCCCCCHHHHHHHHHHH
Confidence            8999999999999998889999997 899999998887777666655322110   0                       


Q ss_pred             --------------CCCChh----------------------------hhhcC------CCChHHHHHHHHHhhcCCCCC
Q 043181           54 --------------RDNDLN----------------------------LLQLK------KWSDDDCLCVFTQRSSRRTDF   85 (348)
Q Consensus        54 --------------~~~~~~----------------------------~l~~~------~l~~~~a~~Lf~~~a~~~~~~   85 (348)
                                    +.++.+                            .+...      +|+.+|||+||++.. +... 
T Consensus       238 L~~l~~KRvLLVLDDVwd~eqLe~f~pGSRILVTTRd~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~~-  315 (1221)
T 1vt4_I          238 LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCRP-  315 (1221)
T ss_dssp             HHHSTTSSCEEEEESCCCHHHHHHHHSSCCEEEECSCSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCCT-
T ss_pred             HHhhcCCCEEEEEeCcChHHHHHhhCCCeEEEEeccChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCCH-
Confidence                          000000                            01112      689999999999984 3221 


Q ss_pred             CcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCCC-CchhHHHHh-----cCcccccccCchHH-HHHHhHhccCCCCCc
Q 043181           86 NMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKV-DCIDWEDVL-----NSKAISCHYLLPHL-KRCFSYCSIFPEDCK  158 (348)
Q Consensus        86 ~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~~-~~~~w~~~l-----~~~~~s~~~L~~~~-k~~fl~~~~fp~~~~  158 (348)
                            .++..++   |+|+||||+++|+.|+++. +.+.|+...     ..+..||+.|+++. |.||++||+||+++.
T Consensus       316 ------eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~  386 (1221)
T 1vt4_I          316 ------QDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH  386 (1221)
T ss_dssp             ------TTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHCSCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSC
T ss_pred             ------HHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcCChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCC
Confidence                  1233343   9999999999999999885 467887642     22339999999999 999999999999999


Q ss_pred             cchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeCCCcceEeechHHHHHHH
Q 043181          159 FEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFAMHDFINDLAH  221 (348)
Q Consensus       159 i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~~~~~~~~mh~li~~~~~  221 (348)
                      |+.+.++.+|+++|           ++.+..++++|+++||++.. +....|+|||++++++.
T Consensus       387 I~~elLa~LW~aeG-----------eedAe~~L~eLvdRSLLq~d-~~~~rYrMHDLllELr~  437 (1221)
T 1vt4_I          387 IPTILLSLIWFDVI-----------KSDVMVVVNKLHKYSLVEKQ-PKESTISIPSIYLELKV  437 (1221)
T ss_dssp             EEHHHHHHHHCSSC-----------SHHHHHHHHHHHTSSSSSBC-SSSSEEBCCCHHHHHHH
T ss_pred             CCHHHHHHHhcCCC-----------HHHHHHHHHHHHhhCCEEEe-CCCCEEEehHHHHHHhc
Confidence            99999999998876           13578899999999999985 33568999999998653

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

Probab=99.92  E-value=4.5e-25  Score=231.24  Aligned_cols=204  Identities=20%  Similarity=0.264  Sum_probs=152.6

Q ss_pred             CCCCcHHHHHHHHhcchhh-hcCC-CeeEEEEcCCCCC--HHHHHHHHHHhccccccC----------------------
Q 043181            1 MGGVGKTTLAQLLCNNVKV-KNRF-HLETWVYLFEDFD--VFRITKTMLQSISTEAVR----------------------   54 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~-~~~F-~~~~wv~~~~~~~--~~~l~~~il~~l~~~~~~----------------------   54 (348)
                      ||||||||||+++|++.+. +.+| +.+.|+++++..+  ....+..++..+......                      
T Consensus       155 ~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~  234 (1249)
T 3sfz_A          155 MAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRK  234 (1249)
T ss_dssp             STTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSS
T ss_pred             CCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhcc
Confidence            8999999999999997644 5556 4566999988543  333445555544322110                      


Q ss_pred             ----------CCChhhh-----------------------------hcCC-CChHHHHHHHHHhhcCCCCCCcChhHHHH
Q 043181           55 ----------DNDLNLL-----------------------------QLKK-WSDDDCLCVFTQRSSRRTDFNMHMHLKEI   94 (348)
Q Consensus        55 ----------~~~~~~l-----------------------------~~~~-l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~   94 (348)
                                .++.+++                             ...+ |+.++|++||...++...     +.+.+.
T Consensus       235 ~~~~LlvlDd~~~~~~~~~~~~~~~ilvTtR~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~-----~~~~~~  309 (1249)
T 3sfz_A          235 HPRSLLILDDVWDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPAE  309 (1249)
T ss_dssp             SCSCEEEEESCCCHHHHTTTCSSCEEEEEESSTTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS-----TTCCTH
T ss_pred             CCCEEEEEecCCCHHHHHhhcCCCEEEEEcCCHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCCh-----hhCcHH
Confidence                      0000000                             0113 999999999999885432     234567


Q ss_pred             HHHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhcCc-----------------------ccccccCchHHHHHHhHhc
Q 043181           95 GEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSK-----------------------AISCHYLLPHLKRCFSYCS  151 (348)
Q Consensus        95 ~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~~~-----------------------~~s~~~L~~~~k~~fl~~~  151 (348)
                      +++|+++|+|+||||+++|+.|+.+.  ..|+..++.+                       .+||+.|+++.|.||+|||
T Consensus       310 ~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~  387 (1249)
T 3sfz_A          310 AHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLS  387 (1249)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGG
T ss_pred             HHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhC
Confidence            99999999999999999999999874  3566555432                       1899999999999999999


Q ss_pred             cCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeC-CCcceEeechHHHHHHHhh
Q 043181          152 IFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSS-SNVSRFAMHDFINDLAHKY  223 (348)
Q Consensus       152 ~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~-~~~~~~~mh~li~~~~~~~  223 (348)
                      +||+++.|+...++.+|.++            ++.+++++.+|+++||++... +....|+||+++|+++++.
T Consensus       388 ~f~~~~~i~~~~~~~~~~~~------------~~~~~~~l~~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~  448 (1249)
T 3sfz_A          388 ILQKDVKVPTKVLCVLWDLE------------TEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEK  448 (1249)
T ss_dssp             GSCTTCCEEHHHHHHHHTCC------------HHHHHHHHHHHHHTTSCEEEESSSSEEEECCHHHHHHHHHH
T ss_pred             ccCCCCeeCHHHHHHHhCCC------------HHHHHHHHHHHHhccceEEecCCCceEEEecHHHHHHHHhh
Confidence            99999999999999999554            366788999999999999764 3334699999999999954

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

Probab=99.89  E-value=1e-22  Score=197.78  Aligned_cols=203  Identities=20%  Similarity=0.289  Sum_probs=148.5

Q ss_pred             CCCCcHHHHHHHHhcchhh-hcCCC-eeEEEEcCCCCCHHHHHHHH---HHhccccc----cCCCC--------------
Q 043181            1 MGGVGKTTLAQLLCNNVKV-KNRFH-LETWVYLFEDFDVFRITKTM---LQSISTEA----VRDND--------------   57 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~-~~~F~-~~~wv~~~~~~~~~~l~~~i---l~~l~~~~----~~~~~--------------   57 (348)
                      ||||||||||+++|++.++ +.+|+ +++|++++.. +...+...+   +..++...    ....+              
T Consensus       155 ~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~  233 (591)
T 1z6t_A          155 MAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLR  233 (591)
T ss_dssp             CTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHcc
Confidence            7999999999999998766 88995 7999998764 222222222   22221000    00000              


Q ss_pred             --------------hhh---------------------------hhc---CCCChHHHHHHHHHhhcCCCCCCcChhHHH
Q 043181           58 --------------LNL---------------------------LQL---KKWSDDDCLCVFTQRSSRRTDFNMHMHLKE   93 (348)
Q Consensus        58 --------------~~~---------------------------l~~---~~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~   93 (348)
                                    .+.                           +..   .+|+.++|++||...++...     ....+
T Consensus       234 ~~~~~LLVLDdv~~~~~l~~l~~~~~ilvTsR~~~~~~~~~~~~~~v~~l~~L~~~ea~~L~~~~~~~~~-----~~~~~  308 (591)
T 1z6t_A          234 KHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKK-----ADLPE  308 (591)
T ss_dssp             TCTTCEEEEEEECCHHHHHTTCSSCEEEEEESCGGGGTTCCSCEEEEECCSSCCHHHHHHHHHHHHTSCG-----GGSCT
T ss_pred             CCCCeEEEEeCCCCHHHHHHhcCCCeEEEECCCcHHHHhcCCCceEeecCCCCCHHHHHHHHHHHhCCCc-----ccccH
Confidence                          000                           000   16999999999999986422     12235


Q ss_pred             HHHHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhcCc-----------------------ccccccCchHHHHHHhHh
Q 043181           94 IGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSK-----------------------AISCHYLLPHLKRCFSYC  150 (348)
Q Consensus        94 ~~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~~~-----------------------~~s~~~L~~~~k~~fl~~  150 (348)
                      .+.+|+++|+|+||||+.+|+.++.+.  ..|..+++.+                       ..||+.|+++.|.||+++
T Consensus       309 ~~~~i~~~~~G~PLal~~~a~~l~~~~--~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~l  386 (591)
T 1z6t_A          309 QAHSIIKECKGSPLVVSLIGALLRDFP--NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDL  386 (591)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHST--TCHHHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHG
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHhcCc--hhHHHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHc
Confidence            789999999999999999999998874  3576554321                       178999999999999999


Q ss_pred             ccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeC-CCcceEeechHHHHHHHhh
Q 043181          151 SIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSS-SNVSRFAMHDFINDLAHKY  223 (348)
Q Consensus       151 ~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~-~~~~~~~mh~li~~~~~~~  223 (348)
                      |+||+++.++...+...|.++            ...+.+++.+|+++||++... +....|+||+++++++++.
T Consensus       387 a~f~~~~~i~~~~l~~l~~~~------------~~~~~~~l~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~  448 (591)
T 1z6t_A          387 SILQKDVKVPTKVLCILWDME------------TEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEK  448 (591)
T ss_dssp             GGCCTTCCEEHHHHHHHHTCC------------HHHHHHHHHHHHHTTSSEEEEETTEEEEECCHHHHHHHHHH
T ss_pred             cccCCCCccCHHHHHHHhccC------------HHHHHHHHHHHHhCcCeEEecCCCccEEEEcHHHHHHHHhh
Confidence            999999999999999888542            245678899999999998653 3445799999999999865

>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=98.75  E-value=6.5e-09  Score=93.00  Aligned_cols=75  Identities=28%  Similarity=0.317  Sum_probs=58.9

Q ss_pred             eCCccccCCCCccEEecCCCCC-ccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQV-ETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~-~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..++.+++|++|++++|.+ ..+|..++.+++|+.|++++|..++.+|.+++++++|++|++++|..++.+|.
T Consensus       220 ~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~  295 (328)
T 4fcg_A          220 ALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPS  295 (328)
T ss_dssp             CCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCG
T ss_pred             cCchhhccCCCCCEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccH
Confidence            5667777888888888888764 45777788888888888888777888888888888888888888877777774

>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=98.75  E-value=1.7e-08  Score=90.35  Aligned_cols=67  Identities=25%  Similarity=0.300  Sum_probs=41.0

Q ss_pred             eCCccccCCCCccEEecCCCC-CccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQ-VETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~-~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+|..++.+++|++|++++|. ...+|..++.+++|+.|++++|+.++.+|.++++|++|+.+++..+
T Consensus       244 ~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~iP~~l~~L~~L~~l~l~~~  311 (328)
T 4fcg_A          244 NYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPH  311 (328)
T ss_dssp             BCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTTCCCCCGGGGGSCTTCEEECCGG
T ss_pred             hhHHHhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCchhhccHHHhhccCceEEeCCHH
Confidence            455556666666666666654 3346666666666666666666666666666666666666665544

>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=98.73  E-value=4.2e-08  Score=80.93  Aligned_cols=110  Identities=12%  Similarity=0.185  Sum_probs=76.7

Q ss_pred             ccccccCccccceeeeccCcccccccccchhHHHHhhhhccccee-------eCCccccCCCCccEEecCCCCCcc-Cch
Q 043181          228 RFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY-------ELPSEIGDLKILRYLNFSDAQVET-SPE  299 (348)
Q Consensus       228 ~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-------~~p~~~~~l~~L~~l~l~~~~~~~-lp~  299 (348)
                      .++.+..+++|+.+...++.. ..   ..  .+ ..+++++.|.+       ..|..++.+++|++|++++|.++. .|.
T Consensus        58 ~l~~l~~l~~L~~L~l~~n~~-~~---~~--~l-~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~~~~~  130 (197)
T 4ezg_A           58 DLTGIEYAHNIKDLTINNIHA-TN---YN--PI-SGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILT  130 (197)
T ss_dssp             CCTTGGGCTTCSEEEEESCCC-SC---CG--GG-TTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCBGGGHH
T ss_pred             ChHHHhcCCCCCEEEccCCCC-Cc---ch--hh-hcCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccCcHhHH
Confidence            344566677788777766532 11   10  11 11344555544       257778888999999999988875 677


Q ss_pred             hhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          300 SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       300 ~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .++.+++|+.|++++|..+..+| .+.++++|++|++++| .+..+|
T Consensus       131 ~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n-~i~~~~  175 (197)
T 4ezg_A          131 KINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFD-GVHDYR  175 (197)
T ss_dssp             HHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTB-CCCCCT
T ss_pred             HHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCC-CCcChH
Confidence            78888999999999865588887 5888888999999888 565554

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.67  E-value=1.5e-08  Score=100.23  Aligned_cols=103  Identities=21%  Similarity=0.207  Sum_probs=79.1

Q ss_pred             ccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccC
Q 043181          232 IDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH  305 (348)
Q Consensus       232 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~  305 (348)
                      +..+..|+.|.+.++...    .+.....  .+.+++.|.+      .+|..++.+.+|++|+|++|.++.+|.+++.|+
T Consensus       220 ~~~l~~L~~L~Ls~n~l~----~l~~~~~--~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~  293 (727)
T 4b8c_D          220 KYDDQLWHALDLSNLQIF----NISANIF--KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCF  293 (727)
T ss_dssp             --CCCCCCEEECTTSCCS----CCCGGGG--GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGT
T ss_pred             hccCCCCcEEECCCCCCC----CCChhhc--CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCC
Confidence            445667777766655431    1222211  2344555554      688899999999999999999999999999999


Q ss_pred             CCCEeeccCCCccchhHHHhcccccCcEeeccCCCC
Q 043181          306 NLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFS  341 (348)
Q Consensus       306 ~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~  341 (348)
                      +|++|+|++ +.+..+|.+|++|++|++|+|++|..
T Consensus       294 ~L~~L~L~~-N~l~~lp~~~~~l~~L~~L~L~~N~l  328 (727)
T 4b8c_D          294 QLKYFYFFD-NMVTTLPWEFGNLCNLQFLGVEGNPL  328 (727)
T ss_dssp             TCSEEECCS-SCCCCCCSSTTSCTTCCCEECTTSCC
T ss_pred             CCCEEECCC-CCCCccChhhhcCCCccEEeCCCCcc
Confidence            999999999 57899999999999999999999943

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.62  E-value=5.8e-08  Score=78.50  Aligned_cols=69  Identities=22%  Similarity=0.218  Sum_probs=49.6

Q ss_pred             ccccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ..++.+++|++|++++|.++.+|+.+ +.+++|++|++++ +.+..+|.  .++.+++|++|++++| .+..+|
T Consensus        58 ~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~i~~~~~~~~l~~l~~L~~L~l~~N-~i~~~~  129 (176)
T 1a9n_A           58 DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTN-NSLVELGDLDPLASLKSLTYLCILRN-PVTNKK  129 (176)
T ss_dssp             CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCS-CCCCCGGGGGGGGGCTTCCEEECCSS-GGGGST
T ss_pred             cccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCC-CcCCcchhhHhhhcCCCCCEEEecCC-CCCCcH
Confidence            45677777777777777777777655 7777777777777 46677776  6777777777777777 455554

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.59  E-value=7.3e-08  Score=81.51  Aligned_cols=61  Identities=23%  Similarity=0.312  Sum_probs=30.3

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~  339 (348)
                      +..+++|++|++++|.++.+|..+..+++|++|++++ +.+..+|. .+..+++|+.|++++|
T Consensus       108 ~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N  169 (229)
T 3e6j_A          108 FDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQ-NQLKSIPHGAFDRLSSLTHAYLFGN  169 (229)
T ss_dssp             TTTCTTCCEEECCSSCCCSCCTTGGGCTTCSEEECCS-SCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             hCcchhhCeEeccCCcccccCcccccCCCCCEEECCC-CcCCccCHHHHhCCCCCCEEEeeCC
Confidence            3445555555555555555555555555555555554 34444443 2444555555555544

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.58  E-value=4e-08  Score=97.21  Aligned_cols=73  Identities=25%  Similarity=0.340  Sum_probs=68.3

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..+..+.+|++|+|++|.++.+|+.++.|++|++|+|++ +.+..+|.++++|++|++|+|++| .++.+|.
T Consensus       238 ~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~-N~l~~lp~~~~~l~~L~~L~L~~N-~l~~lp~  310 (727)
T 4b8c_D          238 NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLPAELGSCFQLKYFYFFDN-MVTTLPW  310 (727)
T ss_dssp             CCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTT-SCCSSCCSSGGGGTTCSEEECCSS-CCCCCCS
T ss_pred             CCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcC-CcCCccChhhcCCCCCCEEECCCC-CCCccCh
Confidence            688888999999999999999999999999999999999999 578899999999999999999999 7888885

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.58  E-value=8.8e-08  Score=76.70  Aligned_cols=106  Identities=23%  Similarity=0.174  Sum_probs=73.1

Q ss_pred             cCccccceeeeccCcccccccccchhHHHHhhhhccccee------e-CCccccCCCCccEEecCCCCCccCc--hhhhc
Q 043181          233 DGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------E-LPSEIGDLKILRYLNFSDAQVETSP--ESVCK  303 (348)
Q Consensus       233 ~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~-~p~~~~~l~~L~~l~l~~~~~~~lp--~~~~~  303 (348)
                      ..+++|+.+....+.... ...     + ..+.+++.|.+      . +|..+..+++|++|++++|.++.+|  ..++.
T Consensus        46 ~~l~~L~~L~l~~n~l~~-~~~-----~-~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~l~~  118 (168)
T 2ell_A           46 AEFVNLEFLSLINVGLIS-VSN-----L-PKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEPLKK  118 (168)
T ss_dssp             GGGGGCCEEEEESSCCCC-CSS-----C-CCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSSCCSSGGGGGGSS
T ss_pred             HhCCCCCEEeCcCCCCCC-hhh-----h-ccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCccCcchhHHHHhc
Confidence            556677777666554211 000     0 01233444444      2 5666667889999999999888876  67888


Q ss_pred             cCCCCEeeccCCCccchhHH----HhcccccCcEeeccCCCCCCCCCC
Q 043181          304 LHNLETLKLQNCNRLQKLFA----DIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       304 l~~L~~L~l~~c~~l~~lp~----~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +++|+.|++++ +.+..+|.    .+..+++|++|++++| ....+|.
T Consensus       119 l~~L~~L~l~~-N~l~~~~~~~~~~~~~l~~L~~L~l~~n-~~~~~~~  164 (168)
T 2ell_A          119 LECLKSLDLFN-CEVTNLNDYRESVFKLLPQLTYLDGYDR-EDQEAPD  164 (168)
T ss_dssp             CSCCCEEECCS-SGGGTSTTHHHHHHTTCSSCCEETTEET-TSCBCCS
T ss_pred             CCCCCEEEeeC-CcCcchHHHHHHHHHhCccCcEecCCCC-Chhhccc
Confidence            89999999988 57777776    6888889999999888 6666663

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.54  E-value=9.6e-08  Score=91.70  Aligned_cols=72  Identities=32%  Similarity=0.342  Sum_probs=51.5

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchh--HHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKL--FADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~l--p~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..++.+++|++|++++|.++.+| .++.+++|+.|+|++ +.+..+  |..++.|++|+.|++++| .+..+|+
T Consensus       477 ~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~-N~l~~~~~p~~l~~l~~L~~L~L~~N-~l~~~~~  550 (567)
T 1dce_A          477 ALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCN-NRLQQSAAIQPLVSCPRLVLLNLQGN-SLCQEEG  550 (567)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCS-SCCCSSSTTGGGGGCTTCCEEECTTS-GGGGSSS
T ss_pred             ccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCC-CCCCCCCCcHHHhcCCCCCEEEecCC-cCCCCcc
Confidence            56777777777777777777777776 677777777777777 466666  677777777777777777 5555543

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.54  E-value=1.1e-07  Score=76.90  Aligned_cols=70  Identities=26%  Similarity=0.385  Sum_probs=61.2

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      .|..+..+++|++|++++|.++.+|+.+ ..+++|++|+|++ +.+..+|++ +..+++|++|++++| .+.-.
T Consensus        49 ~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~l~~L~~L~L~~N-~~~c~  120 (174)
T 2r9u_A           49 EPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND-NHLKSIPRGAFDNLKSLTHIYLYNN-PWDCE  120 (174)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCSEEECCSS-CBCTT
T ss_pred             CHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC-CccceeCHHHhccccCCCEEEeCCC-Ccccc
Confidence            3667899999999999999999998874 8999999999999 789999986 889999999999999 44433

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=98.52  E-value=1.6e-07  Score=80.42  Aligned_cols=61  Identities=28%  Similarity=0.395  Sum_probs=30.4

Q ss_pred             ccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~  339 (348)
                      +..+++|++|++++|.++.+|+. +..+++|+.|++++ +.+..+|+ .++.+++|++|++++|
T Consensus       103 ~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N  165 (251)
T 3m19_A          103 FDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNT-NQLQSIPAGAFDKLTNLQTLSLSTN  165 (251)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             hcccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcC-CcCCccCHHHcCcCcCCCEEECCCC
Confidence            44555555555555555554443 24455555555554 34444444 2445555555555555

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.52  E-value=1.4e-07  Score=73.83  Aligned_cols=70  Identities=29%  Similarity=0.392  Sum_probs=56.6

Q ss_pred             ccccCCCCccEEecCCCCCcc-CchhhhccCCCCEeeccCCCccchhH--HHhcccccCcEeeccCCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVET-SPESVCKLHNLETLKLQNCNRLQKLF--ADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~-lp~~~~~l~~L~~L~l~~c~~l~~lp--~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..++.+++|++|++++|.++. +|..++.+++|++|++++ +.+..+|  ..++.+++|++|++++| .+..+|+
T Consensus        58 ~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~-N~i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~  130 (149)
T 2je0_A           58 ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSG-NKIKDLSTIEPLKKLENLKSLDLFNC-EVTNLND  130 (149)
T ss_dssp             TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTT-SCCCSHHHHGGGGGCTTCCEEECTTC-GGGGSTT
T ss_pred             hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCC-CcCCChHHHHHHhhCCCCCEEeCcCC-cccchHH
Confidence            567788889999999998887 777777789999999988 4677765  67888889999999888 6666654

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.51  E-value=1.3e-07  Score=77.81  Aligned_cols=65  Identities=20%  Similarity=0.226  Sum_probs=49.4

Q ss_pred             CccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTF  340 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~  340 (348)
                      +..+..+.+|++|++++|.++.+|+ .++.+++|+.|+|++ +.+..+|.. +..+++|+.|++++|+
T Consensus        71 ~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           71 NQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHG-NDISVVPEGAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECCS-SCCCBCCTTTTTTCTTCCEEECCSSC
T ss_pred             HhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECCC-CCCCeeChhhhhcCccccEEEeCCCC
Confidence            3557788888888888888887664 577888888888887 577777764 6778888888887773

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.46  E-value=2.8e-07  Score=73.76  Aligned_cols=81  Identities=25%  Similarity=0.345  Sum_probs=67.1

Q ss_pred             hhhccccee------eCCccccCCCCccEEecCCCCCcc-CchhhhccCCCCEeeccCCCccchhH--HHhcccccCcEe
Q 043181          264 SLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVET-SPESVCKLHNLETLKLQNCNRLQKLF--ADIGNLNNLHHL  334 (348)
Q Consensus       264 ~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~-lp~~~~~l~~L~~L~l~~c~~l~~lp--~~i~~l~~L~~L  334 (348)
                      +.+++.|.+      .+ ..++.+++|++|++++|.+.. +|..+..+++|++|++++ +.+..+|  ..+..+++|++|
T Consensus        48 l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~l~~l~~L~~L  125 (168)
T 2ell_A           48 FVNLEFLSLINVGLISV-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSG-NKLKDISTLEPLKKLECLKSL  125 (168)
T ss_dssp             GGGCCEEEEESSCCCCC-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBS-SSCCSSGGGGGGSSCSCCCEE
T ss_pred             CCCCCEEeCcCCCCCCh-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccC-CccCcchhHHHHhcCCCCCEE
Confidence            445555555      33 678899999999999999988 777778899999999999 5788887  689999999999


Q ss_pred             eccCCCCCCCCCC
Q 043181          335 DNFVTFSLESLES  347 (348)
Q Consensus       335 ~l~~~~~l~~lp~  347 (348)
                      ++++| .+..+|.
T Consensus       126 ~l~~N-~l~~~~~  137 (168)
T 2ell_A          126 DLFNC-EVTNLND  137 (168)
T ss_dssp             ECCSS-GGGTSTT
T ss_pred             EeeCC-cCcchHH
Confidence            99999 6666654

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.45  E-value=2.8e-07  Score=77.39  Aligned_cols=70  Identities=24%  Similarity=0.389  Sum_probs=39.5

Q ss_pred             CccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      |..+..+++|++|++++|.++.+|+. +..+++|+.|++++ +.+..+ |..+..+++|++|++++| .+..+|
T Consensus        73 ~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~  144 (220)
T 2v9t_B           73 PDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNA-NKINCLRVDAFQDLHNLNLLSLYDN-KLQTIA  144 (220)
T ss_dssp             TTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCSCCC
T ss_pred             HHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCC-CCCCEeCHHHcCCCCCCCEEECCCC-cCCEEC
Confidence            45556666666666666666665554 35566666666665 344444 334555666666666665 444443

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.44  E-value=2.5e-07  Score=74.64  Aligned_cols=71  Identities=24%  Similarity=0.315  Sum_probs=61.4

Q ss_pred             eCCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..+.  .+|++|++++|.++.+ |..++.+++|+.|+|++ +.+..+|.. +.++++|++|++++| .+..+|+
T Consensus        26 ~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~i~~~~~~~l~~L~~L~L~~N-~l~~l~~   98 (174)
T 2r9u_A           26 SVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNS-NKLTAIPTGVFDKLTQLTQLDLNDN-HLKSIPR   98 (174)
T ss_dssp             SCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT
T ss_pred             ccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCC-CCCCccChhHhCCcchhhEEECCCC-ccceeCH
Confidence            4666554  8899999999999987 56789999999999999 689999987 489999999999999 7777775

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.43  E-value=3.1e-07  Score=77.60  Aligned_cols=73  Identities=27%  Similarity=0.360  Sum_probs=64.1

Q ss_pred             eCC-ccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELP-SEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p-~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+| ..+..+++|++|++++|.++.+|+. +..+++|+.|++++ +.+..+|..+..+++|++|++++| .+..+|+
T Consensus        78 ~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls~-N~l~~lp~~~~~l~~L~~L~L~~N-~l~~~~~  152 (229)
T 3e6j_A           78 ALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCC-NKLTELPRGIERLTHLTHLALDQN-QLKSIPH  152 (229)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCSCCTTGGGCTTCSEEECCSS-CCCCCCT
T ss_pred             CcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEeccC-CcccccCcccccCCCCCEEECCCC-cCCccCH
Confidence            344 4468999999999999999998776 58999999999999 689999999999999999999999 7777763

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

Probab=98.43  E-value=3.7e-07  Score=79.09  Aligned_cols=67  Identities=25%  Similarity=0.403  Sum_probs=36.7

Q ss_pred             ccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +..+++|++|++++|.++.+|+. ++.+++|+.|++++ +.+..+|.. +.++++|++|++++| .+..+|
T Consensus       129 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~  197 (270)
T 2o6q_A          129 FDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYN-NQLKRVPEGAFDKLTELKTLKLDNN-QLKRVP  197 (270)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSS-CCSCCC
T ss_pred             hCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecC-CcCcEeChhHhccCCCcCEEECCCC-cCCcCC
Confidence            45556666666666655555543 45556666666655 345555442 455556666666555 444444

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.42  E-value=4.5e-07  Score=75.21  Aligned_cols=109  Identities=19%  Similarity=0.228  Sum_probs=71.8

Q ss_pred             ccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCc-cccCCCCccEEecCCCCCccCchh-hhc
Q 043181          232 IDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPS-EIGDLKILRYLNFSDAQVETSPES-VCK  303 (348)
Q Consensus       232 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~-~~~~l~~L~~l~l~~~~~~~lp~~-~~~  303 (348)
                      +..+++|+.+...++...    ......+ ..+.+++.|.+      .+|. .+..+++|++|++++|.++.+|+. +..
T Consensus        48 ~~~l~~L~~L~l~~n~l~----~~~~~~~-~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~  122 (208)
T 2o6s_A           48 FDELTSLTQLYLGGNKLQ----SLPNGVF-NKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDK  122 (208)
T ss_dssp             TTTCTTCSEEECCSSCCC----CCCTTTT-TTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTT
T ss_pred             hcccccCcEEECCCCccC----ccChhhc-CCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcCCCcCcccCHhHhcc
Confidence            345677777766554321    1111111 11334444444      3443 467888999999999988887765 688


Q ss_pred             cCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCC
Q 043181          304 LHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       304 l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +++|+.|++++ +.+..+|.. +..+++|++|++++|......|
T Consensus       123 l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~~~  165 (208)
T 2o6s_A          123 LTQLKDLRLYQ-NQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCP  165 (208)
T ss_dssp             CTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSCCBCCCTT
T ss_pred             CCcCCEEECCC-CccceeCHHHhccCCCccEEEecCCCeecCCC
Confidence            89999999988 567777765 6788899999998886555554

>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=98.42  E-value=4.2e-07  Score=74.83  Aligned_cols=108  Identities=13%  Similarity=0.155  Sum_probs=79.6

Q ss_pred             cCccccceeeeccCcccccccccchhHHHHhhhhccccee-----eCCccccCCCCccEEecCCCCCcc-CchhhhccCC
Q 043181          233 DGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY-----ELPSEIGDLKILRYLNFSDAQVET-SPESVCKLHN  306 (348)
Q Consensus       233 ~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-----~~p~~~~~l~~L~~l~l~~~~~~~-lp~~~~~l~~  306 (348)
                      .++++++.+...++...    .+.  . ...+.+++.|.+     ..++.+..+++|++|++++|.++. .|..++.+++
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~~  113 (197)
T 4ezg_A           41 AQMNSLTYITLANINVT----DLT--G-IEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTS  113 (197)
T ss_dssp             HHHHTCCEEEEESSCCS----CCT--T-GGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTT
T ss_pred             hhcCCccEEeccCCCcc----ChH--H-HhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccChhhcCCCC
Confidence            45667777766554431    111  0 112445665555     445688999999999999999985 7888999999


Q ss_pred             CCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          307 LETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       307 L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      |++|++++|.-....|..++.+++|++|++++|..+..+|.
T Consensus       114 L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~~  154 (197)
T 4ezg_A          114 LTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP  154 (197)
T ss_dssp             CCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCGG
T ss_pred             CCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccHh
Confidence            99999999654445788899999999999999954766653

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.41  E-value=3.1e-07  Score=73.82  Aligned_cols=66  Identities=26%  Similarity=0.352  Sum_probs=58.5

Q ss_pred             CCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTF  340 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~  340 (348)
                      .|..+..+.+|++|++++|.++.+|+. +..+++|++|+|++ +.+..+|+. +.++++|++|++++|+
T Consensus        46 ~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           46 EPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLND-NQLKSIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             CTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCC-CccCEeCHHHhcCCCCCCEEEeCCCC
Confidence            366789999999999999999998876 48999999999999 688899875 8899999999999984

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

Probab=98.41  E-value=5.7e-07  Score=78.02  Aligned_cols=61  Identities=31%  Similarity=0.453  Sum_probs=25.3

Q ss_pred             ccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~  339 (348)
                      ++.+++|++|++++|.++.+|+. ++.+++|+.|++++| .+..+|+. ++.+++|++|++++|
T Consensus       129 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~N  191 (272)
T 3rfs_A          129 FDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYN-QLQSLPEGVFDKLTQLKDLRLYQN  191 (272)
T ss_dssp             TTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             hccCCCCCEEECCCCccCccCHHHhccCccCCEEECCCC-CcCccCHHHhcCCccCCEEECCCC
Confidence            34444444444444444443332 234444444444442 33333332 234444444444444

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

Probab=98.40  E-value=6.2e-07  Score=77.78  Aligned_cols=112  Identities=26%  Similarity=0.317  Sum_probs=80.6

Q ss_pred             cccccccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCC-ccccCCCCccEEecCCCCCccCch
Q 043181          227 KRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELP-SEIGDLKILRYLNFSDAQVETSPE  299 (348)
Q Consensus       227 ~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p-~~~~~l~~L~~l~l~~~~~~~lp~  299 (348)
                      ..+..+..+++|+.+...++...    ...  .+ ..+.+++.|.+      .+| ..++.+++|++|++++|.++.+|+
T Consensus        54 ~~~~~l~~l~~L~~L~l~~n~l~----~~~--~l-~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  126 (272)
T 3rfs_A           54 KSVQGIQYLPNVRYLALGGNKLH----DIS--AL-KELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD  126 (272)
T ss_dssp             CCCTTGGGCTTCCEEECTTSCCC----CCG--GG-TTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCT
T ss_pred             ccccccccCCCCcEEECCCCCCC----Cch--hh-cCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCH
Confidence            34555667788888877665431    111  01 11344444444      333 447899999999999999998876


Q ss_pred             h-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          300 S-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       300 ~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      . ++.+++|++|++++| .+..+|+. ++.+++|++|++++| .+..+|+
T Consensus       127 ~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~  174 (272)
T 3rfs_A          127 GVFDKLTNLTYLNLAHN-QLQSLPKGVFDKLTNLTELDLSYN-QLQSLPE  174 (272)
T ss_dssp             TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT
T ss_pred             HHhccCCCCCEEECCCC-ccCccCHHHhccCccCCEEECCCC-CcCccCH
Confidence            5 689999999999994 78888775 588999999999999 6666664

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.40  E-value=4.4e-07  Score=76.18  Aligned_cols=64  Identities=17%  Similarity=0.256  Sum_probs=47.2

Q ss_pred             ccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~  340 (348)
                      ..+..+++|++|++++|.++.+ |..+..+++|+.|++++ +.+..+ |..+..+++|+.|++++|+
T Consensus        99 ~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A           99 KMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYD-NQITTVAPGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             GGGTTCSSCCEEECTTSCCCCBCTTSSTTCTTCSEEECTT-SCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             hHhcCCcCCCEEECCCCcCCeECHhHcCCCccCCEEECCC-CcCCEECHHHhcCCCCCCEEEecCcC
Confidence            3467778888888888887765 56677778888888887 466666 5667778888888887773

>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=98.39  E-value=5.7e-07  Score=78.83  Aligned_cols=70  Identities=29%  Similarity=0.333  Sum_probs=55.5

Q ss_pred             ccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHHh-cccccCcEeeccCCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFADI-GNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~i-~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..+..+++|++|++++|.++.+|+. +..+++|+.|++++ +.+..+|.++ ..+++|++|++++| .+..+|.
T Consensus       118 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~l~~~~~~~l~~L~~L~L~~N-~l~~ip~  189 (290)
T 1p9a_G          118 GALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN-NNLTELPAGLLNGLENLDTLLLQEN-SLYTIPK  189 (290)
T ss_dssp             STTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT-SCCSCCCTTTTTTCTTCCEEECCSS-CCCCCCT
T ss_pred             HHHcCCCCCCEEECCCCCCCccChhhcccccCCCEEECCC-CcCCccCHHHhcCcCCCCEEECCCC-cCCccCh
Confidence            5578888888888888888887765 47788888888888 5788888754 67888888888888 7777774

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.39  E-value=3.4e-07  Score=87.91  Aligned_cols=69  Identities=23%  Similarity=0.326  Sum_probs=63.7

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      .+|. ++.+++|++|++++|.++.+|..++.+++|+.|+|++ +.+..+| ++++|++|+.|++++| .+..+
T Consensus       455 ~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~-N~l~~lp-~l~~l~~L~~L~Ls~N-~l~~~  523 (567)
T 1dce_A          455 VLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASD-NALENVD-GVANLPRLQELLLCNN-RLQQS  523 (567)
T ss_dssp             SCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCS-SCCCCCG-GGTTCSSCCEEECCSS-CCCSS
T ss_pred             CCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCC-CCCCCCc-ccCCCCCCcEEECCCC-CCCCC
Confidence            5676 9999999999999999999999999999999999999 6888899 7999999999999999 67666

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.38  E-value=3.5e-07  Score=76.80  Aligned_cols=71  Identities=14%  Similarity=0.192  Sum_probs=60.5

Q ss_pred             CCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+..+..+.+|++|++++|.++.+|+. ++.+++|++|++++ +.+..+ |..+..+++|++|++++| .+..++
T Consensus        73 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~  145 (220)
T 2v70_A           73 EEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRS-NRITCVGNDSFIGLSSVRLLSLYDN-QITTVA  145 (220)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTT-SCCCCBCTTSSTTCTTCSEEECTTS-CCCCBC
T ss_pred             CHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCC-CcCCeECHhHcCCCccCCEEECCCC-cCCEEC
Confidence            345789999999999999999988765 88999999999999 567777 667899999999999999 666653

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.38  E-value=3.7e-07  Score=71.42  Aligned_cols=69  Identities=22%  Similarity=0.287  Sum_probs=60.6

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccch-hHHHhcccccCcEeeccCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQK-LFADIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~-lp~~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      +|..++.+++|++|++++|.++.+ +.++.+++|++|++++| .+.. +|..++.+++|++|++++| .+..+
T Consensus        34 ~~~~~~~l~~L~~L~l~~n~l~~~-~~~~~l~~L~~L~Ls~n-~i~~~~~~~~~~l~~L~~L~ls~N-~i~~~  103 (149)
T 2je0_A           34 LEGLTDEFEELEFLSTINVGLTSI-ANLPKLNKLKKLELSDN-RVSGGLEVLAEKCPNLTHLNLSGN-KIKDL  103 (149)
T ss_dssp             CCSCCTTCTTCCEEECTTSCCCCC-TTCCCCTTCCEEECCSS-CCCSCTHHHHHHCTTCCEEECTTS-CCCSH
T ss_pred             HHHHHhhcCCCcEEECcCCCCCCc-hhhhcCCCCCEEECCCC-cccchHHHHhhhCCCCCEEECCCC-cCCCh
Confidence            677788999999999999999988 77999999999999994 5666 8988888999999999999 56554

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.37  E-value=6.4e-07  Score=74.30  Aligned_cols=73  Identities=33%  Similarity=0.501  Sum_probs=61.1

Q ss_pred             eCCc-cccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPS-EIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~-~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|. .+..+++|++|++++|.++.+|+. ++.+++|+.|++++ +.+..+|.. +.++++|++|++++| .+..+|+
T Consensus        66 ~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~  141 (208)
T 2o6s_A           66 SLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNT-NQLQSLPDGVFDKLTQLKDLRLYQN-QLKSVPD  141 (208)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCT
T ss_pred             ccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcCC-CcCcccCHhHhccCCcCCEEECCCC-ccceeCH
Confidence            3443 468899999999999999998876 58999999999998 578888875 688999999999999 6666654

>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=98.37  E-value=3.8e-07  Score=81.36  Aligned_cols=72  Identities=18%  Similarity=0.236  Sum_probs=59.7

Q ss_pred             CCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .|..+..+++|++|++++|.++.+|+ .+..+++|+.|++++ +.+..+|.++..+++|++|++++| .+..+|.
T Consensus       208 ~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-N~l~~lp~~l~~l~~L~~L~l~~N-~i~~~~~  280 (330)
T 1xku_A          208 DAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNN-NKLVKVPGGLADHKYIQVVYLHNN-NISAIGS  280 (330)
T ss_dssp             CTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCS-SCCSSCCTTTTTCSSCCEEECCSS-CCCCCCT
T ss_pred             CHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCCEEECCC-CcCccCChhhccCCCcCEEECCCC-cCCccCh
Confidence            46778888999999999998887654 788889999999998 578889988888999999999988 6776653

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.37  E-value=4.8e-07  Score=72.64  Aligned_cols=71  Identities=28%  Similarity=0.362  Sum_probs=60.7

Q ss_pred             eCCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..+.  .+|++|++++|.++.+ |..++.+++|++|+|++ +.+..+|+. +..+++|++|++++| .+..+|+
T Consensus        23 ~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N-~l~~~~~   95 (170)
T 3g39_A           23 SVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDN-NQLTVLPAGVFDKLTQLTQLSLNDN-QLKSIPR   95 (170)
T ss_dssp             SCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT
T ss_pred             ccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCC-CCcCccChhhccCCCCCCEEECCCC-ccCEeCH
Confidence            3565553  7899999999999988 56689999999999999 689999986 489999999999999 7777764

>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=98.36  E-value=1.2e-06  Score=76.86  Aligned_cols=63  Identities=21%  Similarity=0.133  Sum_probs=43.6

Q ss_pred             cccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      .+..+++|+.|++++|.++.+|+.+ ..+++|+.|++++ +.+..+|.++..+.+|++|++++|+
T Consensus       143 ~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~L~~-N~l~~ip~~~~~~~~L~~l~L~~Np  206 (290)
T 1p9a_G          143 LLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQE-NSLYTIPKGFFGSHLLPFAFLHGNP  206 (290)
T ss_dssp             TTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             hcccccCCCEEECCCCcCCccCHHHhcCcCCCCEEECCC-CcCCccChhhcccccCCeEEeCCCC
Confidence            3566777777777777777776543 5677777777776 5677777777777777777777663

>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=98.35  E-value=3.4e-07  Score=91.33  Aligned_cols=75  Identities=21%  Similarity=0.297  Sum_probs=64.5

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..++.++.|+.|++++|.++ .+|.+++.+++|+.|+|++|...+.+|..++++++|++|++++|...+.+|.
T Consensus       647 ~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~ls~N~l~g~iP~  722 (768)
T 3rgz_A          647 YIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE  722 (768)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEECCCGGGGGCCCCSEEECCSSEEEEECCS
T ss_pred             cCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECcCCcccccCCC
Confidence            67888999999999999999987 7899999999999999998766678899999999999999999866667764

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

Probab=98.35  E-value=7.3e-07  Score=77.21  Aligned_cols=109  Identities=21%  Similarity=0.270  Sum_probs=76.5

Q ss_pred             ccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCC-ccccCCCCccEEecCCCCCccCchh-hhc
Q 043181          232 IDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELP-SEIGDLKILRYLNFSDAQVETSPES-VCK  303 (348)
Q Consensus       232 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p-~~~~~l~~L~~l~l~~~~~~~lp~~-~~~  303 (348)
                      +..+++|+.+...++...    .+....+ ..+.+++.|.+      .+| ..+..+++|++|++++|.++.+|+. ++.
T Consensus        57 ~~~l~~L~~L~l~~n~l~----~i~~~~~-~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~  131 (270)
T 2o6q_A           57 FHRLTKLRLLYLNDNKLQ----TLPAGIF-KELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDS  131 (270)
T ss_dssp             SSSCTTCCEEECCSSCCS----CCCTTTT-SSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTT
T ss_pred             hcCCCCCCEEECCCCccC----eeChhhh-cCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCc
Confidence            556777887776654421    1111111 11334444444      344 4568899999999999999987654 689


Q ss_pred             cCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          304 LHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       304 l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +++|++|++++ +.+..+|.. ++.+++|++|++++| .+..+|+
T Consensus       132 l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~  174 (270)
T 2o6q_A          132 LTKLTYLSLGY-NELQSLPKGVFDKLTSLKELRLYNN-QLKRVPE  174 (270)
T ss_dssp             CTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCT
T ss_pred             CcCCCEEECCC-CcCCccCHhHccCCcccceeEecCC-cCcEeCh
Confidence            99999999999 578888876 788999999999998 6666654

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

Probab=98.35  E-value=3.8e-07  Score=80.89  Aligned_cols=67  Identities=19%  Similarity=0.267  Sum_probs=45.2

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccc-cCcEeeccCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLN-NLHHLDNFVT  339 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~-~L~~L~l~~~  339 (348)
                      .+|..+..+++|++|++++|.++ .+|..++.+++|++|++++|.-...+|..++.++ +|++|++++|
T Consensus       116 ~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N  184 (313)
T 1ogq_A          116 AIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN  184 (313)
T ss_dssp             ECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSS
T ss_pred             cCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCC
Confidence            45666777777777777777766 5666677777777777776433336676677666 6777777666

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.34  E-value=4.8e-07  Score=81.33  Aligned_cols=70  Identities=19%  Similarity=0.195  Sum_probs=37.0

Q ss_pred             CCccccCCCCccEEecCC-CCCccCc-hhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSD-AQVETSP-ESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~-~~~~~lp-~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +|. ++.+.+|+.|+|++ |.++.+| ..++.|++|+.|+|++ +.+..+|+ .+++|++|++|+|++| .+..+|
T Consensus        24 ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~   96 (347)
T 2ifg_A           24 LHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVK-SGLRFVAPDAFHFTPRLSRLNLSFN-ALESLS   96 (347)
T ss_dssp             TTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCS-SCCCEECTTGGGSCSCCCEEECCSS-CCSCCC
T ss_pred             cCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCC-CccceeCHHHhcCCcCCCEEeCCCC-ccceeC
Confidence            444 55555555555553 5555544 3455555555555555 34444443 3455555555555555 444444

>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=98.33  E-value=5e-07  Score=87.47  Aligned_cols=108  Identities=17%  Similarity=0.161  Sum_probs=73.4

Q ss_pred             ccCccccceeeeccCcccccccccchhHHHHhhhhccccee-------eCCccccCCCCccEEecCCCCCccCc-hhhhc
Q 043181          232 IDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY-------ELPSEIGDLKILRYLNFSDAQVETSP-ESVCK  303 (348)
Q Consensus       232 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-------~~p~~~~~l~~L~~l~l~~~~~~~lp-~~~~~  303 (348)
                      +.++++|+.+...++...    ......+ ..+.+++.|.+       ..|..++++++|++|++++|.+..+| ..+++
T Consensus        52 ~~~l~~L~~L~Ls~n~l~----~i~~~~~-~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~~~  126 (606)
T 3vq2_A           52 FSNFSELQWLDLSRCEIE----TIEDKAW-HGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQ  126 (606)
T ss_dssp             TTTCTTCCEEECTTCCCC----EECTTTT-TTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEECTTSCCCCSSSSCCTT
T ss_pred             ccCCccCcEEeCCCCccc----ccCHHHh-hchhhcCEeECCCCcccccChhhcCCcccCCEEEccCCccccccccccCC
Confidence            456777777766654321    1111111 11233444443       34778889999999999999888776 67888


Q ss_pred             cCCCCEeeccCCCccc--hhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          304 LHNLETLKLQNCNRLQ--KLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       304 l~~L~~L~l~~c~~l~--~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +++|++|++++| .+.  .+|..++++++|++|++++| .+..+|
T Consensus       127 l~~L~~L~L~~n-~l~~~~lp~~~~~l~~L~~L~Ls~n-~l~~~~  169 (606)
T 3vq2_A          127 LITLKKLNVAHN-FIHSCKLPAYFSNLTNLVHVDLSYN-YIQTIT  169 (606)
T ss_dssp             CTTCCEEECCSS-CCCCCCCCGGGGTCTTCCEEECCSS-CCCEEC
T ss_pred             CCCCCEEeCCCC-cccceechHhHhhcCCCCEEEccCC-cceecC
Confidence            999999999984 454  57888999999999999888 555443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.33  E-value=7.1e-07  Score=80.76  Aligned_cols=106  Identities=17%  Similarity=0.236  Sum_probs=71.1

Q ss_pred             CccccceeeeccCcccccccccchhHHHHhhhhccccee------eC-CccccCCCCccEEecCCCCCccC-chhhhccC
Q 043181          234 GVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------EL-PSEIGDLKILRYLNFSDAQVETS-PESVCKLH  305 (348)
Q Consensus       234 ~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~-p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~  305 (348)
                      .+.+|+.|.+.++...    ......+ ..+.+++.|.+      .+ +..+..+.+|++|++++|.+..+ |..+..++
T Consensus        62 ~l~~L~~L~L~~N~i~----~i~~~~~-~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~  136 (361)
T 2xot_A           62 RLTNLHSLLLSHNHLN----FISSEAF-VPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMA  136 (361)
T ss_dssp             CCTTCCEEECCSSCCC----EECTTTT-TTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCT
T ss_pred             cccccCEEECCCCcCC----ccChhhc-cCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCCCcccEECHHHhCCcc
Confidence            5667777766554431    1111111 11334444444      33 44578889999999999988876 56788899


Q ss_pred             CCCEeeccCCCccchhHHHh----cccccCcEeeccCCCCCCCCC
Q 043181          306 NLETLKLQNCNRLQKLFADI----GNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       306 ~L~~L~l~~c~~l~~lp~~i----~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +|+.|+|++ +.+..+|..+    ..+++|++|++++| .+..+|
T Consensus       137 ~L~~L~L~~-N~l~~l~~~~~~~~~~l~~L~~L~L~~N-~l~~l~  179 (361)
T 2xot_A          137 QLQKLYLSQ-NQISRFPVELIKDGNKLPKLMLLDLSSN-KLKKLP  179 (361)
T ss_dssp             TCCEEECCS-SCCCSCCGGGTC----CTTCCEEECCSS-CCCCCC
T ss_pred             cCCEEECCC-CcCCeeCHHHhcCcccCCcCCEEECCCC-CCCccC
Confidence            999999998 6788888765    57888999999988 677766

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

Probab=98.33  E-value=7.9e-07  Score=82.68  Aligned_cols=70  Identities=21%  Similarity=0.309  Sum_probs=47.1

Q ss_pred             cccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+..+++|++|++++|.++.+|+ .+..+++|+.|++++|+.+..+|. .+.++++|++|++++| .+..+|.
T Consensus       131 ~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~  202 (440)
T 3zyj_A          131 AFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC-NLREIPN  202 (440)
T ss_dssp             TSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTS-CCSSCCC
T ss_pred             HhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCC-cCccccc
Confidence            46777777777777777776654 566677777777777666666665 3566666777766666 5555553

>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=98.33  E-value=7e-07  Score=77.49  Aligned_cols=63  Identities=25%  Similarity=0.332  Sum_probs=31.2

Q ss_pred             ccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccch--hHHHhcccccCcEeeccCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQK--LFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~--lp~~i~~l~~L~~L~l~~~  339 (348)
                      ..+..+++|++|++++|.+..+++ .++.+++|+.|++++ +.+..  +|..++++++|++|++++|
T Consensus        94 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~l~~~~~~l~~L~~L~Ls~N  159 (276)
T 2z62_A           94 GAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSSN  159 (276)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCS-SCCCCCCCCGGGGGCTTCCEEECCSS
T ss_pred             hhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcC-CccceecCchhhccCCCCCEEECCCC
Confidence            344555555555555555544433 345555555555554 23333  4445555555555555555

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.32  E-value=7.3e-07  Score=74.78  Aligned_cols=71  Identities=24%  Similarity=0.346  Sum_probs=62.2

Q ss_pred             CCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+..+..+++|++|++++|.++.+ |..+..+++|++|+|++ +.+..+|.+ +..+++|++|++++| .+..++
T Consensus        48 ~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~N-~l~~~~  120 (220)
T 2v9t_B           48 PPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYG-NKITELPKSLFEGLFSLQLLLLNAN-KINCLR  120 (220)
T ss_dssp             CTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCC
T ss_pred             CHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCC-CcCCccCHhHccCCCCCCEEECCCC-CCCEeC
Confidence            345788999999999999999986 77899999999999999 689999987 578999999999999 666664

>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=98.32  E-value=7.4e-07  Score=83.17  Aligned_cols=71  Identities=20%  Similarity=0.278  Sum_probs=51.7

Q ss_pred             ccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..+..+++|++|++++|.++.+|+ .+..+++|+.|++++|+.+..+|.. +..+++|++|++++| .+..+|.
T Consensus       141 ~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n-~l~~~~~  213 (452)
T 3zyi_A          141 GAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC-NIKDMPN  213 (452)
T ss_dssp             TTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTS-CCSSCCC
T ss_pred             hhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCC-ccccccc
Confidence            346778888888888888877665 5677778888888777777777763 667777777777777 5665553

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.31  E-value=9.8e-07  Score=71.19  Aligned_cols=68  Identities=24%  Similarity=0.334  Sum_probs=54.6

Q ss_pred             eCC-ccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHHh-cccccCcEeeccCCCC
Q 043181          273 ELP-SEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFADI-GNLNNLHHLDNFVTFS  341 (348)
Q Consensus       273 ~~p-~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~i-~~l~~L~~L~l~~~~~  341 (348)
                      .+| ..+..+.+|++|++++|.++.+|+. ++.+++|+.|++++ +.+..+|..+ ..+++|++|++++|+.
T Consensus        66 ~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A           66 SLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDT-NQLKSVPDGIFDRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             EeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEECcC-CcceEeCHHHhcCCcccCEEEecCCCe
Confidence            344 3468889999999999998888765 57889999999998 5788888764 7788999999988843

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.31  E-value=4.8e-07  Score=74.19  Aligned_cols=76  Identities=18%  Similarity=0.241  Sum_probs=59.5

Q ss_pred             hhhccccee-------eCCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchh-HHHhcccccCcEe
Q 043181          264 SLKLQCFRY-------ELPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHL  334 (348)
Q Consensus       264 ~~~~~~l~~-------~~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L  334 (348)
                      +.+++.|.+       ..|..+..+.+|++|++++|.++.+|+. ++.+++|++|++++ +.+..+ |..+..+++|++|
T Consensus        53 l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L  131 (192)
T 1w8a_A           53 LPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSL  131 (192)
T ss_dssp             CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCS-SCCCEECTTSSTTCTTCCEE
T ss_pred             CCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEECCC-CcCCeeCHHHhhcCCCCCEE
Confidence            344555544       3477888999999999999999887654 78899999999998 456555 6678889999999


Q ss_pred             eccCCC
Q 043181          335 DNFVTF  340 (348)
Q Consensus       335 ~l~~~~  340 (348)
                      ++++|.
T Consensus       132 ~L~~N~  137 (192)
T 1w8a_A          132 NLASNP  137 (192)
T ss_dssp             ECTTCC
T ss_pred             EeCCCC
Confidence            999884

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.31  E-value=9.6e-07  Score=71.23  Aligned_cols=67  Identities=15%  Similarity=0.097  Sum_probs=59.4

Q ss_pred             eCCccc-cCCCCccEEecCCCCCccCch--hhhccCCCCEeeccCCCccchhHHH----hcccccCcEeeccCCC
Q 043181          273 ELPSEI-GDLKILRYLNFSDAQVETSPE--SVCKLHNLETLKLQNCNRLQKLFAD----IGNLNNLHHLDNFVTF  340 (348)
Q Consensus       273 ~~p~~~-~~l~~L~~l~l~~~~~~~lp~--~~~~l~~L~~L~l~~c~~l~~lp~~----i~~l~~L~~L~l~~~~  340 (348)
                      .+|+.+ +.+++|++|++++|.+..+|.  .++.+++|+.|++++ +.+..+|..    ++.+++|+.|++++|.
T Consensus        78 ~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~-N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A           78 RIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILR-NPVTNKKHYRLYVIYKVPQVRVLDFQKVK  151 (176)
T ss_dssp             EECSCHHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCS-SGGGGSTTHHHHHHHHCTTCSEETTEECC
T ss_pred             ccCcchhhcCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEecC-CCCCCcHhHHHHHHHHCCccceeCCCcCC
Confidence            456554 899999999999999999987  899999999999999 678899985    8999999999998873

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

Probab=98.29  E-value=1.4e-06  Score=79.57  Aligned_cols=68  Identities=18%  Similarity=0.299  Sum_probs=43.0

Q ss_pred             CccccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLES  344 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~  344 (348)
                      |..++.+++|++|++++|.++.+|+.+ +.+++|++|++++| .+..+|+ .++.+++|++|++++| .+..
T Consensus       110 ~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~l~~n-~l~~  179 (390)
T 3o6n_A          110 PHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSN-RLTH  179 (390)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTSSCTTCCEEECCSS-CCSB
T ss_pred             HHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCC-ccCccChhhccCCCCCCEEECCCC-cCCc
Confidence            344666777777777777777666653 66777777777763 4444433 4666777777777766 4433

>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=98.29  E-value=2.1e-06  Score=75.84  Aligned_cols=65  Identities=22%  Similarity=0.321  Sum_probs=42.1

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +..+++|++|++++|.++.+|+ ++.+++|+.|++++ +.+..+|. +..+++|++|++++| .+..+|
T Consensus       125 l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~-n~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~  189 (308)
T 1h6u_A          125 LAGLSNLQVLYLDLNQITNISP-LAGLTNLQYLSIGN-AQVSDLTP-LANLSKLTTLKADDN-KISDIS  189 (308)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECCS-SCCCCCGG-GTTCTTCCEEECCSS-CCCCCG
T ss_pred             hcCCCCCCEEECCCCccCcCcc-ccCCCCccEEEccC-CcCCCChh-hcCCCCCCEEECCCC-ccCcCh
Confidence            5666666666666666666655 66666777777766 35666665 666777777777766 455444

>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=98.28  E-value=1.1e-06  Score=87.65  Aligned_cols=75  Identities=24%  Similarity=0.382  Sum_probs=58.5

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..++.+++|++|++++|.+. .+|..++.+++|+.|++++|...+.+|..++++++|+.|++++|...+.+|.
T Consensus       481 ~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~  556 (768)
T 3rgz_A          481 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPA  556 (768)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCG
T ss_pred             cCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCCh
Confidence            46777788888888888888876 6788888888888888888666667888888888888888888865556663

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=98.28  E-value=1.3e-06  Score=74.79  Aligned_cols=72  Identities=25%  Similarity=0.324  Sum_probs=61.8

Q ss_pred             CCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .|..+..+++|++|++++|.++.+|+ .+..+++|++|++++ +.+..+|+. +..+++|++|++++| .+..+|+
T Consensus        75 ~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~  148 (251)
T 3m19_A           75 SAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGG-NQLKSLPSGVFDRLTKLKELRLNTN-QLQSIPA  148 (251)
T ss_dssp             CTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT
T ss_pred             CHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEcCC-CcCCCcChhHhccCCcccEEECcCC-cCCccCH
Confidence            45568899999999999999998875 468999999999999 688888876 588999999999999 7777764

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.27  E-value=8.6e-07  Score=72.65  Aligned_cols=66  Identities=18%  Similarity=0.334  Sum_probs=53.4

Q ss_pred             ccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      ++.+++|++|++++|.++.+ |..++.+++|+.|++++ +.+..+|+. +..+++|++|++++| .+..+
T Consensus        50 ~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~  117 (192)
T 1w8a_A           50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE-NKIKEISNKMFLGLHQLKTLNLYDN-QISCV  117 (192)
T ss_dssp             GGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS-CCCCEECSSSSTTCTTCCEEECCSS-CCCEE
T ss_pred             cccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCC-CcCCccCHHHhcCCCCCCEEECCCC-cCCee
Confidence            78888999999999988876 67788899999999988 567777664 778889999999888 44433

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.27  E-value=1.2e-06  Score=71.93  Aligned_cols=73  Identities=23%  Similarity=0.348  Sum_probs=64.6

Q ss_pred             eCCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..+..+.+|++|++++|.++.+|+ .+..+++|+.|++++ +.+..+|+ .+..+++|++|++++| .+..+|+
T Consensus        45 ~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~-N~l~~i~~~~f~~l~~L~~L~L~~N-~l~~~~~  119 (193)
T 2wfh_A           45 LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSY-NRLRCIPPRTFDGLKSLRLLSLHGN-DISVVPE  119 (193)
T ss_dssp             SCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCBCCTTTTTTCTTCCEEECCSS-CCCBCCT
T ss_pred             hhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCC-CccCEeCHHHhCCCCCCCEEECCCC-CCCeeCh
Confidence            678889999999999999999998864 689999999999999 67888876 5889999999999999 7777764

>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=98.27  E-value=4.9e-07  Score=87.69  Aligned_cols=68  Identities=21%  Similarity=0.229  Sum_probs=55.8

Q ss_pred             CccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLES  344 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~  344 (348)
                      |..+.++++|++|+|++|+++.+|+ .++.+++|++|++++ +.+..+|+. +++|++|++|++++| .+..
T Consensus        93 ~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~Ls~-N~l~~l~~~~~~~L~~L~~L~Ls~N-~l~~  162 (635)
T 4g8a_A           93 DGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE-TNLASLENFPIGHLKTLKELNVAHN-LIQS  162 (635)
T ss_dssp             TTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEECTT-SCCCCSTTCCCTTCTTCCEEECCSS-CCCC
T ss_pred             hhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEECCC-CcCCCCChhhhhcCcccCeeccccC-cccc
Confidence            4568889999999999999988875 468899999999998 578888764 788999999999888 5544

>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=98.25  E-value=1.5e-06  Score=75.76  Aligned_cols=61  Identities=26%  Similarity=0.353  Sum_probs=26.5

Q ss_pred             ccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~  339 (348)
                      ++.+++|++|++++|.++.+|+. +..+++|+.|++++| .+..+ |..+.++++|+.|++++|
T Consensus       149 ~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n  211 (285)
T 1ozn_A          149 FRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN-RVAHVHPHAFRDLGRLMTLYLFAN  211 (285)
T ss_dssp             TTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS
T ss_pred             hccCCCccEEECCCCcccccCHHHhcCccccCEEECCCC-cccccCHhHccCcccccEeeCCCC
Confidence            34444444444444444444332 444444444444442 22222 334444444444444444

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

Probab=98.25  E-value=1e-06  Score=84.44  Aligned_cols=68  Identities=25%  Similarity=0.318  Sum_probs=48.9

Q ss_pred             CccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccc--hhHHHhcccccCcEeeccCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQ--KLFADIGNLNNLHHLDNFVTFSLES  344 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~--~lp~~i~~l~~L~~L~l~~~~~l~~  344 (348)
                      |..++.+.+|++|++++|.++.+|+ .++.+++|++|++++| .+.  .+|..++++++|++|++++| .+..
T Consensus        93 ~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~lp~~~~~l~~L~~L~l~~n-~l~~  163 (570)
T 2z63_A           93 LGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHN-LIQSFKLPEYFSNLTNLEHLDLSSN-KIQS  163 (570)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCCSTTCSCTTCTTCCEEECCSS-CCCCCCCCGGGGGCTTCCEEECTTS-CCCE
T ss_pred             HhhhcCccccccccccccccccCCCccccccccccEEecCCC-ccceecChhhhcccCCCCEEeCcCC-ccce
Confidence            4567777888888888887777765 5777788888888774 444  36777777888888888777 4443

>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=98.24  E-value=2.6e-06  Score=75.22  Aligned_cols=59  Identities=27%  Similarity=0.417  Sum_probs=28.6

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ++.+++|++|++++|.++.+|+ +..+++|+.|++++ +.+..+|. +..+++|++|++++|
T Consensus       147 l~~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~l~~-n~l~~~~~-l~~l~~L~~L~L~~N  205 (308)
T 1h6u_A          147 LAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADD-NKISDISP-LASLPNLIEVHLKNN  205 (308)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCS-SCCCCCGG-GGGCTTCCEEECTTS
T ss_pred             ccCCCCccEEEccCCcCCCChh-hcCCCCCCEEECCC-CccCcChh-hcCCCCCCEEEccCC
Confidence            4444555555555555544444 44455555555554 23444443 444445555555444

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

Probab=98.23  E-value=7.8e-07  Score=89.30  Aligned_cols=72  Identities=22%  Similarity=0.309  Sum_probs=46.0

Q ss_pred             eCCccccCCCCccEEecCCCC-Cc--cCchhhhccC-------CCCEeeccCCCccchhHH--HhcccccCcEeeccCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQ-VE--TSPESVCKLH-------NLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~-~~--~lp~~~~~l~-------~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~  340 (348)
                      .+|..++++++|++|++++|. ++  .+|..++.++       +|+.|++++ +.+..+|.  .++++++|++|++++| 
T Consensus       506 ~iP~~l~~L~~L~~L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~-N~L~~ip~~~~l~~L~~L~~L~Ls~N-  583 (876)
T 4ecn_A          506 QLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGY-NNLEEFPASASLQKMVKLGLLDCVHN-  583 (876)
T ss_dssp             SCCGGGGGCSSCCEEECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCS-SCCCBCCCHHHHTTCTTCCEEECTTS-
T ss_pred             cChHHHhCCCCCCEEECcCCCCcccccchHHHHhhhhcccccCCccEEEeeC-CcCCccCChhhhhcCCCCCEEECCCC-
Confidence            456666777777777777775 55  3666666555       666777666 34556666  6666666666666666 


Q ss_pred             CCCCCC
Q 043181          341 SLESLE  346 (348)
Q Consensus       341 ~l~~lp  346 (348)
                      .+..+|
T Consensus       584 ~l~~lp  589 (876)
T 4ecn_A          584 KVRHLE  589 (876)
T ss_dssp             CCCBCC
T ss_pred             Ccccch
Confidence            444555

>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=98.23  E-value=3.5e-06  Score=73.81  Aligned_cols=59  Identities=20%  Similarity=0.365  Sum_probs=26.0

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      +..+++|++|++++|.++.+ +.++.+++|+.|++++ +.+..+|+ +..+++|++|++++|
T Consensus       130 l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~-N~l~~~~~-l~~l~~L~~L~L~~N  188 (291)
T 1h6t_A          130 LVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLED-NQISDIVP-LAGLTKLQNLYLSKN  188 (291)
T ss_dssp             GGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCS-SCCCCCGG-GTTCTTCCEEECCSS
T ss_pred             hcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccC-Cccccchh-hcCCCccCEEECCCC
Confidence            34444444444444444444 2344444444444444 23444433 444444444444444

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

Probab=98.23  E-value=1.6e-06  Score=84.46  Aligned_cols=74  Identities=14%  Similarity=0.153  Sum_probs=54.6

Q ss_pred             eCCcccc--CCCCccEEecCCCCCccCchhhhccCCCCEeecc------CCCccchhHHHhcccccCcEeeccCCCCCCC
Q 043181          273 ELPSEIG--DLKILRYLNFSDAQVETSPESVCKLHNLETLKLQ------NCNRLQKLFADIGNLNNLHHLDNFVTFSLES  344 (348)
Q Consensus       273 ~~p~~~~--~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~------~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~  344 (348)
                      .+|..+.  .+++|++|++++|.++.+|..++.+++|+.|+++      ++...+.+|.+++++++|++|++++| .++.
T Consensus       502 ~lp~~~~~~~l~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls~N-~l~~  580 (636)
T 4eco_A          502 KLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSN-DIRK  580 (636)
T ss_dssp             BCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECCSS-CCCB
T ss_pred             ccChhhhhccCCCcCEEECCCCCCCCcChhhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECCCC-cCCc
Confidence            5666665  7777888888888777777777788888888774      33346677777888888888888888 5577


Q ss_pred             CCC
Q 043181          345 LES  347 (348)
Q Consensus       345 lp~  347 (348)
                      +|.
T Consensus       581 ip~  583 (636)
T 4eco_A          581 VNE  583 (636)
T ss_dssp             CCS
T ss_pred             cCH
Confidence            764

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

Probab=98.22  E-value=1.6e-06  Score=87.12  Aligned_cols=74  Identities=14%  Similarity=0.176  Sum_probs=52.9

Q ss_pred             eCCcccc--CCCCccEEecCCCCCccCchhhhccCCCCEeeccC------CCccchhHHHhcccccCcEeeccCCCCCCC
Q 043181          273 ELPSEIG--DLKILRYLNFSDAQVETSPESVCKLHNLETLKLQN------CNRLQKLFADIGNLNNLHHLDNFVTFSLES  344 (348)
Q Consensus       273 ~~p~~~~--~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~------c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~  344 (348)
                      .+|..+.  .+++|+.|++++|.++.+|..++.+++|+.|++++      |.....+|..++++++|+.|++++| .++.
T Consensus       742 ~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls~N-~L~~  820 (876)
T 4ecn_A          742 SLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSN-DIRK  820 (876)
T ss_dssp             CCCGGGSTTTCTTCCEEECCSSCCSSCCCGGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECCSS-CCCB
T ss_pred             cchHHhhhccCCCcCEEEeCCCCCCccchhhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECCCC-CCCc
Confidence            4666665  77777777777777777777777777777777755      3445677777777777888888777 5577


Q ss_pred             CCC
Q 043181          345 LES  347 (348)
Q Consensus       345 lp~  347 (348)
                      +|.
T Consensus       821 Ip~  823 (876)
T 4ecn_A          821 VDE  823 (876)
T ss_dssp             CCS
T ss_pred             cCH
Confidence            764

>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=98.22  E-value=2.2e-06  Score=82.93  Aligned_cols=69  Identities=17%  Similarity=0.303  Sum_probs=47.0

Q ss_pred             CccccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      |..++.+++|++|++++|.++.+|+.+ +.+++|++|++++| .+..+|+ .++++++|++|++++| .+..+
T Consensus       116 ~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~  186 (597)
T 3oja_B          116 PHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSN-RLTHV  186 (597)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCBCCTTTTTTCTTCCEEECTTS-CCSBC
T ss_pred             HHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCC-cCCCCChhhhhcCCcCcEEECcCC-CCCCc
Confidence            344577777777777777777777664 77777777777774 4444443 5777777777777777 44443

>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=98.22  E-value=3.8e-06  Score=73.57  Aligned_cols=108  Identities=17%  Similarity=0.223  Sum_probs=77.9

Q ss_pred             ccccccCccccceeeeccCcccccccccchhHHHHhhhhccccee-----eCCccccCCCCccEEecCCCCCccCchhhh
Q 043181          228 RFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY-----ELPSEIGDLKILRYLNFSDAQVETSPESVC  302 (348)
Q Consensus       228 ~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-----~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~  302 (348)
                      .++.+..+++|+.+...++...    ....   ...+.+++.|.+     .-++.+..+++|++|++++|.++.+| .+.
T Consensus        60 ~~~~~~~l~~L~~L~L~~n~l~----~~~~---l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~i~~~~-~l~  131 (291)
T 1h6t_A           60 SVQGIQYLPNVTKLFLNGNKLT----DIKP---LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDIN-GLV  131 (291)
T ss_dssp             CCTTGGGCTTCCEEECCSSCCC----CCGG---GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEECTTSCCCCCG-GGG
T ss_pred             cChhHhcCCCCCEEEccCCccC----CCcc---cccCCCCCEEECCCCcCCCChhhccCCCCCEEECCCCcCCCCh-hhc
Confidence            3445666778888877665431    1111   112344444444     22345889999999999999999884 589


Q ss_pred             ccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          303 KLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       303 ~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+++|+.|++++ +.+..++ .++.+++|++|++++| .+..+|
T Consensus       132 ~l~~L~~L~l~~-n~l~~~~-~l~~l~~L~~L~L~~N-~l~~~~  172 (291)
T 1h6t_A          132 HLPQLESLYLGN-NKITDIT-VLSRLTKLDTLSLEDN-QISDIV  172 (291)
T ss_dssp             GCTTCCEEECCS-SCCCCCG-GGGGCTTCSEEECCSS-CCCCCG
T ss_pred             CCCCCCEEEccC-CcCCcch-hhccCCCCCEEEccCC-ccccch
Confidence            999999999998 5788884 6899999999999999 666665

>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=98.22  E-value=1.6e-06  Score=75.59  Aligned_cols=70  Identities=24%  Similarity=0.351  Sum_probs=56.5

Q ss_pred             CCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      .|..+..+++|++|++++|.++.+|+. ++.+++|+.|++++ +.+..+|.. +..+++|++|++++| .+..+
T Consensus       121 ~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~  192 (285)
T 1ozn_A          121 GPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQN-RVAHV  192 (285)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSS-CCCEE
T ss_pred             CHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCC-CcccccCHHHhcCccccCEEECCCC-ccccc
Confidence            356678899999999999998887764 78899999999998 577788764 788899999999988 44433

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

Probab=98.21  E-value=7.6e-07  Score=78.90  Aligned_cols=74  Identities=22%  Similarity=0.264  Sum_probs=64.0

Q ss_pred             eCCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+|..++.+++|++|++++|.++ .+|..++.+++|++|++++|.-...+|..++++++|++|++++|...+.+|
T Consensus        92 ~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p  166 (313)
T 1ogq_A           92 PIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIP  166 (313)
T ss_dssp             CCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECC
T ss_pred             cCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCC
Confidence            47888999999999999999998 799999999999999999954444899999999999999999994333555

>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=98.20  E-value=1.1e-06  Score=79.05  Aligned_cols=62  Identities=24%  Similarity=0.322  Sum_probs=36.8

Q ss_pred             ccCCCCccEEecCCCCCccCch--hhhccCCCCEeeccCCCccchhH-HHhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPE--SVCKLHNLETLKLQNCNRLQKLF-ADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~--~~~~l~~L~~L~l~~c~~l~~lp-~~i~~l~~L~~L~l~~~  339 (348)
                      ++.+++|++|++++|.++.+|.  .++.+++|++|++++|..+..+| ..++.+++|++|++++|
T Consensus       120 ~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n  184 (353)
T 2z80_A          120 FKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS  184 (353)
T ss_dssp             HTTCTTCSEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEET
T ss_pred             hCCCccCCEEECCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCC
Confidence            5556666666666666666655  45566666666666644455553 34556666666666665

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.20  E-value=1.6e-06  Score=69.86  Aligned_cols=70  Identities=29%  Similarity=0.376  Sum_probs=55.1

Q ss_pred             ccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..++.+.+|++|++++|.++.+|+. ++.+++|+.|++++ +.+..+|.. +..+++|++|++++| .+..+|+
T Consensus        46 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~  117 (177)
T 2o6r_A           46 GVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHE-NKLQSLPNGVFDKLTQLKELALDTN-QLKSVPD  117 (177)
T ss_dssp             TTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCTTCCEEECCSS-CCSCCCT
T ss_pred             HHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCC-CCccccCHHHhhCCcccCEEECcCC-cceEeCH
Confidence            3467888888899888888887765 57888888988888 577777765 578888888888888 6666664

>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=98.19  E-value=2e-06  Score=75.78  Aligned_cols=65  Identities=29%  Similarity=0.448  Sum_probs=45.8

Q ss_pred             CCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~  339 (348)
                      +|..+..+++|++|++++|.++.+ |..+..+++|+.|++++ +.+..+|. .+..+++|++|++++|
T Consensus       167 ~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~L~~N  233 (306)
T 2z66_A          167 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH-NNFFSLDTFPYKCLNSLQVLDYSLN  233 (306)
T ss_dssp             ECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTT-SCCSBCCSGGGTTCTTCCEEECTTS
T ss_pred             chhHHhhCcCCCEEECCCCCcCCcCHHHhcCCCCCCEEECCC-CccCccChhhccCcccCCEeECCCC
Confidence            566677777777777777777765 55667777777777777 45555554 4666777777777777

>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=98.19  E-value=1.5e-06  Score=84.24  Aligned_cols=109  Identities=19%  Similarity=0.229  Sum_probs=77.1

Q ss_pred             cccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCC-ccccCCCCccEEecCCCCCccCch-hhh
Q 043181          231 AIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELP-SEIGDLKILRYLNFSDAQVETSPE-SVC  302 (348)
Q Consensus       231 ~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p-~~~~~l~~L~~l~l~~~~~~~lp~-~~~  302 (348)
                      .+.++++|+.|....+...    .+....+ ..+.+++.|.+      .+| ..+..+.+|++|++++|.++.+|+ .++
T Consensus        71 ~f~~l~~L~~L~Ls~N~i~----~i~~~~f-~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~Ls~N~l~~l~~~~~~  145 (635)
T 4g8a_A           71 SFFSFPELQVLDLSRCEIQ----TIEDGAY-QSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIG  145 (635)
T ss_dssp             TTTTCTTCCEEECTTCCCC----EECTTTT-TTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEECTTSCCCCSTTCCCT
T ss_pred             HHhCCCCCCEEECCCCcCC----CcChhHh-cCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEECCCCcCCCCChhhhh
Confidence            3567788888877665431    1111111 11334444444      455 457999999999999999999876 489


Q ss_pred             ccCCCCEeeccCCCccc--hhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          303 KLHNLETLKLQNCNRLQ--KLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       303 ~l~~L~~L~l~~c~~l~--~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+++|++|++++ +.+.  .+|..++.+++|++|++++| .+..++
T Consensus       146 ~L~~L~~L~Ls~-N~l~~~~~~~~~~~l~~L~~L~L~~N-~l~~~~  189 (635)
T 4g8a_A          146 HLKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSIY  189 (635)
T ss_dssp             TCTTCCEEECCS-SCCCCCCCCGGGGGCTTCCEEECCSS-CCCEEC
T ss_pred             cCcccCeecccc-CccccCCCchhhccchhhhhhcccCc-cccccc
Confidence            999999999998 4554  45788899999999999998 555443

>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=98.19  E-value=1.6e-06  Score=83.91  Aligned_cols=58  Identities=21%  Similarity=0.284  Sum_probs=28.1

Q ss_pred             cCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          279 GDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      +.+++|++|++++|.+..+|+ .++.+++|++|++++ +.+..+|  ++.+++|++|++++|
T Consensus       144 ~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~--~~~l~~L~~L~l~~n  202 (597)
T 3oja_B          144 HNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSS-NRLTHVD--LSLIPSLFHANVSYN  202 (597)
T ss_dssp             TTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTT-SCCSBCC--GGGCTTCSEEECCSS
T ss_pred             ccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcC-CCCCCcC--hhhhhhhhhhhcccC
Confidence            455555555555555544332 345555555555555 3344443  334444444444444

>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=98.17  E-value=8.2e-07  Score=75.36  Aligned_cols=68  Identities=12%  Similarity=0.093  Sum_probs=43.8

Q ss_pred             cccCCCCccEEecCC-CCCccCch-hhhccCCCCEeeccCCCccchhHHHhcccccCc---EeeccCCCCCCCCC
Q 043181          277 EIGDLKILRYLNFSD-AQVETSPE-SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLH---HLDNFVTFSLESLE  346 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~-~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~---~L~l~~~~~l~~lp  346 (348)
                      .+..+++|++|++++ |.++.+|+ .+..+++|+.|++++ +.+..+|. ++.+++|+   +|++++|..+..+|
T Consensus        75 ~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~-n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~  147 (239)
T 2xwt_C           75 SFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFN-TGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIP  147 (239)
T ss_dssp             TEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEE-ECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEEC
T ss_pred             HcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCC-CCCccccc-cccccccccccEEECCCCcchhhcC
Confidence            456677777777776 66666653 456677777777776 45666665 66666666   77777664444444

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.17  E-value=1.9e-06  Score=77.88  Aligned_cols=72  Identities=22%  Similarity=0.271  Sum_probs=61.6

Q ss_pred             CCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .|..+..+++|++|+|++|.++.+|+ .+..+++|+.|+|++ +.+..+ |..+..+++|++|++++| .+..+|.
T Consensus        80 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~i~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~  153 (361)
T 2xot_A           80 SSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYN-NHIVVVDRNAFEDMAQLQKLYLSQN-QISRFPV  153 (361)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS-SCCCEECTTTTTTCTTCCEEECCSS-CCCSCCG
T ss_pred             ChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCC-CcccEECHHHhCCcccCCEEECCCC-cCCeeCH
Confidence            34568999999999999999998876 578999999999999 567777 567899999999999999 7777763

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

Probab=98.15  E-value=1.8e-06  Score=78.79  Aligned_cols=72  Identities=17%  Similarity=0.133  Sum_probs=60.2

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ..|..+..+++|++|++++|.++.+|..+..+++|+.|++++ +.+..+|..++.+++|+.|++++| .+..+|
T Consensus       263 ~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~~-n~l~~~~~~~~~l~~L~~L~L~~N-~i~~~~  334 (390)
T 3o6n_A          263 IMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSH-NHLLHVERNQPQFDRLENLYLDHN-SIVTLK  334 (390)
T ss_dssp             EESGGGTTCSSCCEEECCSSCCCEEECSSSCCTTCCEEECCS-SCCCCCGGGHHHHTTCSEEECCSS-CCCCCC
T ss_pred             cChhHccccccCCEEECCCCcCcccCcccCCCCCCCEEECCC-CcceecCccccccCcCCEEECCCC-ccceeC
Confidence            347778889999999999999888888888889999999998 478888888888889999999888 565554

>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=98.15  E-value=5.5e-06  Score=80.04  Aligned_cols=67  Identities=19%  Similarity=0.360  Sum_probs=43.0

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +.+..+++|+.|+|++|.++.+ +.++.+++|+.|+|++ +.+..+++ +..+++|+.|+|++| .+..+|
T Consensus       125 ~~l~~l~~L~~L~Ls~N~l~~l-~~l~~l~~L~~L~Ls~-N~l~~~~~-l~~l~~L~~L~Ls~N-~i~~l~  191 (605)
T 1m9s_A          125 NGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLED-NQISDIVP-LAGLTKLQNLYLSKN-HISDLR  191 (605)
T ss_dssp             GGGGGCTTCSEEECCSSCCCCC-GGGGSCTTCSEEECCS-SCCCCCGG-GTTCTTCCEEECCSS-CCCBCG
T ss_pred             ccccCCCccCEEECCCCccCCc-hhhcccCCCCEEECcC-CcCCCchh-hccCCCCCEEECcCC-CCCCCh
Confidence            3456666666666666666666 4466677777777776 35555555 667777777777776 454444

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

Probab=98.15  E-value=2.5e-06  Score=75.69  Aligned_cols=61  Identities=18%  Similarity=0.123  Sum_probs=51.0

Q ss_pred             cCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          279 GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      ..+++|++|++++|.++.+|+.+..+++|+.|++++ +.+..+|..+..+++|+.|++++|.
T Consensus       188 ~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~-N~l~~l~~~~~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          188 VVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRN-NKLVLIEKALRFSQNLEHFDLRGNG  248 (317)
T ss_dssp             CCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTT-SCCCEECTTCCCCTTCCEEECTTCC
T ss_pred             cccccCCEEECCCCcCCcchhhhcccCcccEEECcC-CcccchhhHhhcCCCCCEEEccCCC
Confidence            357888888888888888888888888888888888 5777888888888888888888884

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.14  E-value=8.8e-06  Score=70.11  Aligned_cols=55  Identities=29%  Similarity=0.430  Sum_probs=32.4

Q ss_pred             CCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          282 KILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+|++|++++|.++.+| .++.+++|+.|++++ +.+..+| .++.+++|++|++++|
T Consensus       106 ~~L~~L~L~~N~l~~~~-~l~~l~~L~~L~Ls~-N~i~~~~-~l~~l~~L~~L~L~~N  160 (263)
T 1xeu_A          106 ACLSRLFLDNNELRDTD-SLIHLKNLEILSIRN-NKLKSIV-MLGFLSKLEVLDLHGN  160 (263)
T ss_dssp             SSCCEEECCSSCCSBSG-GGTTCTTCCEEECTT-SCCCBCG-GGGGCTTCCEEECTTS
T ss_pred             CcccEEEccCCccCCCh-hhcCcccccEEECCC-CcCCCCh-HHccCCCCCEEECCCC
Confidence            55666666666665554 355666666666665 3455555 3556666666666655

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

Probab=98.13  E-value=2.6e-06  Score=76.03  Aligned_cols=70  Identities=20%  Similarity=0.256  Sum_probs=55.5

Q ss_pred             CccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      |..+..+++|++|++++|.+..+|+ .++.+++|+.|++++ +.+..+|.++..+++|++|++++| .+..+|
T Consensus       210 ~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~lp~~l~~l~~L~~L~l~~N-~l~~~~  280 (332)
T 2ft3_A          210 LEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDN-NKLSRVPAGLPDLKLLQVVYLHTN-NITKVG  280 (332)
T ss_dssp             TTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCS-SCCCBCCTTGGGCTTCCEEECCSS-CCCBCC
T ss_pred             HHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCC-CcCeecChhhhcCccCCEEECCCC-CCCccC
Confidence            4567788888888888888887654 678888888888887 577788888888888888888888 666665

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

Probab=98.13  E-value=7.6e-07  Score=86.83  Aligned_cols=73  Identities=12%  Similarity=0.140  Sum_probs=64.0

Q ss_pred             CCcccc--CCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccc--hhHHHhccc------ccCcEeeccCCCCC
Q 043181          274 LPSEIG--DLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQ--KLFADIGNL------NNLHHLDNFVTFSL  342 (348)
Q Consensus       274 ~p~~~~--~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~--~lp~~i~~l------~~L~~L~l~~~~~l  342 (348)
                      +|..++  ++++|++|++++|.+. .+|+.++++++|++|++++|..+.  .+|.+++++      ++|++|++++| .+
T Consensus       239 ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n-~l  317 (636)
T 4eco_A          239 KTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NL  317 (636)
T ss_dssp             TTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSS-CC
T ss_pred             CchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCC-cC
Confidence            899999  9999999999999855 689999999999999999965355  699999887      89999999999 66


Q ss_pred             CCCCC
Q 043181          343 ESLES  347 (348)
Q Consensus       343 ~~lp~  347 (348)
                      ..+|.
T Consensus       318 ~~ip~  322 (636)
T 4eco_A          318 KTFPV  322 (636)
T ss_dssp             SSCCC
T ss_pred             CccCc
Confidence            68875

>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=98.13  E-value=1.8e-06  Score=77.82  Aligned_cols=72  Identities=19%  Similarity=0.138  Sum_probs=60.8

Q ss_pred             CCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .|..++.+++|++|++++|.++.+|+. ++.+++|++|++++ +.+..+|.  .+.++++|++|++++|..+..+|
T Consensus        92 ~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~-n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~  166 (353)
T 2z80_A           92 EEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLG-NPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQ  166 (353)
T ss_dssp             CTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTT-CCCSSSCSSCSCTTCTTCCEEEEEESSSCCEEC
T ss_pred             CHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCC-CCCcccCchhhhccCCCCcEEECCCCccccccC
Confidence            456788999999999999999998877 78899999999998 57888887  68889999999999885555553

>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=98.13  E-value=7.2e-06  Score=73.44  Aligned_cols=61  Identities=20%  Similarity=0.312  Sum_probs=37.6

Q ss_pred             cccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+..+++|++|++++|.+..+|+ +..+++|+.|++++|..+..+|. +..+++|++|++++|
T Consensus       105 ~~~~l~~L~~L~l~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~-~~~l~~L~~L~l~~~  165 (347)
T 4fmz_A          105 ALQNLTNLRELYLNEDNISDISP-LANLTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTES  165 (347)
T ss_dssp             GGTTCTTCSEEECTTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGG-GTTCTTCCEEECCSS
T ss_pred             HHcCCCcCCEEECcCCcccCchh-hccCCceeEEECCCCCCcccccc-hhhCCCCcEEEecCC
Confidence            46666777777777776666655 66666666666666555554443 555555555555555

>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=98.12  E-value=2.6e-06  Score=74.99  Aligned_cols=73  Identities=23%  Similarity=0.380  Sum_probs=61.0

Q ss_pred             eCCccccCCCCccEEecCCCCCcc--CchhhhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVET--SPESVCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~--lp~~~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..|..+..+++|++|++++|.+..  +|..+..+++|+.|++++| .+..+ |..+.++++|++|++++| .+..+|.
T Consensus       141 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~  216 (306)
T 2z66_A          141 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDT  216 (306)
T ss_dssp             CSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTS-CCSBCCS
T ss_pred             cchhhcccCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCC-CcCCcCHHHhcCCCCCCEEECCCC-ccCccCh
Confidence            456678899999999999999875  7888999999999999995 56666 667889999999999999 5665543

>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=98.12  E-value=4e-06  Score=81.03  Aligned_cols=66  Identities=24%  Similarity=0.335  Sum_probs=54.1

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      ..++.+++|+.|+|++|.+..+++ +..+++|+.|+|++ +.+..+| .+..|++|+.|++++| .+...
T Consensus       147 ~~l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~-N~i~~l~-~l~~l~~L~~L~L~~N-~l~~~  212 (605)
T 1m9s_A          147 TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSK-NHISDLR-ALAGLKNLDVLELFSQ-ECLNK  212 (605)
T ss_dssp             GGGGSCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCS-SCCCBCG-GGTTCTTCSEEECCSE-EEECC
T ss_pred             hhhcccCCCCEEECcCCcCCCchh-hccCCCCCEEECcC-CCCCCCh-HHccCCCCCEEEccCC-cCcCC
Confidence            567888999999999999888877 88899999999998 4777776 4888899999999888 44443

>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=98.11  E-value=3e-06  Score=82.00  Aligned_cols=73  Identities=23%  Similarity=0.261  Sum_probs=48.9

Q ss_pred             CCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +|..++.+++|++|++++|.++.+ |..++.+++|+.|++++|.-....|..++++++|+.|++++| .+..+|.
T Consensus       465 ~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~p~  538 (606)
T 3vq2_A          465 LSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFN-RIETSKG  538 (606)
T ss_dssp             ECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTS-CCCCEES
T ss_pred             hHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCC-cCcccCH
Confidence            566677777777777777777654 455677777777777775333333666777777777777777 5555553

>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=98.11  E-value=2.5e-06  Score=79.55  Aligned_cols=74  Identities=22%  Similarity=0.198  Sum_probs=62.2

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..|..+..+++|++|++++|.++.+|+. ++.+++|+.|++++ +.+..+|. .+.++++|++|++++|..++.+|.
T Consensus       114 ~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~  189 (452)
T 3zyi_A          114 IEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRN-NPIESIPSYAFNRVPSLMRLDLGELKKLEYISE  189 (452)
T ss_dssp             ECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCS-CCCCEECTTTTTTCTTCCEEECCCCTTCCEECT
T ss_pred             cChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCC-CCcceeCHhHHhcCCcccEEeCCCCCCccccCh
Confidence            3457788999999999999999988765 78899999999998 57888876 578899999999999777776653

>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=98.10  E-value=3.4e-06  Score=78.56  Aligned_cols=72  Identities=21%  Similarity=0.172  Sum_probs=49.6

Q ss_pred             CCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .|..++.+++|++|++++|.++.+ |..++.+++|++|++++ +.+..+|.. +..+++|++|++++|+.....|
T Consensus       339 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~-N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~  412 (455)
T 3v47_A          339 DSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDT-NQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP  412 (455)
T ss_dssp             CGGGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS-SCCSCCCTTTTTTCTTCCEEECCSSCBCCCTT
T ss_pred             ChhHhcCcccCCEEECCCCcccccChhhccccccccEEECCC-CccccCCHhHhccCCcccEEEccCCCcccCCC
Confidence            355667777777777777777765 56677777777777777 466667664 4677777777777775444444

>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=98.10  E-value=3.9e-06  Score=78.11  Aligned_cols=73  Identities=23%  Similarity=0.175  Sum_probs=62.0

Q ss_pred             eCCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..|..++.+++|++|++++|.++.+ |..++.+++|+.|++++| .+..+ |..++.+++|++|++++| .+..+|+
T Consensus       314 ~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~  388 (455)
T 3v47_A          314 IDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTN-QLKSVPD  388 (455)
T ss_dssp             ECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCSCCCT
T ss_pred             cChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCC-cccccChhhccccccccEEECCCC-ccccCCH
Confidence            3467889999999999999999876 667899999999999995 56666 778999999999999999 7777764

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.09  E-value=1.3e-07  Score=77.94  Aligned_cols=78  Identities=17%  Similarity=0.185  Sum_probs=65.4

Q ss_pred             hhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeecc
Q 043181          264 SLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNF  337 (348)
Q Consensus       264 ~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~  337 (348)
                      +.+++.|.+      .+| .+..+++|++|++++|.++.+|..+..+++|+.|++++ +.+..+| .++.+++|++|+++
T Consensus        47 l~~L~~L~ls~n~l~~l~-~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~-N~l~~l~-~~~~l~~L~~L~l~  123 (198)
T 1ds9_A           47 LKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISY-NQIASLS-GIEKLVNLRVLYMS  123 (198)
T ss_dssp             TTTCSEEECSEEEESCCC-CHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEE-EECCCHH-HHHHHHHSSEEEES
T ss_pred             CCCCCEEECCCCCCcccc-ccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcC-CcCCcCC-ccccCCCCCEEECC
Confidence            445555554      566 88899999999999999999999888899999999998 5888888 59999999999999


Q ss_pred             CCCCCCCC
Q 043181          338 VTFSLESL  345 (348)
Q Consensus       338 ~~~~l~~l  345 (348)
                      +| .+..+
T Consensus       124 ~N-~i~~~  130 (198)
T 1ds9_A          124 NN-KITNW  130 (198)
T ss_dssp             EE-ECCCH
T ss_pred             CC-cCCch
Confidence            98 55543

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.08  E-value=1.9e-07  Score=76.98  Aligned_cols=101  Identities=17%  Similarity=0.143  Sum_probs=77.4

Q ss_pred             cccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhcc
Q 043181          231 AIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKL  304 (348)
Q Consensus       231 ~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l  304 (348)
                      .+..+++|+.+...++...    .+.  .+ ..+.+++.|.+      .+|..+..+++|++|++++|.++.+| .++.+
T Consensus        43 ~~~~l~~L~~L~ls~n~l~----~l~--~~-~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~l  114 (198)
T 1ds9_A           43 TLSTLKACKHLALSTNNIE----KIS--SL-SGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKL  114 (198)
T ss_dssp             HHHHTTTCSEEECSEEEES----CCC--CH-HHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEECCCHH-HHHHH
T ss_pred             HHhcCCCCCEEECCCCCCc----ccc--cc-ccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcCCcCC-ccccC
Confidence            3456778888877655431    121  11 22456666665      67777788899999999999999987 69999


Q ss_pred             CCCCEeeccCCCccchhHH--HhcccccCcEeeccCCC
Q 043181          305 HNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       305 ~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~  340 (348)
                      ++|+.|++++ +.+..+|.  .+..+++|++|++++|.
T Consensus       115 ~~L~~L~l~~-N~i~~~~~~~~l~~l~~L~~L~l~~N~  151 (198)
T 1ds9_A          115 VNLRVLYMSN-NKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HHSSEEEESE-EECCCHHHHHHHTTTTTCSEEEECSCH
T ss_pred             CCCCEEECCC-CcCCchhHHHHHhcCCCCCEEEecCCc
Confidence            9999999999 67888775  78999999999999983

>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=98.06  E-value=1.7e-05  Score=70.93  Aligned_cols=69  Identities=25%  Similarity=0.289  Sum_probs=49.6

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +.+..+++|++|++++|.++.+| .+..+++|+.|++++|.-....|..++.+++|++|++++| .+..+|
T Consensus       259 ~~~~~l~~L~~L~l~~n~l~~~~-~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n-~l~~~~  327 (347)
T 4fmz_A          259 NAVKDLTKLKMLNVGSNQISDIS-VLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-HITDIR  327 (347)
T ss_dssp             GGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSS-SCCCCG
T ss_pred             hhHhcCCCcCEEEccCCccCCCh-hhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCC-cccccc
Confidence            45677778888888888777774 4777788888888886444455566777888888888887 455554

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

Probab=98.06  E-value=3.9e-06  Score=79.08  Aligned_cols=62  Identities=18%  Similarity=0.111  Sum_probs=50.2

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      ...+++|++|++++|.++.+|+.++.+++|+.|++++ +.+..+|..++.+++|+.|++++|.
T Consensus       187 ~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~Ls~-N~l~~lp~~l~~l~~L~~L~l~~N~  248 (487)
T 3oja_A          187 QVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRN-NKLVLIEKALRFSQNLEHFDLRGNG  248 (487)
T ss_dssp             CCCCTTCCEEECCSSCCCEECGGGGGGTTCSEEECTT-SCCCEECTTCCCCTTCCEEECTTCC
T ss_pred             cccCCCCCEEECCCCCCCCCCHhHcCCCCccEEEecC-CcCcccchhhccCCCCCEEEcCCCC
Confidence            3457888888888888888888888888888888888 5677788888888888888888874

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

Probab=98.05  E-value=3.6e-06  Score=79.36  Aligned_cols=71  Identities=17%  Similarity=0.144  Sum_probs=59.9

Q ss_pred             CCcccc-CCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIG-DLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~-~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .|..+. .+++|++|++++|.++.+|+ ...+++|+.|+|++ +.+..+|++++.+++|+.|++++| .+..+|.
T Consensus       160 ~~~~l~~~l~~L~~L~Ls~N~l~~~~~-~~~l~~L~~L~Ls~-N~l~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~  231 (487)
T 3oja_A          160 NFAELAASSDTLEHLNLQYNFIYDVKG-QVVFAKLKTLDLSS-NKLAFMGPEFQSAAGVTWISLRNN-KLVLIEK  231 (487)
T ss_dssp             EGGGGGGGTTTCCEEECTTSCCCEEEC-CCCCTTCCEEECCS-SCCCEECGGGGGGTTCSEEECTTS-CCCEECT
T ss_pred             ChHHHhhhCCcccEEecCCCccccccc-cccCCCCCEEECCC-CCCCCCCHhHcCCCCccEEEecCC-cCcccch
Confidence            455665 78999999999999988866 45689999999999 678899989999999999999999 6666664

>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=98.04  E-value=2.3e-06  Score=72.56  Aligned_cols=68  Identities=21%  Similarity=0.133  Sum_probs=37.0

Q ss_pred             ccCCCCcc---EEecCCC-CCccCchh-hhccCCCC-EeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          278 IGDLKILR---YLNFSDA-QVETSPES-VCKLHNLE-TLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       278 ~~~l~~L~---~l~l~~~-~~~~lp~~-~~~l~~L~-~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ++.+.+|+   +|++++| .++.+|+. +..+++|+ .|++++ +.+..+|..+...++|+.|++++|..++.+|
T Consensus       123 ~~~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~-n~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~  196 (239)
T 2xwt_C          123 LTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYN-NGFTSVQGYAFNGTKLDAVYLNKNKYLTVID  196 (239)
T ss_dssp             CTTCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCS-CCCCEECTTTTTTCEEEEEECTTCTTCCEEC
T ss_pred             cccccccccccEEECCCCcchhhcCcccccchhcceeEEEcCC-CCCcccCHhhcCCCCCCEEEcCCCCCcccCC
Confidence            44555555   6666666 55555443 55566666 666665 3455565544444556666666663344443

>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=98.03  E-value=2.7e-06  Score=81.19  Aligned_cols=62  Identities=27%  Similarity=0.420  Sum_probs=38.2

Q ss_pred             ccCCCCccEEecCCCCCcc--CchhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVET--SPESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~--lp~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~  339 (348)
                      ++.+++|++|++++|.++.  .|..++.+++|++|++++|..+..+|. .++++++|++|++++|
T Consensus        94 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n  158 (549)
T 2z81_A           94 FGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKAL  158 (549)
T ss_dssp             HTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEET
T ss_pred             hccCCCCcEEECCCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCC
Confidence            5666666666666666653  345566666666666666544555653 4666666666666666

>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=98.03  E-value=8e-06  Score=80.12  Aligned_cols=67  Identities=19%  Similarity=0.139  Sum_probs=40.6

Q ss_pred             eCCc-cccCCCCccEEecCCCCCccCc-hhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          273 ELPS-EIGDLKILRYLNFSDAQVETSP-ESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       273 ~~p~-~~~~l~~L~~l~l~~~~~~~lp-~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+|. .++.+.+|++|++++|.+..+| ..++.+++|++|++++|......|..++++++|++|++++|
T Consensus        87 ~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n  155 (680)
T 1ziw_A           87 QLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNN  155 (680)
T ss_dssp             CCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCCCCSSSCCTTCCEEECCSS
T ss_pred             ccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCCcccccCchhhcccccCCEEEccCC
Confidence            3443 4666777777777777666655 35666777777777664333333444556666666666666

>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=98.03  E-value=4.5e-06  Score=79.16  Aligned_cols=63  Identities=22%  Similarity=0.216  Sum_probs=44.1

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccch--hHHHhcccccCcEeeccCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQK--LFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~--lp~~i~~l~~L~~L~l~~~  339 (348)
                      .|..++.+++|++|++++|.++.+|..  .+++|++|++++| .+..  +|..++++++|++|++++|
T Consensus        61 ~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~L~~N-~l~~~~~p~~~~~l~~L~~L~L~~n  125 (520)
T 2z7x_B           61 DISVFKFNQELEYLDLSHNKLVKISCH--PTVNLKHLDLSFN-AFDALPICKEFGNMSQLKFLGLSTT  125 (520)
T ss_dssp             EGGGGTTCTTCCEEECCSSCCCEEECC--CCCCCSEEECCSS-CCSSCCCCGGGGGCTTCCEEEEEES
T ss_pred             ChHHhhcccCCCEEecCCCceeecCcc--ccCCccEEeccCC-ccccccchhhhccCCcceEEEecCc
Confidence            356677777777777777777777765  6777777777773 4443  5667777777777777766

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=98.03  E-value=5.7e-06  Score=73.06  Aligned_cols=65  Identities=17%  Similarity=0.101  Sum_probs=40.2

Q ss_pred             CCccccCCCCccEEecCCCCCcc---Cchh--hhccCCCCEeeccCCCccchhHHH----hcccccCcEeeccCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVET---SPES--VCKLHNLETLKLQNCNRLQKLFAD----IGNLNNLHHLDNFVT  339 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~---lp~~--~~~l~~L~~L~l~~c~~l~~lp~~----i~~l~~L~~L~l~~~  339 (348)
                      .|..++.+++|++|++++|.+..   +|..  ++.+++|++|++++ +.+..+|..    ++++++|++|++++|
T Consensus       161 ~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~-N~l~~l~~~~~~l~~~l~~L~~L~Ls~N  234 (310)
T 4glp_A          161 SCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRN-TGMETPTGVCAALAAAGVQPHSLDLSHN  234 (310)
T ss_dssp             CTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCS-SCCCCHHHHHHHHHHHTCCCSSEECTTS
T ss_pred             hHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCC-CCCCchHHHHHHHHhcCCCCCEEECCCC
Confidence            34566777777777777777542   3322  25667777777776 355555542    355666777777666

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

Probab=98.02  E-value=8.2e-06  Score=72.13  Aligned_cols=60  Identities=22%  Similarity=0.173  Sum_probs=47.1

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ..+..+++|++|++++|.++.+|..+.  ++|+.|++++ +.+..+|. +..+++|++|++++|
T Consensus       247 ~~~~~l~~L~~L~Ls~N~l~~ip~~~~--~~L~~L~Ls~-N~l~~~p~-~~~l~~L~~L~L~~N  306 (312)
T 1wwl_A          247 PSCDWPSQLNSLNLSFTGLKQVPKGLP--AKLSVLDLSY-NRLDRNPS-PDELPQVGNLSLKGN  306 (312)
T ss_dssp             SCCCCCTTCCEEECTTSCCSSCCSSCC--SEEEEEECCS-SCCCSCCC-TTTSCEEEEEECTTC
T ss_pred             hhhhhcCCCCEEECCCCccChhhhhcc--CCceEEECCC-CCCCCChh-HhhCCCCCEEeccCC
Confidence            345567888888888888888887776  7888888887 57777776 788888888888887

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.01  E-value=4.8e-06  Score=71.79  Aligned_cols=77  Identities=25%  Similarity=0.240  Sum_probs=58.8

Q ss_pred             hhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeecc
Q 043181          264 SLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNF  337 (348)
Q Consensus       264 ~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~  337 (348)
                      +.+++.|.+      .+| .++.+++|++|++++|.++.+|+ ++.+++|+.|++++ +.+..+|. +.. ++|++|+++
T Consensus        40 l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~-l~~l~~L~~L~L~~-N~l~~l~~-~~~-~~L~~L~L~  114 (263)
T 1xeu_A           40 LSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQISDLSP-LKDLTKLEELSVNR-NRLKNLNG-IPS-ACLSRLFLD  114 (263)
T ss_dssp             HTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCS-SCCSCCTT-CCC-SSCCEEECC
T ss_pred             cCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCccCCChh-hccCCCCCEEECCC-CccCCcCc-ccc-CcccEEEcc
Confidence            444555444      445 67888899999999999888887 88899999999998 57888876 334 889999998


Q ss_pred             CCCCCCCCC
Q 043181          338 VTFSLESLE  346 (348)
Q Consensus       338 ~~~~l~~lp  346 (348)
                      +| .+..+|
T Consensus       115 ~N-~l~~~~  122 (263)
T 1xeu_A          115 NN-ELRDTD  122 (263)
T ss_dssp             SS-CCSBSG
T ss_pred             CC-ccCCCh
Confidence            88 666554

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

Probab=98.01  E-value=4.6e-06  Score=77.50  Aligned_cols=73  Identities=22%  Similarity=0.255  Sum_probs=61.1

Q ss_pred             CCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+..+..+++|++|++++|.++.+|+ .+..+++|+.|++++ +.+..+|. .+.++++|++|++++|..+..+|.
T Consensus       104 ~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~-N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~  178 (440)
T 3zyj_A          104 EIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRN-NPIESIPSYAFNRIPSLRRLDLGELKRLSYISE  178 (440)
T ss_dssp             CGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCS-CCCCEECTTTTTTCTTCCEEECCCCTTCCEECT
T ss_pred             ChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCC-CcccccCHHHhhhCcccCEeCCCCCCCcceeCc
Confidence            34678899999999999999998876 588999999999998 57888876 578899999999998767666553

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

Probab=98.01  E-value=4.9e-06  Score=73.76  Aligned_cols=70  Identities=17%  Similarity=0.160  Sum_probs=58.9

Q ss_pred             Cccc-cCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          275 PSEI-GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       275 p~~~-~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      |..+ ..+++|++|++++|.++.+|. ...+++|+.|++++ +.+..+|+.+..+++|++|++++| .+..+|.
T Consensus       161 ~~~~~~~l~~L~~L~L~~N~l~~~~~-~~~l~~L~~L~Ls~-N~l~~l~~~~~~l~~L~~L~L~~N-~l~~l~~  231 (317)
T 3o53_A          161 FAELAASSDTLEHLNLQYNFIYDVKG-QVVFAKLKTLDLSS-NKLAFMGPEFQSAAGVTWISLRNN-KLVLIEK  231 (317)
T ss_dssp             GGGGGGGTTTCCEEECTTSCCCEEEC-CCCCTTCCEEECCS-SCCCEECGGGGGGTTCSEEECTTS-CCCEECT
T ss_pred             HHHHhhccCcCCEEECCCCcCccccc-ccccccCCEEECCC-CcCCcchhhhcccCcccEEECcCC-cccchhh
Confidence            3444 478999999999999998865 44589999999999 688899989999999999999999 7777664

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

Probab=97.99  E-value=5.2e-06  Score=79.52  Aligned_cols=66  Identities=23%  Similarity=0.361  Sum_probs=31.6

Q ss_pred             CCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~  340 (348)
                      +|..+..+++|++|++++|.++.+ |..++.+++|+.|++++| .+..+|+ .+.++++|+.|++++|+
T Consensus       462 ~p~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~N~  529 (570)
T 2z63_A          462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHTNP  529 (570)
T ss_dssp             ECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             chhhhhcccCCCEEECCCCccccCChhhhhcccCCCEEeCCCC-cCCCCCHHHhhcccCCcEEEecCCc
Confidence            344444555555555555554443 444455555555555542 3333332 24455555555555543

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

Probab=97.96  E-value=5.3e-06  Score=83.57  Aligned_cols=66  Identities=21%  Similarity=0.242  Sum_probs=50.1

Q ss_pred             eCCccccCCCCccEEecCCCCCcc-Cchh--hhccCCCCEeeccCCCccchh--HHHhcccccCcEeeccCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVET-SPES--VCKLHNLETLKLQNCNRLQKL--FADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~-lp~~--~~~l~~L~~L~l~~c~~l~~l--p~~i~~l~~L~~L~l~~~  339 (348)
                      ..|..++.+.+|++|++++|.+.. +|+.  ++++++|++|++++| .+..+  |..++++++|++|++++|
T Consensus        88 ~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N-~l~~~~~~~~~~~L~~L~~L~Ls~N  158 (844)
T 3j0a_A           88 LHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKN-QIRSLYLHPSFGKLNSLKSIDFSSN  158 (844)
T ss_dssp             ECTTSSCSCSSCCCEECTTCCCSSCCSTTCCCSSCSSCCEEEEESC-CCCCCCCCGGGGTCSSCCEEEEESS
T ss_pred             cCHhHccCCcccCEeeCcCCCCCcccccCccccccCCCCEEECCCC-cccccccchhHhhCCCCCEEECCCC
Confidence            357778888888888888888765 5555  788888888888884 45444  246788888888888887

>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=97.96  E-value=9.1e-06  Score=77.93  Aligned_cols=63  Identities=22%  Similarity=0.200  Sum_probs=47.7

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhH--HHhcccccCcEeeccCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLF--ADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp--~~i~~l~~L~~L~l~~~  339 (348)
                      .|..++.+++|++|++++|.++++|..  .+++|++|++++ +.+..+|  ..++++++|++|++++|
T Consensus        92 ~~~~~~~l~~L~~L~Ls~N~l~~lp~~--~l~~L~~L~Ls~-N~l~~l~~p~~~~~l~~L~~L~L~~n  156 (562)
T 3a79_B           92 DFHVFLFNQDLEYLDVSHNRLQNISCC--PMASLRHLDLSF-NDFDVLPVCKEFGNLTKLTFLGLSAA  156 (562)
T ss_dssp             CTTTTTTCTTCCEEECTTSCCCEECSC--CCTTCSEEECCS-SCCSBCCCCGGGGGCTTCCEEEEECS
T ss_pred             CHHHhCCCCCCCEEECCCCcCCccCcc--ccccCCEEECCC-CCccccCchHhhcccCcccEEecCCC
Confidence            356677888888888888888887776  778888888887 4565543  67788888888888777

>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=97.95  E-value=8.8e-06  Score=79.83  Aligned_cols=70  Identities=24%  Similarity=0.264  Sum_probs=60.1

Q ss_pred             CCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhH-HHhcccccCcEeeccCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLF-ADIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp-~~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      .|..++++++|++|++++|.++.+|+ .++.+++|++|++++| .+..+| ..++++++|++|++++| .+...
T Consensus        65 ~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~  136 (680)
T 1ziw_A           65 EPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNPFVKQKNLITLDLSHN-GLSST  136 (680)
T ss_dssp             CTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCSCTTTTCTTCCEEECCSS-CCSCC
T ss_pred             CHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEECCCC-ccCccChhHccccCCCCEEECCCC-ccccc
Confidence            46778899999999999999999987 5899999999999994 677777 46899999999999999 44443

>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=97.95  E-value=7.6e-06  Score=76.75  Aligned_cols=68  Identities=24%  Similarity=0.260  Sum_probs=46.3

Q ss_pred             cccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCCCCCCCC
Q 043181          277 EIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+..+++|++|++++|.+..+ |..+..+++|+.|++++ +.+..+ |..+.++++|++|++++| .+..+|
T Consensus        99 ~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~  168 (477)
T 2id5_A           99 VFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD-NDLVYISHRAFSGLNSLEQLTLEKC-NLTSIP  168 (477)
T ss_dssp             SSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECC-TTCCEECTTSSTTCTTCCEEEEESC-CCSSCC
T ss_pred             cccCCCCCCEEECCCCccccCChhHccccccCCEEECCC-CccceeChhhccCCCCCCEEECCCC-cCcccC
Confidence            356777777777777777654 45667777777777777 344444 445777778888888777 555554

>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=97.94  E-value=1.7e-05  Score=70.62  Aligned_cols=71  Identities=20%  Similarity=0.253  Sum_probs=57.3

Q ss_pred             eCCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .+|..+.  ++|++|++++|.++.+ |..+..+++|+.|++++ +.+..+|. .+..+++|++|++++| .+..+|.
T Consensus       185 ~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~-n~l~~~~~~~~~~l~~L~~L~L~~N-~l~~lp~  257 (330)
T 1xku_A          185 TIPQGLP--PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSF-NSISAVDNGSLANTPHLRELHLNNN-KLVKVPG  257 (330)
T ss_dssp             SCCSSCC--TTCSEEECTTSCCCEECTGGGTTCTTCCEEECCS-SCCCEECTTTGGGSTTCCEEECCSS-CCSSCCT
T ss_pred             cCCcccc--ccCCEEECCCCcCCccCHHHhcCCCCCCEEECCC-CcCceeChhhccCCCCCCEEECCCC-cCccCCh
Confidence            4554443  7899999999998875 67889999999999998 46666665 6889999999999999 7777774

>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=97.94  E-value=1.3e-05  Score=69.31  Aligned_cols=44  Identities=36%  Similarity=0.582  Sum_probs=26.4

Q ss_pred             cccCCCCccEEecCCCCCcc--CchhhhccCCCCEeeccCCCccchh
Q 043181          277 EIGDLKILRYLNFSDAQVET--SPESVCKLHNLETLKLQNCNRLQKL  321 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~--lp~~~~~l~~L~~L~l~~c~~l~~l  321 (348)
                      .++.+++|++|++++|.+..  +|..++.+++|+.|++++| .+..+
T Consensus       119 ~~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N-~l~~~  164 (276)
T 2z62_A          119 PIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQSI  164 (276)
T ss_dssp             CCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSS-CCCEE
T ss_pred             hcccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCC-CCCcC
Confidence            45666666666666666654  4566666666666666663 34443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=97.94  E-value=1.4e-05  Score=70.58  Aligned_cols=61  Identities=25%  Similarity=0.234  Sum_probs=44.1

Q ss_pred             CccccCC---CCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          275 PSEIGDL---KILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       275 p~~~~~l---~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      |..+..+   ++|++|++++|.++.+|..+.  ++|+.|++++ +.+..+|. +..+++|+.|++++|
T Consensus       241 p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~--~~L~~L~Ls~-N~l~~~~~-~~~l~~L~~L~L~~N  304 (310)
T 4glp_A          241 NPSAPRCMWSSALNSLNLSFAGLEQVPKGLP--AKLRVLDLSS-NRLNRAPQ-PDELPEVDNLTLDGN  304 (310)
T ss_dssp             CSCCSSCCCCTTCCCEECCSSCCCSCCSCCC--SCCSCEECCS-CCCCSCCC-TTSCCCCSCEECSST
T ss_pred             hhhHHhccCcCcCCEEECCCCCCCchhhhhc--CCCCEEECCC-CcCCCCch-hhhCCCccEEECcCC
Confidence            5556655   577888888877777777664  6778888877 56777665 667777888888777

>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=97.93  E-value=1.2e-05  Score=76.77  Aligned_cols=73  Identities=22%  Similarity=0.170  Sum_probs=59.2

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccc--hhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQ--KLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~--~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ..|..++.+++|++|++++|.++.+|+. ++.+++|++|++++| .+.  .+|..++++++|++|++++|..++.+|
T Consensus        65 ~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~  140 (549)
T 2z81_A           65 IEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGN-PYQTLGVTSLFPNLTNLQTLRIGNVETFSEIR  140 (549)
T ss_dssp             ECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTC-CCSSSCSSCSCTTCTTCCEEEEEESSSCCEEC
T ss_pred             cChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCC-cccccchhhhhhccCCccEEECCCCccccccC
Confidence            3457788999999999999999887765 899999999999984 565  346678899999999999886566555

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

Probab=97.92  E-value=1.1e-05  Score=71.88  Aligned_cols=65  Identities=20%  Similarity=0.309  Sum_probs=53.7

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSL  342 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l  342 (348)
                      .|..++.+++|++|++++|.++.+|..+.  ++|++|++++ +.+..+|.. +.++++|++|++++| .+
T Consensus        94 ~~~~~~~l~~L~~L~L~~n~l~~l~~~~~--~~L~~L~l~~-n~i~~~~~~~~~~l~~L~~L~l~~n-~l  159 (332)
T 2ft3_A           94 HEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLVELRIHD-NRIRKVPKGVFSGLRNMNCIEMGGN-PL  159 (332)
T ss_dssp             CGGGSTTCTTCCEEECCSSCCCSCCSSCC--TTCCEEECCS-SCCCCCCSGGGSSCSSCCEEECCSC-CC
T ss_pred             CHhHhhCcCCCCEEECCCCcCCccCcccc--ccCCEEECCC-CccCccCHhHhCCCccCCEEECCCC-cc
Confidence            46778889999999999998888888766  7899999988 567777764 788999999999988 44

>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=97.91  E-value=3.2e-05  Score=73.23  Aligned_cols=66  Identities=21%  Similarity=0.241  Sum_probs=36.4

Q ss_pred             ccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +..+++|++|++++|.++ .+|..+.  ++|+.|++++ +.+..+|.++..+++|++|++++| .+..+|.
T Consensus       395 ~~~l~~L~~L~Ls~N~l~~~~~~~l~--~~L~~L~Ls~-N~l~~ip~~~~~l~~L~~L~L~~N-~l~~l~~  461 (520)
T 2z7x_B          395 CSWTKSLLSLNMSSNILTDTIFRCLP--PRIKVLDLHS-NKIKSIPKQVVKLEALQELNVASN-QLKSVPD  461 (520)
T ss_dssp             CCCCTTCCEEECCSSCCCGGGGGSCC--TTCCEEECCS-SCCCCCCGGGGGCTTCCEEECCSS-CCCCCCT
T ss_pred             hccCccCCEEECcCCCCCcchhhhhc--ccCCEEECCC-CcccccchhhhcCCCCCEEECCCC-cCCccCH
Confidence            455555666666555553 2333332  4566666665 355566666666666666666666 4555553

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

Probab=97.90  E-value=7.7e-06  Score=72.31  Aligned_cols=107  Identities=19%  Similarity=0.165  Sum_probs=71.6

Q ss_pred             CccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCC-----CCccEEecCCCCCccCc-hhh
Q 043181          234 GVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDL-----KILRYLNFSDAQVETSP-ESV  301 (348)
Q Consensus       234 ~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l-----~~L~~l~l~~~~~~~lp-~~~  301 (348)
                      ++++|+.+...++.....   .....+...+.+++.|.+      ..|..++.+     ++|++|++++|.+..+| ..+
T Consensus        93 ~l~~L~~L~L~~n~l~~~---~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~  169 (312)
T 1wwl_A           93 GISGLQELTLENLEVTGT---APPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQV  169 (312)
T ss_dssp             TTSCCCEEEEEEEBCBSC---CCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTC
T ss_pred             CcCCccEEEccCCcccch---hHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHh
Confidence            466777777665543110   011110012344555554      346666666     89999999999998876 788


Q ss_pred             hccCCCCEeeccCCCccch--hHHHh--cccccCcEeeccCCCCCCC
Q 043181          302 CKLHNLETLKLQNCNRLQK--LFADI--GNLNNLHHLDNFVTFSLES  344 (348)
Q Consensus       302 ~~l~~L~~L~l~~c~~l~~--lp~~i--~~l~~L~~L~l~~~~~l~~  344 (348)
                      +.+++|+.|++++|...+.  +|..+  +.+++|++|++++| .+..
T Consensus       170 ~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N-~l~~  215 (312)
T 1wwl_A          170 RVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNA-GMET  215 (312)
T ss_dssp             CCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTS-CCCC
T ss_pred             ccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCC-cCcc
Confidence            9999999999998654444  46666  88999999999998 5553

>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=97.89  E-value=1.5e-05  Score=74.63  Aligned_cols=101  Identities=17%  Similarity=0.290  Sum_probs=74.3

Q ss_pred             CccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccCCC
Q 043181          234 GVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNL  307 (348)
Q Consensus       234 ~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L  307 (348)
                      .+++++.+...+...    ..+..   ...+.+++.|.+      .+|+ ++.+.+|++|++++|.+..+|+ ++.+++|
T Consensus        44 ~l~~l~~L~l~~~~i----~~l~~---~~~l~~L~~L~Ls~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L  114 (466)
T 1o6v_A           44 DLDQVTTLQADRLGI----KSIDG---VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITP-LANLTNL  114 (466)
T ss_dssp             HHHTCCEEECCSSCC----CCCTT---GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-GTTCTTC
T ss_pred             HhccccEEecCCCCC----ccCcc---hhhhcCCCEEECCCCccCCchh-hhccccCCEEECCCCccccChh-hcCCCCC
Confidence            456777776655432    11111   112445555554      4454 8999999999999999999888 9999999


Q ss_pred             CEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          308 ETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       308 ~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ++|++++ +.+..+|. +.++++|++|++++| .+..+|
T Consensus       115 ~~L~L~~-n~l~~~~~-~~~l~~L~~L~l~~n-~l~~~~  150 (466)
T 1o6v_A          115 TGLTLFN-NQITDIDP-LKNLTNLNRLELSSN-TISDIS  150 (466)
T ss_dssp             CEEECCS-SCCCCCGG-GTTCTTCSEEEEEEE-EECCCG
T ss_pred             CEEECCC-CCCCCChH-HcCCCCCCEEECCCC-ccCCCh
Confidence            9999998 47888886 899999999999988 555554

>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=97.87  E-value=1e-05  Score=77.57  Aligned_cols=68  Identities=26%  Similarity=0.319  Sum_probs=60.1

Q ss_pred             CccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      |..++.+++|++|++++|.++.+ |..++.+++|++|++++ +.+.++|..  .+++|++|++++| .+..+|
T Consensus        69 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~-N~l~~lp~~--~l~~L~~L~Ls~N-~l~~l~  137 (562)
T 3a79_B           69 MPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSH-NRLQNISCC--PMASLRHLDLSFN-DFDVLP  137 (562)
T ss_dssp             GGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTT-SCCCEECSC--CCTTCSEEECCSS-CCSBCC
T ss_pred             hhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCC-CcCCccCcc--ccccCCEEECCCC-CccccC
Confidence            46789999999999999999987 66799999999999999 678999986  8999999999999 666654

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.84  E-value=1.3e-05  Score=71.86  Aligned_cols=65  Identities=18%  Similarity=0.052  Sum_probs=55.7

Q ss_pred             CccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      |..++.|.+|++|+|++|.++.+|+ .++.|++|+.|+|++ +.+..+|+++....+|+.|++.+|.
T Consensus        49 ~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~-N~l~~~~~~~~~~~~L~~l~l~~N~  114 (347)
T 2ifg_A           49 LRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF-NALESLSWKTVQGLSLQELVLSGNP  114 (347)
T ss_dssp             GGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS-SCCSCCCSTTTCSCCCCEEECCSSC
T ss_pred             hhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCC-CccceeCHHHcccCCceEEEeeCCC
Confidence            4678999999999999999998765 679999999999999 7899999876554459999999883

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

Probab=97.84  E-value=1.8e-05  Score=79.68  Aligned_cols=62  Identities=19%  Similarity=0.257  Sum_probs=33.6

Q ss_pred             ccCCCCccEEecCCCCCccC--chhhhccCCCCEeeccCCCccchhHHHhccc--ccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQVETS--PESVCKLHNLETLKLQNCNRLQKLFADIGNL--NNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~l--p~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l--~~L~~L~l~~~  339 (348)
                      ++++++|++|++++|.+..+  ++.++++++|+.|++++|.--...|..++.+  ++|+.|++++|
T Consensus       119 ~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l~~~~L~~L~L~~n  184 (844)
T 3j0a_A          119 FRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAAN  184 (844)
T ss_dssp             CSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSCCCCCCSGGGHHHHHCSSCCCEECCS
T ss_pred             ccccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCcCCeeCHHHcccccCCccceEECCCC
Confidence            55666666666666665543  2345666666666666533223334444444  55666666655

>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=97.84  E-value=1.8e-05  Score=74.13  Aligned_cols=72  Identities=21%  Similarity=0.236  Sum_probs=57.7

Q ss_pred             eCCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ..|..+..+++|++|++++|.+..+ |..++.+++|+.|++++ +.+..+|. .+.++++|+.|++++| .+..++
T Consensus       119 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~-n~l~~~~~~~l~~l~~L~~L~l~~n-~i~~~~  192 (477)
T 2id5_A          119 LLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEK-CNLTSIPTEALSHLHGLIVLRLRHL-NINAIR  192 (477)
T ss_dssp             ECTTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEES-CCCSSCCHHHHTTCTTCCEEEEESC-CCCEEC
T ss_pred             CChhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCC-CcCcccChhHhcccCCCcEEeCCCC-cCcEeC
Confidence            3567788999999999999998865 55788999999999998 46777765 4888999999999988 444443

>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=97.84  E-value=1.2e-05  Score=75.35  Aligned_cols=101  Identities=18%  Similarity=0.244  Sum_probs=74.9

Q ss_pred             cccccccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchh
Q 043181          227 KRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPES  300 (348)
Q Consensus       227 ~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~  300 (348)
                      ..++.+..+++|+.+...++...    ....   ...+.+++.|.+      .++. ++.+++|++|++++|.++.+|+ 
T Consensus        59 ~~l~~~~~l~~L~~L~Ls~n~l~----~~~~---~~~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~L~~n~l~~~~~-  129 (466)
T 1o6v_A           59 KSIDGVEYLNNLTQINFSNNQLT----DITP---LKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLFNNQITDIDP-  129 (466)
T ss_dssp             CCCTTGGGCTTCCEEECCSSCCC----CCGG---GTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGG-
T ss_pred             ccCcchhhhcCCCEEECCCCccC----Cchh---hhccccCCEEECCCCccccChh-hcCCCCCCEEECCCCCCCCChH-
Confidence            34455667888888877665431    1111   112344555544      3444 8999999999999999999987 


Q ss_pred             hhccCCCCEeeccCCCccchhHHHhcccccCcEeeccC
Q 043181          301 VCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFV  338 (348)
Q Consensus       301 ~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~  338 (348)
                      ++.+++|++|++++ +.+..+|. ++.+++|++|++++
T Consensus       130 ~~~l~~L~~L~l~~-n~l~~~~~-~~~l~~L~~L~l~~  165 (466)
T 1o6v_A          130 LKNLTNLNRLELSS-NTISDISA-LSGLTSLQQLSFGN  165 (466)
T ss_dssp             GTTCTTCSEEEEEE-EEECCCGG-GTTCTTCSEEEEEE
T ss_pred             HcCCCCCCEEECCC-CccCCChh-hccCCcccEeecCC
Confidence            99999999999999 47888875 89999999999864

>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=97.81  E-value=2.3e-05  Score=69.78  Aligned_cols=65  Identities=22%  Similarity=0.209  Sum_probs=41.7

Q ss_pred             ccccCCCCccEEecCCC-CCcc--CchhhhccC-CCCEeeccCCC-cc--chhHHHhcccccCcEeeccCCC
Q 043181          276 SEIGDLKILRYLNFSDA-QVET--SPESVCKLH-NLETLKLQNCN-RL--QKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~-~~~~--lp~~~~~l~-~L~~L~l~~c~-~l--~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      ..+..+++|++|++++| .++.  +|..+..++ +|+.|++++|. .+  ..+|..+.++++|++|++++|.
T Consensus       162 ~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~  233 (336)
T 2ast_B          162 TLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSV  233 (336)
T ss_dssp             HHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCT
T ss_pred             HHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCC
Confidence            33556666777777776 5653  566666677 77777777653 22  5566666677777777777764

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

Probab=97.78  E-value=2.7e-05  Score=72.69  Aligned_cols=101  Identities=18%  Similarity=0.198  Sum_probs=73.8

Q ss_pred             cccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhcc
Q 043181          231 AIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKL  304 (348)
Q Consensus       231 ~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l  304 (348)
                      .+.++++|+.+...++...    ... . + ..+.+++.|.+      .+|  ++.+++|++|++++|.++.+|  ++.+
T Consensus        37 ~~~~l~~L~~L~Ls~n~l~----~~~-~-l-~~l~~L~~L~Ls~n~l~~~~--~~~l~~L~~L~Ls~N~l~~~~--~~~l  105 (457)
T 3bz5_A           37 SEEQLATLTSLDCHNSSIT----DMT-G-I-EKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNKLTNLD--VTPL  105 (457)
T ss_dssp             EHHHHTTCCEEECCSSCCC----CCT-T-G-GGCTTCSEEECCSSCCSCCC--CTTCTTCSEEECCSSCCSCCC--CTTC
T ss_pred             ChhHcCCCCEEEccCCCcc----cCh-h-h-cccCCCCEEEccCCcCCeEc--cccCCCCCEEECcCCCCceee--cCCC
Confidence            4556778888877665431    111 1 1 12344555544      344  889999999999999999886  8899


Q ss_pred             CCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          305 HNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       305 ~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ++|++|++++ +.+..+|  ++++++|++|++++| .+..+|
T Consensus       106 ~~L~~L~L~~-N~l~~l~--~~~l~~L~~L~l~~N-~l~~l~  143 (457)
T 3bz5_A          106 TKLTYLNCDT-NKLTKLD--VSQNPLLTYLNCARN-TLTEID  143 (457)
T ss_dssp             TTCCEEECCS-SCCSCCC--CTTCTTCCEEECTTS-CCSCCC
T ss_pred             CcCCEEECCC-CcCCeec--CCCCCcCCEEECCCC-ccceec
Confidence            9999999998 5788887  889999999999998 565553

>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=97.78  E-value=4e-05  Score=74.05  Aligned_cols=68  Identities=12%  Similarity=0.171  Sum_probs=39.4

Q ss_pred             ccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      ..+..+++|++|++++|.++.+ |..++.+++|+.|++++|.-....|..+.++++| +|++++| .+..+
T Consensus       470 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L-~L~L~~N-~l~~~  538 (606)
T 3t6q_A          470 NSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASN-HISII  538 (606)
T ss_dssp             CGGGGCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCGGGGGGGTTCCSC-EEECCSS-CCCCC
T ss_pred             hhhccCCCccEEECCCCccCccChhhhccccCCCEEECCCCccCcCChhHhCccccc-EEECcCC-ccccc
Confidence            3455666666666666666554 4556666666666666643334445556666666 6666666 34333

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

Probab=97.75  E-value=3.8e-05  Score=71.70  Aligned_cols=64  Identities=20%  Similarity=0.283  Sum_probs=34.2

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ++.+++|++|++++|.++.+|  ++.+++|+.|++++|..++.++  ++.+++|++|++++| .+..+|
T Consensus       123 ~~~l~~L~~L~l~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~--~~~l~~L~~L~ls~n-~l~~l~  186 (457)
T 3bz5_A          123 VSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLD--VTPQTQLTTLDCSFN-KITELD  186 (457)
T ss_dssp             CTTCTTCCEEECTTSCCSCCC--CTTCTTCCEEECTTCSCCCCCC--CTTCTTCCEEECCSS-CCCCCC
T ss_pred             CCCCCcCCEEECCCCccceec--cccCCcCCEEECCCCCcccccc--cccCCcCCEEECCCC-ccceec
Confidence            445555555555555555543  4555555555555544455542  555666666666665 444443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=97.72  E-value=2.5e-05  Score=74.78  Aligned_cols=71  Identities=18%  Similarity=0.151  Sum_probs=53.2

Q ss_pred             hhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccCCC-------CEeeccCCCccchhHHHhccccc
Q 043181          264 SLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNL-------ETLKLQNCNRLQKLFADIGNLNN  330 (348)
Q Consensus       264 ~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L-------~~L~l~~c~~l~~lp~~i~~l~~  330 (348)
                      +.+++.|.+      .+|. ++  .+|++|++++|.++.+|. +..  +|       +.|++++ +.+..+|.++.++++
T Consensus       159 l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~L~~lp~-~~~--~L~~~~~~L~~L~Ls~-N~l~~lp~~l~~l~~  231 (571)
T 3cvr_A          159 PTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNLLESLPA-VPV--RNHHSEETEIFFRCRE-NRITHIPENILSLDP  231 (571)
T ss_dssp             CTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSCCSSCCC-CC----------CCEEEECCS-SCCCCCCGGGGGSCT
T ss_pred             CCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCCCCchhh-HHH--hhhcccccceEEecCC-CcceecCHHHhcCCC
Confidence            344555544      4565 55  789999999998888888 655  67       8999998 678889998888999


Q ss_pred             CcEeeccCCCC
Q 043181          331 LHHLDNFVTFS  341 (348)
Q Consensus       331 L~~L~l~~~~~  341 (348)
                      |+.|++++|..
T Consensus       232 L~~L~L~~N~l  242 (571)
T 3cvr_A          232 TCTIILEDNPL  242 (571)
T ss_dssp             TEEEECCSSSC
T ss_pred             CCEEEeeCCcC
Confidence            99999998843

>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=97.72  E-value=3.8e-05  Score=71.59  Aligned_cols=102  Identities=21%  Similarity=0.244  Sum_probs=58.4

Q ss_pred             cccccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchhhh
Q 043181          229 FEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVC  302 (348)
Q Consensus       229 ~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~  302 (348)
                      ++.+..+++|+.+...++... ..+        ....+++.|.+      .+| .++.+++|++|++++|.++.+|... 
T Consensus       146 lp~~~~l~~L~~L~l~~N~l~-~lp--------~~~~~L~~L~L~~n~l~~l~-~~~~l~~L~~L~l~~N~l~~l~~~~-  214 (454)
T 1jl5_A          146 LPELQNSSFLKIIDVDNNSLK-KLP--------DLPPSLEFIAAGNNQLEELP-ELQNLPFLTAIYADNNSLKKLPDLP-  214 (454)
T ss_dssp             CCCCTTCTTCCEEECCSSCCS-CCC--------CCCTTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSCCCCC-
T ss_pred             CcccCCCCCCCEEECCCCcCc-ccC--------CCcccccEEECcCCcCCcCc-cccCCCCCCEEECCCCcCCcCCCCc-
Confidence            344566667777666554321 111        01224444444      344 5677777777777777776665432 


Q ss_pred             ccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          303 KLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       303 ~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                        ++|+.|++++| .+..+|. ++.+++|++|++++| .+..+|
T Consensus       215 --~~L~~L~l~~n-~l~~lp~-~~~l~~L~~L~l~~N-~l~~l~  253 (454)
T 1jl5_A          215 --LSLESIVAGNN-ILEELPE-LQNLPFLTTIYADNN-LLKTLP  253 (454)
T ss_dssp             --TTCCEEECCSS-CCSSCCC-CTTCTTCCEEECCSS-CCSSCC
T ss_pred             --CcccEEECcCC-cCCcccc-cCCCCCCCEEECCCC-cCCccc
Confidence              36667777663 5556663 666667777777666 455554

>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=97.68  E-value=2.4e-05  Score=70.31  Aligned_cols=71  Identities=24%  Similarity=0.297  Sum_probs=31.7

Q ss_pred             CCccccCCCCccEEecCC-CCCccCchh-hhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSD-AQVETSPES-VCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~-~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +|..+....+|+.+++++ |.++.+|+. +..+++|+.|++++ +.+..+|.+  .+.+|+.|.+.++..++.+|+
T Consensus       169 i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~-N~l~~lp~~--~~~~L~~L~~l~~~~l~~lP~  241 (350)
T 4ay9_X          169 IHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR-TRIHSLPSY--GLENLKKLRARSTYNLKKLPT  241 (350)
T ss_dssp             ECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTT-SCCCCCCSS--SCTTCCEEECTTCTTCCCCCC
T ss_pred             CChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCC-CCcCccChh--hhccchHhhhccCCCcCcCCC
Confidence            333333444455555442 334444432 34455555555554 345555532  233444444444444444443

>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=97.68  E-value=6e-05  Score=72.78  Aligned_cols=67  Identities=28%  Similarity=0.332  Sum_probs=31.3

Q ss_pred             eCCccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVT  339 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~  339 (348)
                      .+|..++.+++|++|++++|.+..+ |..++.+++|+.|++++|.....+|.. ++++++|++|++++|
T Consensus       292 ~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n  360 (606)
T 3t6q_A          292 ELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHD  360 (606)
T ss_dssp             CCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEECCSS
T ss_pred             CCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEECCCC
Confidence            3444444455555555555544443 334444555555555543333344332 444555555555544

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.67  E-value=0.0006  Score=60.74  Aligned_cols=138  Identities=9%  Similarity=0.007  Sum_probs=77.7

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCCCCchhH-HHHhcC----cccccccC
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDW-EDVLNS----KAISCHYL  139 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w-~~~l~~----~~~s~~~L  139 (348)
                      +|+.+++.+++......... ...   .+...++...|+|+|+++..++..+....+...+ ..+.+.    ....+..+
T Consensus       202 pl~~~e~~~~l~~~~~~~~~-~~~---~~~~~~i~~~tgG~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l  277 (350)
T 2qen_A          202 PFDKDTSVEFLKRGFREVNL-DVP---ENEIEEAVELLDGIPGWLVVFGVEYLRNGDFGRAMKRTLEVAKGLIMGELEEL  277 (350)
T ss_dssp             CCCHHHHHHHHHHHHHTTTC-CCC---HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHhCCCHHHHHHHHHHHhccccHhHHHHHHHHHHHHHHHHHHHHH
Confidence            88899999988765322111 111   2467889999999999999988654321121111 111111    01112223


Q ss_pred             ---chHHHHHHhHhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCccceeCCCcceEe-echH
Q 043181          140 ---LPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFA-MHDF  215 (348)
Q Consensus       140 ---~~~~k~~fl~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~~~~~~~~-mh~l  215 (348)
                         ++..+..+..+|.   + ..+...+........ - .     ........+++.|.+.+++....   ..|. .|++
T Consensus       278 ~~~~~~~~~~l~~la~---g-~~~~~~l~~~~~~~~-~-~-----~~~~~~~~~l~~L~~~gli~~~~---~~y~~~~p~  343 (350)
T 2qen_A          278 RRRSPRYVDILRAIAL---G-YNRWSLIRDYLAVKG-T-K-----IPEPRLYALLENLKKMNWIVEED---NTYKIADPV  343 (350)
T ss_dssp             HHHCHHHHHHHHHHHT---T-CCSHHHHHHHHHHTT-C-C-----CCHHHHHHHHHHHHHTTSEEEET---TEEEESSHH
T ss_pred             HhCChhHHHHHHHHHh---C-CCCHHHHHHHHHHHh-C-C-----CCHHHHHHHHHHHHhCCCEEecC---CEEEEecHH
Confidence               5667777777776   2 123344433322110 0 0     11244667899999999998753   2455 4677


Q ss_pred             HHHHH
Q 043181          216 INDLA  220 (348)
Q Consensus       216 i~~~~  220 (348)
                      ++++.
T Consensus       344 ~~~~~  348 (350)
T 2qen_A          344 VATVL  348 (350)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77764

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.64  E-value=0.0009  Score=59.69  Aligned_cols=135  Identities=10%  Similarity=0.012  Sum_probs=77.5

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCCCCchhHH-HHhcC----cc-----c
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWE-DVLNS----KA-----I  134 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~-~~l~~----~~-----~  134 (348)
                      +|+.+++.+++......... ...+     ..+|...|+|+|+++..++..+....+...|. .+.+.    ..     .
T Consensus       208 ~l~~~e~~~~l~~~~~~~~~-~~~~-----~~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  281 (357)
T 2fna_A          208 PFSREEAIEFLRRGFQEADI-DFKD-----YEVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAKKLILKEFENF  281 (357)
T ss_dssp             CCCHHHHHHHHHHHHHHHTC-CCCC-----HHHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCC-CCCc-----HHHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            78888888888764321111 0111     17899999999999999987764332222221 11111    10     1


Q ss_pred             cc--ccCchHHHHHHhHhccCCCCCccchhHHHHHHH-HcCCCccCCCCchHHHHHHHHHHHHHhCCccceeCCCcceEe
Q 043181          135 SC--HYLLPHLKRCFSYCSIFPEDCKFEEEELILLRM-AQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQSSSNVSRFA  211 (348)
Q Consensus       135 s~--~~L~~~~k~~fl~~~~fp~~~~i~~~~li~~w~-a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~~~~~~~~  211 (348)
                      .+  ..+++..+..+..+|+   +.  +...+..... ..|.       .........++..|.+.++|....   ..|+
T Consensus       282 ~~~~~~l~~~~~~~l~~la~---g~--~~~~l~~~~~~~~g~-------~~~~~~~~~~L~~L~~~gli~~~~---~~y~  346 (357)
T 2fna_A          282 LHGREIARKRYLNIMRTLSK---CG--KWSDVKRALELEEGI-------EISDSEIYNYLTQLTKHSWIIKEG---EKYC  346 (357)
T ss_dssp             HTTCGGGHHHHHHHHHHHTT---CB--CHHHHHHHHHHHHCS-------CCCHHHHHHHHHHHHHTTSEEESS---SCEE
T ss_pred             hhccccccHHHHHHHHHHHc---CC--CHHHHHHHHHHhcCC-------CCCHHHHHHHHHHHHhCCCEEecC---CEEE
Confidence            11  1577888888888887   21  3333332110 1121       001244667899999999998754   2466


Q ss_pred             -echHHHHHH
Q 043181          212 -MHDFINDLA  220 (348)
Q Consensus       212 -mh~li~~~~  220 (348)
                       .|++++++.
T Consensus       347 f~~~~~~~~l  356 (357)
T 2fna_A          347 PSEPLISLAF  356 (357)
T ss_dssp             ESSHHHHHHT
T ss_pred             ecCHHHHHhh
Confidence             578888753

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=97.62  E-value=0.00013  Score=69.86  Aligned_cols=59  Identities=34%  Similarity=0.403  Sum_probs=28.6

Q ss_pred             CCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          280 DLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       280 ~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+++|++|++++|.++.+|.   .+++|+.|++++ +.+..+|. +.  ++|++|++++| .+..+|
T Consensus       138 ~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~-N~L~~lp~-l~--~~L~~L~Ls~N-~L~~lp  196 (571)
T 3cvr_A          138 LPALLEYINADNNQLTMLPE---LPTSLEVLSVRN-NQLTFLPE-LP--ESLEALDVSTN-LLESLP  196 (571)
T ss_dssp             CCTTCCEEECCSSCCSCCCC---CCTTCCEEECCS-SCCSCCCC-CC--TTCCEEECCSS-CCSSCC
T ss_pred             cCccccEEeCCCCccCcCCC---cCCCcCEEECCC-CCCCCcch-hh--CCCCEEECcCC-CCCchh
Confidence            34455555555555555544   344555555554 33444544 33  44555555554 444444

>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=97.59  E-value=7.2e-05  Score=69.73  Aligned_cols=67  Identities=25%  Similarity=0.388  Sum_probs=40.3

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+| .++.+++|++|++++|.++.+|..+   .+|++|++++ +.+..+| +++++++|++|++++| .+..+|
T Consensus       145 ~lp-~~~~l~~L~~L~l~~N~l~~lp~~~---~~L~~L~L~~-n~l~~l~-~~~~l~~L~~L~l~~N-~l~~l~  211 (454)
T 1jl5_A          145 KLP-ELQNSSFLKIIDVDNNSLKKLPDLP---PSLEFIAAGN-NQLEELP-ELQNLPFLTAIYADNN-SLKKLP  211 (454)
T ss_dssp             SCC-CCTTCTTCCEEECCSSCCSCCCCCC---TTCCEEECCS-SCCSSCC-CCTTCTTCCEEECCSS-CCSSCC
T ss_pred             CCc-ccCCCCCCCEEECCCCcCcccCCCc---ccccEEECcC-CcCCcCc-cccCCCCCCEEECCCC-cCCcCC
Confidence            345 4666667777777776666665533   3566666666 3555566 4666666666666666 444444

>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=97.57  E-value=8.1e-05  Score=66.14  Aligned_cols=70  Identities=19%  Similarity=0.276  Sum_probs=59.3

Q ss_pred             CCccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccc--hhHHHhcccccCcEeeccCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQ--KLFADIGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~--~lp~~i~~l~~L~~L~l~~~~~l~  343 (348)
                      +|..+..+++|++|++++|.++ ..|..++.+++|+.|++++|..+.  .+|..+.++++|++|++++|..+.
T Consensus       110 ~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~  182 (336)
T 2ast_B          110 LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFT  182 (336)
T ss_dssp             HHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCC
T ss_pred             HHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcC
Confidence            5667888999999999999887 578889999999999999986676  488888899999999999984443

>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=97.53  E-value=9.5e-05  Score=67.23  Aligned_cols=66  Identities=21%  Similarity=0.206  Sum_probs=54.1

Q ss_pred             CCccccCCCCccEEecCCCCCcc-----Cchhh--hccCCCCEeeccCCCccch-----hHHHh-cccccCcEeeccCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVET-----SPESV--CKLHNLETLKLQNCNRLQK-----LFADI-GNLNNLHHLDNFVTF  340 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~-----lp~~~--~~l~~L~~L~l~~c~~l~~-----lp~~i-~~l~~L~~L~l~~~~  340 (348)
                      +|..+..+++|++|++++|.++.     +|..+  +++++|+.|++++| .+..     +|..+ .++++|++|++++|.
T Consensus       236 l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~~n-~i~~~g~~~l~~~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          236 LAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             HHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             HHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECcCC-cCCHHHHHHHHHHHHhcCCCceEEEccCCc
Confidence            46677889999999999999874     46777  44899999999995 5655     99888 678999999999994

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.52  E-value=0.00012  Score=62.76  Aligned_cols=63  Identities=22%  Similarity=0.191  Sum_probs=41.4

Q ss_pred             cCCCCccEEecCCCCCccC---chhhhccCCCCEeeccCCCccchhHHHhcccc--cCcEeeccCCCCCC
Q 043181          279 GDLKILRYLNFSDAQVETS---PESVCKLHNLETLKLQNCNRLQKLFADIGNLN--NLHHLDNFVTFSLE  343 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~l---p~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~--~L~~L~l~~~~~l~  343 (348)
                      .++++|+.|+|++|.++.+   |..++.+++|+.|+|++ +.+..+. ++..+.  +|+.|++++|+-.+
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~-N~i~~~~-~l~~l~~l~L~~L~L~~Npl~~  234 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSG-NELKSER-ELDKIKGLKLEELWLDGNSLCD  234 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTT-SCCCSGG-GGGGGTTSCCSEEECTTSTTGG
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCC-CccCCch-hhhhcccCCcceEEccCCcCcc
Confidence            3456777777777776654   34556777777777777 5666663 355555  77777777775433

>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=97.47  E-value=0.00012  Score=66.65  Aligned_cols=65  Identities=18%  Similarity=0.221  Sum_probs=54.1

Q ss_pred             cccCCCCccEEecCCCCC-----ccCchhhhccCCCCEeeccCCCccch-----hHHHh--cccccCcEeeccCCCCCC
Q 043181          277 EIGDLKILRYLNFSDAQV-----ETSPESVCKLHNLETLKLQNCNRLQK-----LFADI--GNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~-----~~lp~~~~~l~~L~~L~l~~c~~l~~-----lp~~i--~~l~~L~~L~l~~~~~l~  343 (348)
                      .+..+++|++|++++|.+     ..+|..+..+++|+.|++++|. +..     +|..+  +++++|++|++++| .+.
T Consensus       211 ~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~~~L~~L~L~~n-~i~  287 (386)
T 2ca6_A          211 GLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYN-EIE  287 (386)
T ss_dssp             TGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSS-CCB
T ss_pred             HhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCC-CchhhHHHHHHHHhhccCCCeEEEECcCC-cCC
Confidence            778899999999999998     5688999999999999999964 543     57777  44899999999999 444

>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=97.46  E-value=8e-05  Score=72.12  Aligned_cols=58  Identities=17%  Similarity=0.071  Sum_probs=49.6

Q ss_pred             cCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          279 GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      ..+++|++|++++|.++.+|.   .+++|+.|++++ +.+..+|.+++++++|+.|++++|+
T Consensus       238 ~~l~~L~~L~Ls~N~L~~lp~---~~~~L~~L~Ls~-N~L~~lp~~l~~l~~L~~L~L~~N~  295 (622)
T 3g06_A          238 VLPSELKELMVSGNRLTSLPM---LPSGLLSLSVYR-NQLTRLPESLIHLSSETTVNLEGNP  295 (622)
T ss_dssp             CCCTTCCEEECCSSCCSCCCC---CCTTCCEEECCS-SCCCSCCGGGGGSCTTCEEECCSCC
T ss_pred             CCCCcCcEEECCCCCCCcCCc---ccccCcEEeCCC-CCCCcCCHHHhhccccCEEEecCCC
Confidence            456788888999888888887   668899999998 5788999999999999999999984

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=97.42  E-value=0.00035  Score=61.75  Aligned_cols=83  Identities=7%  Similarity=-0.030  Sum_probs=48.3

Q ss_pred             CCCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcC------CC--CchhHHHHhcCcccc
Q 043181           64 KKWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHG------KV--DCIDWEDVLNSKAIS  135 (348)
Q Consensus        64 ~~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~------~~--~~~~w~~~l~~~~~s  135 (348)
                      .+++.++...++...+..... ...   .+....++.+++|.|-.+..+......      ..  +.+....+.......
T Consensus       166 ~~~~~~e~~~~l~~~~~~~~~-~~~---~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~~~~i~~~~~~~~~~~~~~~  241 (324)
T 1hqc_A          166 EYYTPEELAQGVMRDARLLGV-RIT---EEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERALEALAALGLD  241 (324)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTC-CCC---HHHHHHHHHHSCSCHHHHHHHHHHHTTTSTTTSCSCCCHHHHHHHHHHHTCC
T ss_pred             CCCCHHHHHHHHHHHHHhcCC-CCC---HHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhccc
Confidence            378899999998887644322 122   356788999999999877665433321      11  233344444433344


Q ss_pred             cccCchHHHHHHhHh
Q 043181          136 CHYLLPHLKRCFSYC  150 (348)
Q Consensus       136 ~~~L~~~~k~~fl~~  150 (348)
                      +..++...+..+..+
T Consensus       242 ~~~l~~~e~~~i~~~  256 (324)
T 1hqc_A          242 ELGLEKRDREILEVL  256 (324)
T ss_dssp             TTCCCHHHHHHHHHH
T ss_pred             ccCCCHHHHHHHHHH
Confidence            455666555555443

>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=97.32  E-value=0.00019  Score=69.40  Aligned_cols=72  Identities=28%  Similarity=0.220  Sum_probs=52.6

Q ss_pred             hhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccC
Q 043181          265 LKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFV  338 (348)
Q Consensus       265 ~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~  338 (348)
                      .+++.|.+      .+|.   .+++|++|++++|.++.+|.   .+++|+.|++++ +.+..+|.   .+++|+.|++++
T Consensus        61 ~~L~~L~L~~N~l~~lp~---~l~~L~~L~Ls~N~l~~lp~---~l~~L~~L~Ls~-N~l~~l~~---~l~~L~~L~L~~  130 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA---LPPELRTLEVSGNQLTSLPV---LPPGLLELSIFS-NPLTHLPA---LPSGLCKLWIFG  130 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC---CCTTCCEEEECSCCCSCCCC---CCTTCCEEEECS-CCCCCCCC---CCTTCCEEECCS
T ss_pred             CCCcEEEecCCCCCCCCC---cCCCCCEEEcCCCcCCcCCC---CCCCCCEEECcC-CcCCCCCC---CCCCcCEEECCC
Confidence            34555544      4554   57889999999999999987   778899999998 57888876   456677777766


Q ss_pred             CCCCCCCCC
Q 043181          339 TFSLESLES  347 (348)
Q Consensus       339 ~~~l~~lp~  347 (348)
                      | .+..+|.
T Consensus       131 N-~l~~lp~  138 (622)
T 3g06_A          131 N-QLTSLPV  138 (622)
T ss_dssp             S-CCSCCCC
T ss_pred             C-CCCcCCC
Confidence            6 5555553

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=97.17  E-value=0.00031  Score=56.10  Aligned_cols=66  Identities=12%  Similarity=0.280  Sum_probs=50.7

Q ss_pred             cccCCCCccEEecCCCC-Ccc-Cchhhhcc----CCCCEeeccCCCccch--hHHHhcccccCcEeeccCCCCCC
Q 043181          277 EIGDLKILRYLNFSDAQ-VET-SPESVCKL----HNLETLKLQNCNRLQK--LFADIGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~-~~~-lp~~~~~l----~~L~~L~l~~c~~l~~--lp~~i~~l~~L~~L~l~~~~~l~  343 (348)
                      .+..+++|+.|+|++|. ++. --..++.+    ++|+.|+|++|+.++.  +- .+.++++|++|++++|+.+.
T Consensus        80 ~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~-~L~~~~~L~~L~L~~c~~It  153 (176)
T 3e4g_A           80 HMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGII-ALHHFRNLKYLFLSDLPGVK  153 (176)
T ss_dssp             GGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHH-HGGGCTTCCEEEEESCTTCC
T ss_pred             HhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHH-HHhcCCCCCEEECCCCCCCC
Confidence            35678999999999996 663 22445554    4799999999988765  32 36788999999999998665

>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=97.16  E-value=0.00029  Score=63.10  Aligned_cols=63  Identities=22%  Similarity=0.179  Sum_probs=35.3

Q ss_pred             CccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCC
Q 043181          283 ILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       283 ~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .++.|++++|.++++|+.+....+|+.+++.+++.++.+|.+ +..+++|++|++++| .+..+|
T Consensus       155 ~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N-~l~~lp  218 (350)
T 4ay9_X          155 ESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLP  218 (350)
T ss_dssp             SCEEEECCSSCCCEECTTSSTTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTS-CCCCCC
T ss_pred             hhhhhccccccccCCChhhccccchhHHhhccCCcccCCCHHHhccCcccchhhcCCC-CcCccC
Confidence            355555555555555555555555555555555555555543 355555666666555 555554

>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=96.99  E-value=0.00095  Score=53.26  Aligned_cols=70  Identities=13%  Similarity=0.243  Sum_probs=49.8

Q ss_pred             CCccccCCCCccEEecCCCCCcc-CchhhhccCCCCEeeccCCCccchhH-HHhccc----ccCcEeeccCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVET-SPESVCKLHNLETLKLQNCNRLQKLF-ADIGNL----NNLHHLDNFVTFSLE  343 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~-lp~~~~~l~~L~~L~l~~c~~l~~lp-~~i~~l----~~L~~L~l~~~~~l~  343 (348)
                      +|.....-.+|+.||++++.++. --..+..+++|+.|+|++|..++.-- ..+..+    ++|++|++++|.++.
T Consensus        53 LP~~~~~~~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~IT  128 (176)
T 3e4g_A           53 LPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVT  128 (176)
T ss_dssp             SCCCSTTCCCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCC
T ss_pred             CCcccCCCceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCC
Confidence            34333233579999999999873 23557899999999999998765421 123332    479999999997654

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

Probab=96.98  E-value=0.00074  Score=60.74  Aligned_cols=56  Identities=14%  Similarity=0.210  Sum_probs=29.9

Q ss_pred             CccEEecCCCCCccCc-hhhh----cc-CCCCEeeccCCCccch-----hHHHhcccc-cCcEeeccCC
Q 043181          283 ILRYLNFSDAQVETSP-ESVC----KL-HNLETLKLQNCNRLQK-----LFADIGNLN-NLHHLDNFVT  339 (348)
Q Consensus       283 ~L~~l~l~~~~~~~lp-~~~~----~l-~~L~~L~l~~c~~l~~-----lp~~i~~l~-~L~~L~l~~~  339 (348)
                      +|++|++++|.++..+ ..+.    .. ++|+.|++++ +.+..     +|..+..+. +|++|++++|
T Consensus       168 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~-N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N  235 (362)
T 3goz_A          168 NVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSA-NLLGLKSYAELAYIFSSIPNHVVSLNLCLN  235 (362)
T ss_dssp             TCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTT-SCGGGSCHHHHHHHHHHSCTTCCEEECCSS
T ss_pred             cccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCC-CCCChhHHHHHHHHHhcCCCCceEEECcCC
Confidence            5666666666655332 2222    23 3666666666 34444     555555533 5666666665

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.88  E-value=0.026  Score=50.63  Aligned_cols=128  Identities=9%  Similarity=-0.058  Sum_probs=70.0

Q ss_pred             CCChHHHHHHHHHhhc---CCCCCCcChhHHHHHHHHHHHcC---CCc-hhHHHHHhhhc-----CCC--CchhHHHHhc
Q 043181           65 KWSDDDCLCVFTQRSS---RRTDFNMHMHLKEIGEKIVKKCN---GLP-LASEILGGLLH-----GKV--DCIDWEDVLN  130 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~---~~~~~~~~~~~~~~~~~i~~~c~---GlP-Lal~~ig~~L~-----~~~--~~~~w~~~l~  130 (348)
                      +++.++..+++...+.   ....  ..+   +..+.+++.++   |.| .++..+.....     +..  +.+.+..++.
T Consensus       200 ~l~~~~~~~il~~~~~~~~~~~~--~~~---~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~  274 (387)
T 2v1u_A          200 PYTAPQLRDILETRAEEAFNPGV--LDP---DVVPLCAALAAREHGDARRALDLLRVAGEIAERRREERVRREHVYSARA  274 (387)
T ss_dssp             CCCHHHHHHHHHHHHHHHBCTTT--BCS---SHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHTTCSCBCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhccCCC--CCH---HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHH
Confidence            7888999999988742   2222  222   34556777776   999 33333322211     211  3455555554


Q ss_pred             Ccc-----cccccCchHHHHHHhHhc-cCCCCCccchhHHHHHH----HHcCCCccCCCCchHHHHHHHHHHHHHhCCcc
Q 043181          131 SKA-----ISCHYLLPHLKRCFSYCS-IFPEDCKFEEEELILLR----MAQGFLRHENSEKPVEQLGHQYSGELQSRSHF  200 (348)
Q Consensus       131 ~~~-----~s~~~L~~~~k~~fl~~~-~fp~~~~i~~~~li~~w----~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll  200 (348)
                      ...     -++..++...+..+..++ .+-.+..+....+.+..    ...| ..     ......+..+++.|...+++
T Consensus       275 ~~~~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-----~~~~~~~~~~l~~L~~~gli  348 (387)
T 2v1u_A          275 EIERDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELTSTLG-LE-----HVTLRRVSGIISELDMLGIV  348 (387)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHHHHTT-CC-----CCCHHHHHHHHHHHHHTTSE
T ss_pred             HHhhchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhcC-CC-----CCCHHHHHHHHHHHHhCCCe
Confidence            432     445778887777666555 33222234444333322    1122 11     11245677889999999999


Q ss_pred             cee
Q 043181          201 RQS  203 (348)
Q Consensus       201 ~~~  203 (348)
                      +..
T Consensus       349 ~~~  351 (387)
T 2v1u_A          349 KSR  351 (387)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            973

>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=96.85  E-value=0.00023  Score=66.06  Aligned_cols=65  Identities=23%  Similarity=0.324  Sum_probs=50.4

Q ss_pred             CCccccCCCCccEEecCCCCCccC-chhhhc-----cCCCCEeeccCCCccc-----hhHHHhcccccCcEeeccCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETS-PESVCK-----LHNLETLKLQNCNRLQ-----KLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~-----l~~L~~L~l~~c~~l~-----~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ++..+..+++|++|++++|.++.. +..+..     .++|+.|++++| .+.     .+|..+..+++|++|++++|
T Consensus       333 l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~l~~N  408 (461)
T 1z7x_W          333 FSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADC-DVSDSSCSSLAATLLANHSLRELDLSNN  408 (461)
T ss_dssp             HHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCCCCCEEECCSS
T ss_pred             HHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCC-CCChhhHHHHHHHHHhCCCccEEECCCC
Confidence            455566778899999999987643 344443     678999999986 555     78888888999999999988

>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=96.72  E-value=0.0018  Score=55.42  Aligned_cols=63  Identities=22%  Similarity=0.262  Sum_probs=47.6

Q ss_pred             CCccccCCCCccEEecCCCCCccCchhhhccC--CCCEeeccCCCccchhH-------HHhcccccCcEeecc
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPESVCKLH--NLETLKLQNCNRLQKLF-------ADIGNLNNLHHLDNF  337 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~--~L~~L~l~~c~~l~~lp-------~~i~~l~~L~~L~l~  337 (348)
                      +|..+..+++|++|+|++|.++.+ ..+..+.  +|+.|+|.+++--..+|       .-+..+++|+.||-.
T Consensus       188 l~~~~~~l~~L~~L~Ls~N~i~~~-~~l~~l~~l~L~~L~L~~Npl~~~~~~~~~y~~~il~~~P~L~~LDg~  259 (267)
T 3rw6_A          188 MSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAIRERFPKLLRLDGH  259 (267)
T ss_dssp             GTTHHHHSTTCCEEECTTSCCCSG-GGGGGGTTSCCSEEECTTSTTGGGCSSHHHHHHHHHHHCTTCCEESSC
T ss_pred             chhHHhhCCCCCEEECCCCccCCc-hhhhhcccCCcceEEccCCcCccccCcchhHHHHHHHHCcccCeECCc
Confidence            345566899999999999999877 4466666  99999999954333344       236789999998643

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

Probab=96.67  E-value=0.0014  Score=59.01  Aligned_cols=69  Identities=14%  Similarity=0.174  Sum_probs=51.0

Q ss_pred             ccccCCC-CccEEecCCCCCccC-chhhhcc-----CCCCEeeccCCCccchh-HHHh----ccc-ccCcEeeccCCCCC
Q 043181          276 SEIGDLK-ILRYLNFSDAQVETS-PESVCKL-----HNLETLKLQNCNRLQKL-FADI----GNL-NNLHHLDNFVTFSL  342 (348)
Q Consensus       276 ~~~~~l~-~L~~l~l~~~~~~~l-p~~~~~l-----~~L~~L~l~~c~~l~~l-p~~i----~~l-~~L~~L~l~~~~~l  342 (348)
                      ..+..++ +|++|++++|.++.. +..+..+     ++|+.|++++|. +... +..+    ..+ ++|++|++++| .+
T Consensus        44 ~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~N-~l  121 (362)
T 3goz_A           44 QAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNF-LSYKSSDELVKTLAAIPFTITVLDLGWN-DF  121 (362)
T ss_dssp             HHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSC-GGGSCHHHHHHHHHTSCTTCCEEECCSS-CG
T ss_pred             HHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCc-CChHHHHHHHHHHHhCCCCccEEECcCC-cC
Confidence            4567787 899999999998864 6667775     899999999954 5543 4433    344 78999999999 55


Q ss_pred             CCCC
Q 043181          343 ESLE  346 (348)
Q Consensus       343 ~~lp  346 (348)
                      ...+
T Consensus       122 ~~~~  125 (362)
T 3goz_A          122 SSKS  125 (362)
T ss_dssp             GGSC
T ss_pred             CcHH
Confidence            5443

>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=96.65  E-value=0.00048  Score=63.95  Aligned_cols=59  Identities=15%  Similarity=-0.019  Sum_probs=37.2

Q ss_pred             CCCCccEEecCCCCCcc-----CchhhhccCCCCEeeccCCCccchh-HHHhcc-----cccCcEeeccCC
Q 043181          280 DLKILRYLNFSDAQVET-----SPESVCKLHNLETLKLQNCNRLQKL-FADIGN-----LNNLHHLDNFVT  339 (348)
Q Consensus       280 ~l~~L~~l~l~~~~~~~-----lp~~~~~l~~L~~L~l~~c~~l~~l-p~~i~~-----l~~L~~L~l~~~  339 (348)
                      .+++|++|++++|.++.     +|..+..+++|+.|++++| .+... +..+..     .++|++|++++|
T Consensus       254 ~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n  323 (461)
T 1z7x_W          254 PSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGN-ELGDEGARLLCETLLEPGCQLESLWVKSC  323 (461)
T ss_dssp             TTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTC-CCHHHHHHHHHHHHTSTTCCCCEEECTTS
T ss_pred             CCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCC-CCchHHHHHHHHHhccCCccceeeEcCCC
Confidence            46677777777777665     5666777777777777774 44322 222222     247777777777

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=96.59  E-value=0.0061  Score=50.74  Aligned_cols=47  Identities=4%  Similarity=-0.086  Sum_probs=34.4

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhh
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGL  115 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~  115 (348)
                      +++.++..+++...+..... ...   .+....+++.|+|.|..+..+...
T Consensus       184 ~l~~~e~~~~l~~~~~~~~~-~~~---~~~~~~l~~~~~G~~~~~~~~~~~  230 (250)
T 1njg_A          184 ALDVEQIRHQLEHILNEEHI-AHE---PRALQLLARAAEGSLRDALSLTDQ  230 (250)
T ss_dssp             CCCHHHHHHHHHHHHHHTTC-CBC---HHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCC-CCC---HHHHHHHHHHcCCCHHHHHHHHHH
Confidence            89999999999987644322 122   255778999999999988776543

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

Probab=96.56  E-value=0.00095  Score=60.36  Aligned_cols=65  Identities=11%  Similarity=0.083  Sum_probs=49.6

Q ss_pred             CCccccCCCCccEEecCCCCCcc-----CchhhhccCCCCEeeccCCCccc-----hhHHHhcccccCcEeeccCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVET-----SPESVCKLHNLETLKLQNCNRLQ-----KLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~-----lp~~~~~l~~L~~L~l~~c~~l~-----~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ++..+...++|++|+|++|.+..     ++..+...++|+.|+|++| .++     .++..+...++|++|++++|
T Consensus       175 l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N-~i~~~g~~~l~~~L~~~~~L~~L~Ls~N  249 (372)
T 3un9_A          175 LMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYN-GAGDTAALALARAAREHPSLELLHLYFN  249 (372)
T ss_dssp             HHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSS-CCCHHHHHHHHHHHHHCSSCCEEECTTS
T ss_pred             HHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCC-CCCHHHHHHHHHHHHhCCCCCEEeccCC
Confidence            33445677889999999998763     4666777889999999985 454     45556667788999999988

>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=96.33  E-value=0.0046  Score=59.24  Aligned_cols=62  Identities=26%  Similarity=0.175  Sum_probs=48.2

Q ss_pred             ccCCCCccEEecCCCC--Cc--cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          278 IGDLKILRYLNFSDAQ--VE--TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~--~~--~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ...+++|+.|+++++.  +.  .++.-+..+++|+.|++.+|..+..+|..+.++++|++|++..|
T Consensus       180 ~~~~~~L~~L~l~~~~~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l~~~  245 (594)
T 2p1m_B          180 PDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGY  245 (594)
T ss_dssp             CTTCCCCCEEECTTCCSCCCHHHHHHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEECSBC
T ss_pred             hhcCCcCcEEEecccCCcCCHHHHHHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEcccccc
Confidence            3467799999999886  22  23333456799999999998888889998999999999986554

>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=96.06  E-value=0.0049  Score=59.02  Aligned_cols=61  Identities=11%  Similarity=0.004  Sum_probs=35.0

Q ss_pred             CCCCccEEecCCCCCccCchhhhccCCCCEeeccCC--------------------------CccchhHHHhcccccCcE
Q 043181          280 DLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNC--------------------------NRLQKLFADIGNLNNLHH  333 (348)
Q Consensus       280 ~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c--------------------------~~l~~lp~~i~~l~~L~~  333 (348)
                      .+++|+.|+++++.+..+|..+..+++|+.|++.++                          .....+|..+..+++|++
T Consensus       218 ~~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~  297 (592)
T 3ogk_B          218 NCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRK  297 (592)
T ss_dssp             HCTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCE
T ss_pred             hCCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHhhcCCCcE
Confidence            445555555555555445544444444444444321                          234556666777788888


Q ss_pred             eeccCCC
Q 043181          334 LDNFVTF  340 (348)
Q Consensus       334 L~l~~~~  340 (348)
                      |++++|.
T Consensus       298 L~Ls~~~  304 (592)
T 3ogk_B          298 LDLLYAL  304 (592)
T ss_dssp             EEETTCC
T ss_pred             EecCCCc
Confidence            8888774

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=95.94  E-value=0.03  Score=45.70  Aligned_cols=44  Identities=5%  Similarity=-0.136  Sum_probs=29.5

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEIL  112 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~i  112 (348)
                      +++.++..+++...+...+.. ..   .+....+++.++|.|..+..+
T Consensus       160 ~~~~~~~~~~l~~~~~~~~~~-~~---~~~~~~l~~~~~g~~r~l~~~  203 (226)
T 2chg_A          160 PVPKEAMKKRLLEICEKEGVK-IT---EDGLEALIYISGGDFRKAINA  203 (226)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCC-BC---HHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCC-CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            788999999988876432211 11   245677888999999865443

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

Probab=95.83  E-value=0.011  Score=47.66  Aligned_cols=62  Identities=16%  Similarity=0.144  Sum_probs=45.4

Q ss_pred             cccCCCCccEEecCCCCCcc-----CchhhhccCCCCEeec--cCCCccch-----hHHHhcccccCcEeeccCC
Q 043181          277 EIGDLKILRYLNFSDAQVET-----SPESVCKLHNLETLKL--QNCNRLQK-----LFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~-----lp~~~~~l~~L~~L~l--~~c~~l~~-----lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+.....|++|++++|.+..     +...+...++|+.|++  ++ +.++.     +...+...++|++|++++|
T Consensus        88 ~L~~n~~L~~L~L~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~~~-N~i~~~g~~~l~~~L~~n~~L~~L~L~~n  161 (185)
T 1io0_A           88 MLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQS-QPLGNNVEMEIANMLEKNTTLLKFGYHFT  161 (185)
T ss_dssp             HHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCCS-SCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHhCCCcCEEECcCCcCCHHHHHHHHHHHHhCCCceEEEecCCC-CCCCHHHHHHHHHHHHhCCCcCEEeccCC
Confidence            34455678899999988763     5667777788999999  65 45543     5555666788999999887

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

Probab=95.40  E-value=0.017  Score=52.04  Aligned_cols=62  Identities=18%  Similarity=0.162  Sum_probs=50.1

Q ss_pred             CCCCccEEecCCCCCcc-----CchhhhccCCCCEeeccCCCccc-----hhHHHhcccccCcEeeccCCCCCC
Q 043181          280 DLKILRYLNFSDAQVET-----SPESVCKLHNLETLKLQNCNRLQ-----KLFADIGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       280 ~l~~L~~l~l~~~~~~~-----lp~~~~~l~~L~~L~l~~c~~l~-----~lp~~i~~l~~L~~L~l~~~~~l~  343 (348)
                      ...+|+.|++++|.++.     ++..+...++|++|+|++| .++     .++..+...++|+.|++++| .+.
T Consensus       153 ~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N-~l~~~g~~~L~~~L~~~~~L~~L~Ls~N-~i~  224 (372)
T 3un9_A          153 DQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHT-GLGDEGLELLAAQLDRNRQLQELNVAYN-GAG  224 (372)
T ss_dssp             TTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTS-SCHHHHHHHHHHHGGGCSCCCEEECCSS-CCC
T ss_pred             cCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCC-CCCcHHHHHHHHHHhcCCCcCeEECCCC-CCC
Confidence            45789999999999863     5666788999999999995 454     35667788889999999999 443

>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=95.39  E-value=0.042  Score=52.44  Aligned_cols=38  Identities=16%  Similarity=-0.053  Sum_probs=17.6

Q ss_pred             cCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCC
Q 043181          279 GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCN  316 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~  316 (348)
                      ..+.+|+.++++++....+|..+..+++|+.|++++|.
T Consensus       267 ~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~  304 (592)
T 3ogk_B          267 VFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYAL  304 (592)
T ss_dssp             CCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCC
T ss_pred             hccccccccCccccchhHHHHHHhhcCCCcEEecCCCc
Confidence            34444444444444333444444445555555555443

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=95.28  E-value=0.013  Score=53.27  Aligned_cols=132  Identities=11%  Similarity=-0.047  Sum_probs=72.5

Q ss_pred             CCChHHHHHHHHHhh---cCCCCCCcChhHHHHHHHHHHHcC------CCchhHHHHHhh-h-----cCCC--CchhHHH
Q 043181           65 KWSDDDCLCVFTQRS---SRRTDFNMHMHLKEIGEKIVKKCN------GLPLASEILGGL-L-----HGKV--DCIDWED  127 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a---~~~~~~~~~~~~~~~~~~i~~~c~------GlPLal~~ig~~-L-----~~~~--~~~~w~~  127 (348)
                      +++.++++++|...+   +....  ..   .+....+++.|+      |.|..+..+... .     .+..  +.+.+..
T Consensus       214 ~l~~~e~~~ll~~~~~~~~~~~~--~~---~~~~~~i~~~~~~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~  288 (412)
T 1w5s_A          214 AYKSRELYTILEQRAELGLRDTV--WE---PRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRK  288 (412)
T ss_dssp             CCCHHHHHHHHHHHHHHHBCTTS--CC---HHHHHHHHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCC--CC---hHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Confidence            677788888886543   32211  11   356778888899      999655444321 1     1111  2233443


Q ss_pred             HhcC------cccccccCchHHHHHHhHhccCC--CCCccchhHHHHHHH--HcCCCccCCCCchHHHHHHHHHHHHHhC
Q 043181          128 VLNS------KAISCHYLLPHLKRCFSYCSIFP--EDCKFEEEELILLRM--AQGFLRHENSEKPVEQLGHQYSGELQSR  197 (348)
Q Consensus       128 ~l~~------~~~s~~~L~~~~k~~fl~~~~fp--~~~~i~~~~li~~w~--a~g~~~~~~~~~~~~~~~~~~l~~L~~~  197 (348)
                      +...      ....+..||...+.++..++.+.  .+..++...+...+.  +...... .  .........++..|.+.
T Consensus       289 ~~~~~~~~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~~l~~L~~~  365 (412)
T 1w5s_A          289 AVSENEAASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNV-K--PRGYTQYHIYLKHLTSL  365 (412)
T ss_dssp             HHHHC------CCSSSSSCHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHHHHHSCC-C--CCCHHHHHHHHHHHHHT
T ss_pred             HHHHHhccchHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhhcCC-C--CCCHHHHHHHHHHHHhC
Confidence            3322      23566789999999888888653  222344444433331  1000110 0  11124456789999999


Q ss_pred             CccceeC
Q 043181          198 SHFRQSS  204 (348)
Q Consensus       198 sll~~~~  204 (348)
                      +++....
T Consensus       366 gli~~~~  372 (412)
T 1w5s_A          366 GLVDAKP  372 (412)
T ss_dssp             TSEEEEC
T ss_pred             CCEEeec
Confidence            9998743

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=95.25  E-value=0.017  Score=43.50  Aligned_cols=34  Identities=18%  Similarity=0.118  Sum_probs=25.4

Q ss_pred             CCccEEecCCCCCccCchh-hhccCCCCEeeccCC
Q 043181          282 KILRYLNFSDAQVETSPES-VCKLHNLETLKLQNC  315 (348)
Q Consensus       282 ~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c  315 (348)
                      .+|++|+|++|.|+.+|+. +..+++|+.|+|.++
T Consensus        31 ~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           31 VDTTELVLTGNNLTALPPGLLDALPALRTAHLGAN   65 (130)
T ss_dssp             TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSS
T ss_pred             cCCCEEECCCCcCCccChhhhhhccccCEEEecCC
Confidence            3578888888888887764 466778888888773

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

Probab=95.09  E-value=0.031  Score=44.88  Aligned_cols=62  Identities=10%  Similarity=0.108  Sum_probs=48.9

Q ss_pred             cccCCCCccEEecCCCCCc-----cCchhhhccCCCCEeeccCCCccch-----hHHHhcccccCcEeec--cCC
Q 043181          277 EIGDLKILRYLNFSDAQVE-----TSPESVCKLHNLETLKLQNCNRLQK-----LFADIGNLNNLHHLDN--FVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~-----~lp~~~~~l~~L~~L~l~~c~~l~~-----lp~~i~~l~~L~~L~l--~~~  339 (348)
                      .+...++|++|+|++|.+.     .+...+...++|+.|+|++| .++.     +...+...++|++|++  ++|
T Consensus        60 ~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N-~i~~~g~~~l~~~L~~n~~L~~L~L~~~~N  133 (185)
T 1io0_A           60 ALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESN-FISGSGILALVEALQSNTSLIELRIDNQSQ  133 (185)
T ss_dssp             HHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSS-CCCHHHHHHHHHGGGGCSSCCEEECCCCSS
T ss_pred             HHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCC-cCCHHHHHHHHHHHHhCCCceEEEecCCCC
Confidence            3455678999999999986     35566677789999999984 5554     6677888889999999  667

>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=95.08  E-value=0.012  Score=56.20  Aligned_cols=60  Identities=18%  Similarity=0.151  Sum_probs=40.7

Q ss_pred             CCCCccEEecCCC-CCcc--CchhhhccCCCCEeeccCCCccc-----hhHHHhcccccCcEeeccCCC
Q 043181          280 DLKILRYLNFSDA-QVET--SPESVCKLHNLETLKLQNCNRLQ-----KLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       280 ~l~~L~~l~l~~~-~~~~--lp~~~~~l~~L~~L~l~~c~~l~-----~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      .+++|+.|++++| .++.  ++..+..+++|+.|++++|. +.     .++.-...+++|+.|++++|.
T Consensus       128 ~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-i~~~~~~~l~~~~~~~~~L~~L~l~~~~  195 (594)
T 2p1m_B          128 SFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESD-VDDVSGHWLSHFPDTYTSLVSLNISCLA  195 (594)
T ss_dssp             HCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCE-EECCCGGGGGGSCTTCCCCCEEECTTCC
T ss_pred             hCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCc-cCCcchHHHHHHhhcCCcCcEEEecccC
Confidence            5778888888887 4553  55555578888888888865 32     233333466788888888774

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.45  E-value=0.02  Score=51.47  Aligned_cols=127  Identities=10%  Similarity=-0.045  Sum_probs=66.6

Q ss_pred             CCChHHHHHHHHHhhc---CCCCCCcChhHHHHHHHHHHHcC---CCch-hHHHHHhhh--c-C--CCCchhHHHHhcCc
Q 043181           65 KWSDDDCLCVFTQRSS---RRTDFNMHMHLKEIGEKIVKKCN---GLPL-ASEILGGLL--H-G--KVDCIDWEDVLNSK  132 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~---~~~~~~~~~~~~~~~~~i~~~c~---GlPL-al~~ig~~L--~-~--~~~~~~w~~~l~~~  132 (348)
                      +++.++..+++...+.   ....  ..+   +..+.+++.|+   |.|. |+..+....  . +  .-+.+.+..+++..
T Consensus       196 ~l~~~~~~~il~~~~~~~~~~~~--~~~---~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~i~~~~v~~~~~~~  270 (384)
T 2qby_B          196 PYDAEQLKFILSKYAEYGLIKGT--YDD---EILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGIIRKEHVDKAIVDY  270 (384)
T ss_dssp             CCCHHHHHHHHHHHHHHTSCTTS--CCS---HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSCCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCC--cCH---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCccCHHHHHHHHHHH
Confidence            7889999999998753   2222  222   34556666776   8776 443332221  1 1  12355666665543


Q ss_pred             c-----cccccCchHHHHHHhHhccCCCCCccchhHHHHHHHHcCCCccCCCCchHHHHHHHHHHHHHhCCcccee
Q 043181          133 A-----ISCHYLLPHLKRCFSYCSIFPEDCKFEEEELILLRMAQGFLRHENSEKPVEQLGHQYSGELQSRSHFRQS  203 (348)
Q Consensus       133 ~-----~s~~~L~~~~k~~fl~~~~fp~~~~i~~~~li~~w~a~g~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~  203 (348)
                      .     .++..|+...+..+..++....+..+. +.....-...| ..     ........+++..|.+++++...
T Consensus       271 ~~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~-~~~~~~~~~~g-~~-----~~~~~~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          271 EQERLIEAVKALPFHYKLALRSLIESEDVMSAH-KMYTDLCNKFK-QK-----PLSYRRFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHH-HHHHHHHHHTT-CC-----CCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             hcchHHHHHHcCCHHHHHHHHHHHHhcccChHH-HHHHHHHHHcC-CC-----CCCHHHHHHHHHHHHhCCCEEEE
Confidence            2     445677777776666555511100110 11111111122 11     11235567789999999999873

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.43  E-value=0.043  Score=47.91  Aligned_cols=45  Identities=24%  Similarity=0.073  Sum_probs=30.2

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCch-hHHHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPL-ASEILG  113 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPL-al~~ig  113 (348)
                      +++.++..+++...+...+.. ..   .+....+++.|+|.|. |+..+.
T Consensus       165 ~~~~~~~~~~l~~~~~~~~~~-~~---~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          165 KLSDEDVLKRLLQIIKLEDVK-YT---NDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCC-BC---HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCC-CC---HHHHHHHHHHcCCCHHHHHHHHH
Confidence            789999999998866322211 11   2557789999999995 444443

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

Probab=94.20  E-value=0.03  Score=50.19  Aligned_cols=59  Identities=20%  Similarity=0.327  Sum_probs=45.0

Q ss_pred             CCCCccEEecCCCCCcc-Cchhh---hccCCCCEeeccCCCccch-----hHHHhcccccCcEeeccCC
Q 043181          280 DLKILRYLNFSDAQVET-SPESV---CKLHNLETLKLQNCNRLQK-----LFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       280 ~l~~L~~l~l~~~~~~~-lp~~~---~~l~~L~~L~l~~c~~l~~-----lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+++|++|++++|.+.. .+..+   ..+++|++|+|+. +.++.     ++..+.++++|+.|++++|
T Consensus       250 ~~p~Lr~L~L~~~~i~~~~~~~la~a~~~~~L~~LdLs~-n~L~d~G~~~L~~~L~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          250 RFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISA-GVLTDEGARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             TCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCS-SCCBHHHHHHHHTTHHHHTTCSEEECCSB
T ss_pred             CCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCC-CCCChHHHHHHHhhcccCCcceEEECCCC
Confidence            47899999999988753 23333   2578999999987 45654     6666778899999999988

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=94.08  E-value=0.55  Score=41.22  Aligned_cols=42  Identities=10%  Similarity=0.192  Sum_probs=27.6

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASE  110 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~  110 (348)
                      +++.++...++...+..... ...   .+....+++.+.|.|-.+.
T Consensus       183 ~~~~~e~~~il~~~~~~~~~-~~~---~~~~~~l~~~~~G~~r~l~  224 (338)
T 3pfi_A          183 FYKDSELALILQKAALKLNK-TCE---EKAALEIAKRSRSTPRIAL  224 (338)
T ss_dssp             CCCHHHHHHHHHHHHHHTTC-EEC---HHHHHHHHHTTTTCHHHHH
T ss_pred             CcCHHHHHHHHHHHHHhcCC-CCC---HHHHHHHHHHHCcCHHHHH
Confidence            78888888888876633221 111   3556778888999985443

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=93.87  E-value=0.085  Score=47.35  Aligned_cols=45  Identities=20%  Similarity=0.173  Sum_probs=30.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC-CeeEEEEcCCCCCHHHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF-HLETWVYLFEDFDVFRITKTMLQSI   48 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~l~~~il~~l   48 (348)
                      .|+||||+|+++++  ...... ...++++.....+...+.+.++..+
T Consensus        53 ~G~GKTtl~~~l~~--~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l   98 (389)
T 1fnn_A           53 PGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFTAIIGEIARSL   98 (389)
T ss_dssp             TTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHH--HHhhhcCeeEEEEeCccCCCHHHHHHHHHHHh
Confidence            69999999999998  444332 2456777666555666666655544

>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=93.79  E-value=0.07  Score=46.92  Aligned_cols=67  Identities=15%  Similarity=0.121  Sum_probs=48.8

Q ss_pred             ccccCCCCccEEecCCCCCccCch-hhhccCCCC-EeeccCCCccchhHH-HhcccccCcEeeccCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLE-TLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~-~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ..+..+.+|+.+++.++ ++.+++ .+..+.+|+ .+++.+  .+..+++ .+.++++|+.+++.++ .+..++
T Consensus       244 ~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~--~l~~I~~~aF~~c~~L~~l~l~~n-~i~~I~  313 (329)
T 3sb4_A          244 FTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA--SVTAIEFGAFMGCDNLRYVLATGD-KITTLG  313 (329)
T ss_dssp             TTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT--TCCEECTTTTTTCTTEEEEEECSS-CCCEEC
T ss_pred             hhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc--cceEEchhhhhCCccCCEEEeCCC-ccCccc
Confidence            34677888888888887 776654 467788888 888876  6677763 5778888888888766 555554

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=93.49  E-value=0.027  Score=50.49  Aligned_cols=29  Identities=21%  Similarity=0.516  Sum_probs=20.6

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCC---eeEEEEc
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFH---LETWVYL   31 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~---~~~wv~~   31 (348)
                      .+|+||||||+++++  .....+.   ..+|++.
T Consensus        53 ~~G~GKTtl~~~l~~--~~~~~~~~~~~~~~i~~   84 (386)
T 2qby_A           53 LTGTGKTAVVKFVLS--KLHKKFLGKFKHVYINT   84 (386)
T ss_dssp             CTTSSHHHHHHHHHH--HHHHHTCSSCEEEEEEH
T ss_pred             CCCCCHHHHHHHHHH--HHHHHhcCCceEEEEEC
Confidence            479999999999998  4544332   3556664

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=93.17  E-value=0.053  Score=43.95  Aligned_cols=28  Identities=36%  Similarity=0.414  Sum_probs=20.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      +|+||||||+++++  .........++++.
T Consensus        63 ~GtGKT~la~~i~~--~~~~~~~~~~~~~~   90 (202)
T 2w58_A           63 FGVGKTYLLAAIAN--ELAKRNVSSLIVYV   90 (202)
T ss_dssp             TTSSHHHHHHHHHH--HHHTTTCCEEEEEH
T ss_pred             CCCCHHHHHHHHHH--HHHHcCCeEEEEEh
Confidence            69999999999999  44443344566654

>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=92.73  E-value=0.073  Score=46.82  Aligned_cols=56  Identities=21%  Similarity=0.269  Sum_probs=48.6

Q ss_pred             CCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHH-hcccccCc-EeeccC
Q 043181          281 LKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLH-HLDNFV  338 (348)
Q Consensus       281 l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~-~L~l~~  338 (348)
                      +.+|+.+++++|.++++|+ .+..+++|+.+++.+  .+..++.. +.++.+|+ .+++.+
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~--ni~~I~~~aF~~~~~L~~~l~l~~  283 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPH--NLKTIGQRVFSNCGRLAGTLELPA  283 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTTTCTTCCEEEEECT
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCc--ccceehHHHhhCChhccEEEEEcc
Confidence            7899999999999999886 478899999999997  38888874 78899999 998876

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=91.95  E-value=0.057  Score=42.69  Aligned_cols=15  Identities=20%  Similarity=0.290  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+.+
T Consensus        11 ~~GsGKST~a~~La~   25 (178)
T 1qhx_A           11 GSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999988

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=91.36  E-value=0.1  Score=43.22  Aligned_cols=29  Identities=17%  Similarity=0.197  Sum_probs=20.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      .|+||||+|+++++  ..........|++..
T Consensus        61 ~G~GKT~la~~l~~--~~~~~~~~~~~~~~~   89 (242)
T 3bos_A           61 VKSGRTHLIHAACA--RANELERRSFYIPLG   89 (242)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTCCEEEEEGG
T ss_pred             CCCCHHHHHHHHHH--HHHHcCCeEEEEEHH
Confidence            69999999999998  443333345566553

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=90.60  E-value=0.25  Score=36.93  Aligned_cols=53  Identities=15%  Similarity=0.124  Sum_probs=43.1

Q ss_pred             cEEecCCCCCc--cCchhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCC
Q 043181          285 RYLNFSDAQVE--TSPESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTF  340 (348)
Q Consensus       285 ~~l~l~~~~~~--~lp~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~  340 (348)
                      ..++-+++.++  .+|..+.  .+|+.|+|++ +.+..||.+ +..+++|+.|+|++|+
T Consensus        11 ~~v~Cs~~~L~~~~vP~~lp--~~l~~L~Ls~-N~l~~l~~~~f~~l~~L~~L~L~~NP   66 (130)
T 3rfe_A           11 TLVDCGRRGLTWASLPTAFP--VDTTELVLTG-NNLTALPPGLLDALPALRTAHLGANP   66 (130)
T ss_dssp             TEEECCSSCCCTTTSCSCCC--TTCSEEECTT-SCCSSCCTTTGGGCTTCCEEECCSSC
T ss_pred             CEEEeCCCCCccccCCCCCC--cCCCEEECCC-CcCCccChhhhhhccccCEEEecCCC
Confidence            46788888888  8886543  4799999998 789999876 5778899999999884

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=90.51  E-value=0.35  Score=42.03  Aligned_cols=45  Identities=11%  Similarity=-0.084  Sum_probs=30.6

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILG  113 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig  113 (348)
                      +++.++...++...+...+.. .+   .+....+++.++|.|..+..+-
T Consensus       168 ~l~~~~~~~~l~~~~~~~~~~-~~---~~~~~~l~~~~~g~~r~~~~~l  212 (327)
T 1iqp_A          168 PLRDEDIAKRLRYIAENEGLE-LT---EEGLQAILYIAEGDMRRAINIL  212 (327)
T ss_dssp             CCCHHHHHHHHHHHHHTTTCE-EC---HHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhcCCC-CC---HHHHHHHHHHCCCCHHHHHHHH
Confidence            788999999888776443221 12   2556778889999998655443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=90.43  E-value=0.091  Score=41.67  Aligned_cols=16  Identities=44%  Similarity=0.520  Sum_probs=14.1

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      .|+||||||+++++..
T Consensus        47 ~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           47 PGVGKTHLAVATLKAI   62 (180)
T ss_dssp             SSSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            5999999999999943

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=90.38  E-value=0.23  Score=40.46  Aligned_cols=30  Identities=30%  Similarity=0.154  Sum_probs=20.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFED   34 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~   34 (348)
                      ||+||||+|..+..  .....= .++.++....
T Consensus        10 GGvGKTT~a~~LA~--~la~~g-~VlliD~D~q   39 (209)
T 3cwq_A           10 GGVGKTTTAVHLSA--YLALQG-ETLLIDGDPN   39 (209)
T ss_dssp             TTSSHHHHHHHHHH--HHHTTS-CEEEEEECTT
T ss_pred             CCCcHHHHHHHHHH--HHHhcC-CEEEEECCCC
Confidence            89999999999988  443332 4556655443

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=90.03  E-value=0.11  Score=40.66  Aligned_cols=15  Identities=27%  Similarity=0.102  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+..
T Consensus         9 ~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            9 PDCCFKSTVAAKLSK   23 (173)
T ss_dssp             SSSSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=90.00  E-value=0.12  Score=40.36  Aligned_cols=13  Identities=54%  Similarity=0.856  Sum_probs=12.1

Q ss_pred             CCCCcHHHHHHHH
Q 043181            1 MGGVGKTTLAQLL   13 (348)
Q Consensus         1 mgGiGKTtLa~~v   13 (348)
                      +.|+||||+|+.+
T Consensus         9 ~~GsGKsT~a~~L   21 (179)
T 3lw7_A            9 MPGSGKSEFAKLL   21 (179)
T ss_dssp             CTTSCHHHHHHHH
T ss_pred             CCCCCHHHHHHHH
Confidence            5799999999999

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

Probab=90.00  E-value=0.23  Score=44.43  Aligned_cols=75  Identities=17%  Similarity=0.101  Sum_probs=47.5

Q ss_pred             hhhccccee------eCCccccCCCCccEEecCCCCCcc-Cchhhh--ccCCCCEeeccCCC-------ccchhHHHh--
Q 043181          264 SLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVET-SPESVC--KLHNLETLKLQNCN-------RLQKLFADI--  325 (348)
Q Consensus       264 ~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~-lp~~~~--~l~~L~~L~l~~c~-------~l~~lp~~i--  325 (348)
                      +++++.|.+      .++. + .+++|+.|++..+.+.. ....++  .+++|+.|+|..+.       .+..+-+.+  
T Consensus       171 ~P~L~~L~L~g~~~l~l~~-~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l~~  248 (362)
T 2ra8_A          171 MPLLNNLKIKGTNNLSIGK-K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSK  248 (362)
T ss_dssp             CTTCCEEEEECCBTCBCCS-C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGSCT
T ss_pred             CCCCcEEEEeCCCCceecc-c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHHHhc
Confidence            456666666      2333 3 37889999998887652 223343  78999999985321       133333322  


Q ss_pred             cccccCcEeeccCCC
Q 043181          326 GNLNNLHHLDNFVTF  340 (348)
Q Consensus       326 ~~l~~L~~L~l~~~~  340 (348)
                      +.+++|++|++++|.
T Consensus       249 ~~~p~Lr~L~L~~~~  263 (362)
T 2ra8_A          249 DRFPNLKWLGIVDAE  263 (362)
T ss_dssp             TTCTTCCEEEEESCT
T ss_pred             CCCCCcCEEeCCCCC
Confidence            357899999998873

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=89.81  E-value=0.37  Score=38.93  Aligned_cols=42  Identities=21%  Similarity=0.137  Sum_probs=26.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTML   45 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il   45 (348)
                      -|+||||.++.+++  ..+..-..+++..........+..++++
T Consensus         9 DGsGKsTq~~~L~~--~L~~~g~~v~~treP~~t~~~~~ir~~l   50 (197)
T 3hjn_A            9 DGSGKSTQIQLLAQ--YLEKRGKKVILKREPGGTETGEKIRKIL   50 (197)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH--HHHHCCCcEEEEECCCCCcHHHHHHHHh
Confidence            39999999999999  5544433445555444444555555554

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=89.66  E-value=0.21  Score=41.30  Aligned_cols=16  Identities=31%  Similarity=0.260  Sum_probs=14.0

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      ||+||||+|..+....
T Consensus        15 gGvGKTt~a~~la~~l   30 (228)
T 2r8r_A           15 PGVGKTYAMLQAAHAQ   30 (228)
T ss_dssp             TTSSHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHH
Confidence            8999999999988843

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=89.65  E-value=0.27  Score=39.61  Aligned_cols=29  Identities=24%  Similarity=0.115  Sum_probs=19.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+......++  ..++.++..
T Consensus        11 gG~GKTt~a~~la~~la~~g--~~vlliD~D   39 (206)
T 4dzz_A           11 GGSGKTTAVINIATALSRSG--YNIAVVDTD   39 (206)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT--CCEEEEECC
T ss_pred             CCccHHHHHHHHHHHHHHCC--CeEEEEECC
Confidence            89999999999988433222  235555554

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=89.61  E-value=0.35  Score=42.30  Aligned_cols=50  Identities=12%  Similarity=0.037  Sum_probs=32.7

Q ss_pred             CCCcHHHHHHHHhcchhhhc---CCC--eeEEEEcCCCCCHHHHHHHHHHhcccc
Q 043181            2 GGVGKTTLAQLLCNNVKVKN---RFH--LETWVYLFEDFDVFRITKTMLQSISTE   51 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~---~F~--~~~wv~~~~~~~~~~l~~~il~~l~~~   51 (348)
                      .|+|||++|++|.+......   ..+  ..+.++-....+...+...|++++.+.
T Consensus        54 PGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~  108 (318)
T 3te6_A           54 DDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKE  108 (318)
T ss_dssp             CSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCC
T ss_pred             CCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCC
Confidence            69999999999999432211   111  244555556567888899999988654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=89.52  E-value=0.13  Score=41.63  Aligned_cols=15  Identities=40%  Similarity=0.565  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        33 ~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           33 YMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999987

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=89.46  E-value=0.13  Score=40.67  Aligned_cols=15  Identities=40%  Similarity=0.601  Sum_probs=13.7

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      +|+||||+|+++++.
T Consensus        52 ~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           52 PGVGKTAIVEGLAQR   66 (195)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999983

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=89.37  E-value=0.13  Score=40.83  Aligned_cols=15  Identities=33%  Similarity=0.578  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+..
T Consensus        13 ~~GsGKst~a~~La~   27 (185)
T 3trf_A           13 LMGAGKTSVGSQLAK   27 (185)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=89.25  E-value=0.14  Score=40.35  Aligned_cols=15  Identities=33%  Similarity=0.399  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        10 ~~GsGKST~a~~L~~   24 (181)
T 1ly1_A           10 CPGSGKSTWAREFIA   24 (181)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHh
Confidence            479999999999987

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=88.98  E-value=0.17  Score=40.41  Aligned_cols=15  Identities=47%  Similarity=0.678  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+++.+..
T Consensus        17 ~~GsGKSTl~~~La~   31 (191)
T 1zp6_A           17 HPGSGKSTIAEALAN   31 (191)
T ss_dssp             CTTSCHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHh
Confidence            479999999999988

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=88.75  E-value=0.16  Score=40.51  Aligned_cols=15  Identities=33%  Similarity=0.510  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+.+
T Consensus         9 ~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            9 IPGVGKSTVLAKVKE   23 (194)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=88.54  E-value=0.16  Score=40.33  Aligned_cols=15  Identities=47%  Similarity=0.612  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+.+
T Consensus        11 ~~GsGKsT~~~~L~~   25 (192)
T 1kht_A           11 VPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=88.38  E-value=0.17  Score=38.62  Aligned_cols=15  Identities=33%  Similarity=0.357  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||++|+++++.
T Consensus        33 ~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           33 PGTGRMTGARYLHQF   47 (145)
T ss_dssp             TTSSHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHh
Confidence            599999999999984

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=88.28  E-value=0.89  Score=39.96  Aligned_cols=42  Identities=10%  Similarity=0.025  Sum_probs=26.6

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASE  110 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~  110 (348)
                      +++.++....+...+..... ..+   .+....+++.++|.|-.+.
T Consensus       191 ~~~~~~~~~~l~~~~~~~~~-~i~---~~~l~~l~~~~~G~~r~~~  232 (353)
T 1sxj_D          191 ALDASNAIDRLRFISEQENV-KCD---DGVLERILDISAGDLRRGI  232 (353)
T ss_dssp             CCCHHHHHHHHHHHHHTTTC-CCC---HHHHHHHHHHTSSCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHhCC-CCC---HHHHHHHHHHcCCCHHHHH
Confidence            77788887777776533221 112   2456778888888876543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=88.26  E-value=0.25  Score=37.93  Aligned_cols=30  Identities=17%  Similarity=0.140  Sum_probs=19.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~   33 (348)
                      .|.|||||++.+++....++ + ..+++...+
T Consensus        45 ~G~GKTtL~~~i~~~~~~~g-~-~~~~~~~~~   74 (149)
T 2kjq_A           45 EGAGKSHLLQAWVAQALEAG-K-NAAYIDAAS   74 (149)
T ss_dssp             STTTTCHHHHHHHHHHHTTT-C-CEEEEETTT
T ss_pred             CCCCHHHHHHHHHHHHHhcC-C-cEEEEcHHH
Confidence            59999999999999433211 1 156666543

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=88.26  E-value=0.18  Score=39.50  Aligned_cols=15  Identities=33%  Similarity=0.512  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+++.+..
T Consensus        12 ~~GsGKSTl~~~La~   26 (173)
T 1kag_A           12 PMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=88.17  E-value=0.18  Score=40.61  Aligned_cols=15  Identities=27%  Similarity=0.472  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+.+
T Consensus         8 ~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            8 TVGAGKSTISAEISK   22 (205)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHH
Confidence            469999999999988

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=88.12  E-value=0.18  Score=39.63  Aligned_cols=15  Identities=47%  Similarity=0.656  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        12 ~~GsGKsTla~~La~   26 (175)
T 1via_A           12 FMGSGKSTLARALAK   26 (175)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=88.11  E-value=0.18  Score=39.86  Aligned_cols=15  Identities=53%  Similarity=0.693  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+.+
T Consensus        19 ~~GsGKst~~~~l~~   33 (180)
T 3iij_A           19 TPGVGKTTLGKELAS   33 (180)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=88.03  E-value=0.18  Score=40.18  Aligned_cols=15  Identities=47%  Similarity=0.534  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        13 ~~GsGKST~~~~L~~   27 (193)
T 2rhm_A           13 HPATGKTTLSQALAT   27 (193)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=87.89  E-value=0.13  Score=40.50  Aligned_cols=15  Identities=40%  Similarity=0.534  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+||||+|+++++.
T Consensus        52 ~G~GKT~la~~~~~~   66 (187)
T 2p65_A           52 PGVGKTAIVEGLAIK   66 (187)
T ss_dssp             GGGCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            599999999999983

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=87.80  E-value=0.2  Score=42.55  Aligned_cols=29  Identities=28%  Similarity=0.257  Sum_probs=19.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..-...++  ..++.|+..
T Consensus        10 GGvGKTT~a~nLA~~la~~G--~~VlliD~D   38 (269)
T 1cp2_A           10 GGIGKSTTTQNLTSGLHAMG--KTIMVVGCD   38 (269)
T ss_dssp             TTSSHHHHHHHHHHHHHTTT--CCEEEEEEC
T ss_pred             CCCcHHHHHHHHHHHHHHCC--CcEEEEcCC
Confidence            89999999999988333222  135555543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=87.66  E-value=0.22  Score=43.07  Aligned_cols=14  Identities=29%  Similarity=0.453  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+|||+||+++++
T Consensus        45 pGtGKT~la~aiA~   58 (293)
T 3t15_A           45 KGQGKSFQCELVFR   58 (293)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999999

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=87.64  E-value=0.2  Score=40.49  Aligned_cols=15  Identities=20%  Similarity=0.609  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        26 ~~GsGKSTla~~L~~   40 (202)
T 3t61_A           26 VSGSGKSSVGEAIAE   40 (202)
T ss_dssp             STTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999987

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=87.45  E-value=0.18  Score=46.41  Aligned_cols=21  Identities=38%  Similarity=0.330  Sum_probs=16.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFH   24 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~   24 (348)
                      +|+||||||+++++  .+...++
T Consensus       139 ~G~GKTtLa~aia~--~l~~~~~  159 (440)
T 2z4s_A          139 VGLGKTHLLQSIGN--YVVQNEP  159 (440)
T ss_dssp             SSSSHHHHHHHHHH--HHHHHCC
T ss_pred             CCCCHHHHHHHHHH--HHHHhCC
Confidence            69999999999999  5554443

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=87.36  E-value=0.37  Score=40.10  Aligned_cols=34  Identities=32%  Similarity=0.130  Sum_probs=21.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDV   37 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~   37 (348)
                      ||+||||+|..+......++  ..++-|+.....+.
T Consensus         9 GGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~~l   42 (254)
T 3kjh_A            9 GGVGKTTVAAGLIKIMASDY--DKIYAVDGDPDSCL   42 (254)
T ss_dssp             SSHHHHHHHHHHHHHHTTTC--SCEEEEEECTTSCH
T ss_pred             CCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCcCh
Confidence            89999999999988433232  24555555433443

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=87.28  E-value=0.55  Score=38.12  Aligned_cols=35  Identities=26%  Similarity=0.106  Sum_probs=24.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRIT   41 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~   41 (348)
                      +|+||||||.++..  . .+  ..++|++....++..++.
T Consensus        29 ~GsGKTtl~~~l~~--~-~~--~~v~~i~~~~~~~~~~~~   63 (220)
T 2cvh_A           29 YASGKTTLALQTGL--L-SG--KKVAYVDTEGGFSPERLV   63 (220)
T ss_dssp             TTSSHHHHHHHHHH--H-HC--SEEEEEESSCCCCHHHHH
T ss_pred             CCCCHHHHHHHHHH--H-cC--CcEEEEECCCCCCHHHHH
Confidence            69999999999987  1 11  357788776655554443

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=87.25  E-value=0.58  Score=41.03  Aligned_cols=35  Identities=20%  Similarity=0.109  Sum_probs=21.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVF   38 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~   38 (348)
                      ||+||||+|.++..  .....=..++-|+.....+..
T Consensus        23 GGvGKTTvA~~LA~--~lA~~G~rVLlvD~D~~~~l~   57 (324)
T 3zq6_A           23 GGVGKTTISAATAL--WMARSGKKTLVISTDPAHSLS   57 (324)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTCCEEEEECCSSCCHH
T ss_pred             CCchHHHHHHHHHH--HHHHCCCcEEEEeCCCCcCHH
Confidence            89999999999988  333331235555544333433

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=87.14  E-value=0.78  Score=40.02  Aligned_cols=44  Identities=16%  Similarity=0.135  Sum_probs=30.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQSIS   49 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~~l~   49 (348)
                      +|+||||||.++..+...++  ..++|++.-  ....++...++....
T Consensus        77 pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~~~  120 (315)
T 3bh0_A           77 PSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVTAG  120 (315)
T ss_dssp             TTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHHHc
Confidence            69999999999987543333  456676654  456677777766543

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=87.04  E-value=0.23  Score=41.31  Aligned_cols=29  Identities=17%  Similarity=0.079  Sum_probs=19.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC-CeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF-HLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F-~~~~wv~~~   32 (348)
                      ||+||||+|..+..  .....- ..++.|+..
T Consensus        14 GGvGKTt~a~~LA~--~la~~~g~~VlliD~D   43 (245)
T 3ea0_A           14 GGDGGSCIAANFAF--ALSQEPDIHVLAVDIS   43 (245)
T ss_dssp             TTSSHHHHHHHHHH--HHTTSTTCCEEEEECC
T ss_pred             CCcchHHHHHHHHH--HHHhCcCCCEEEEECC
Confidence            89999999999988  443321 235555553

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=87.03  E-value=0.23  Score=42.15  Aligned_cols=29  Identities=34%  Similarity=0.417  Sum_probs=20.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~   33 (348)
                      ||+||||+|..+..-.. ++  ..++.|+...
T Consensus        37 GGvGKTT~a~~LA~~la-~g--~~VlliD~D~   65 (267)
T 3k9g_A           37 GGVGKSTSAIILATLLS-KN--NKVLLIDMDT   65 (267)
T ss_dssp             SSSCHHHHHHHHHHHHT-TT--SCEEEEEECT
T ss_pred             CCchHHHHHHHHHHHHH-CC--CCEEEEECCC
Confidence            89999999999988433 32  2455565543

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=87.03  E-value=0.23  Score=40.25  Aligned_cols=15  Identities=40%  Similarity=0.512  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|+||||+++.+..
T Consensus        20 ~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           20 PSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=87.01  E-value=0.86  Score=37.59  Aligned_cols=39  Identities=15%  Similarity=0.087  Sum_probs=25.5

Q ss_pred             CCCcHHHHHHHHhcchhhhc----CCCeeEEEEcCCCCCHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKN----RFHLETWVYLFEDFDVFRI   40 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~l   40 (348)
                      +|.||||||+++........    .-..++|++....++..++
T Consensus        33 ~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~   75 (243)
T 1n0w_A           33 FRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   75 (243)
T ss_dssp             TTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH
Confidence            69999999999887322211    1246788887665555444

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=86.96  E-value=0.23  Score=41.80  Aligned_cols=15  Identities=40%  Similarity=0.459  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||++..+...
T Consensus        23 gGvGKTTl~~~La~~   37 (262)
T 1yrb_A           23 AGSGKTTLTGEFGRY   37 (262)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999999873

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=86.91  E-value=0.25  Score=39.85  Aligned_cols=16  Identities=44%  Similarity=0.545  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ++|.||||+|+.+...
T Consensus        33 ~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           33 LSGSGKSTLACALNQM   48 (200)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999983

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=86.90  E-value=0.19  Score=38.25  Aligned_cols=15  Identities=27%  Similarity=0.326  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||++|+++++.
T Consensus        36 ~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           36 AGSPFETVARYFHKN   50 (143)
T ss_dssp             TTCCHHHHHGGGCCT
T ss_pred             CCccHHHHHHHHHHh
Confidence            599999999999983

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=86.89  E-value=0.23  Score=42.00  Aligned_cols=29  Identities=28%  Similarity=0.295  Sum_probs=19.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..-...++  ..++.|+..
T Consensus        28 GGvGKTT~a~nLA~~la~~G--~~VlliD~D   56 (262)
T 2ph1_A           28 GGVGKSTVTALLAVHYARQG--KKVGILDAD   56 (262)
T ss_dssp             SCTTHHHHHHHHHHHHHHTT--CCEEEEECC
T ss_pred             CCCCHHHHHHHHHHHHHHCC--CeEEEEeCC
Confidence            89999999999988333222  134455543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=86.76  E-value=0.24  Score=39.33  Aligned_cols=16  Identities=44%  Similarity=0.590  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+|+.+...
T Consensus        21 ~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           21 LPGSGKTTIATRLADL   36 (186)
T ss_dssp             CTTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999984

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=86.71  E-value=0.24  Score=42.53  Aligned_cols=29  Identities=28%  Similarity=0.216  Sum_probs=19.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..-...++  ..++.|+..
T Consensus        11 GGvGKTT~a~nLA~~La~~G--~rVlliD~D   39 (289)
T 2afh_E           11 GGIGKSTTTQNLVAALAEMG--KKVMIVGCD   39 (289)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT--CCEEEEEEC
T ss_pred             CcCcHHHHHHHHHHHHHHCC--CeEEEEecC
Confidence            89999999999988433222  134555543

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=86.61  E-value=0.56  Score=41.36  Aligned_cols=32  Identities=25%  Similarity=0.155  Sum_probs=21.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDF   35 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~   35 (348)
                      ||+||||+|.++..  .....=..++.|+.....
T Consensus        25 GGvGKTt~a~~lA~--~la~~g~~vllid~D~~~   56 (334)
T 3iqw_A           25 GGVGKTTTSCSLAI--QLAKVRRSVLLLSTDPAH   56 (334)
T ss_dssp             TTSSHHHHHHHHHH--HHTTSSSCEEEEECCSSC
T ss_pred             CCccHHHHHHHHHH--HHHhCCCcEEEEECCCCC
Confidence            89999999999987  333332245566655433

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=86.60  E-value=0.23  Score=41.80  Aligned_cols=14  Identities=43%  Similarity=0.608  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||+|+++++
T Consensus        48 ~GtGKT~la~~la~   61 (262)
T 2qz4_A           48 PGCGKTLLAKAVAT   61 (262)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=86.34  E-value=0.21  Score=42.72  Aligned_cols=14  Identities=43%  Similarity=0.608  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||+|+++++
T Consensus        60 ~GtGKT~la~~la~   73 (285)
T 3h4m_A           60 PGTGKTLLAKAVAT   73 (285)
T ss_dssp             SSSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999998

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=86.30  E-value=0.26  Score=41.57  Aligned_cols=15  Identities=27%  Similarity=0.257  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||||+++..
T Consensus         9 ~~GSGKSTla~~La~   23 (253)
T 2ze6_A            9 PTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHh
Confidence            469999999999987

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=86.29  E-value=0.46  Score=39.26  Aligned_cols=29  Identities=31%  Similarity=0.169  Sum_probs=20.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..  .....=..++.++..
T Consensus        12 gGvGKTt~a~~LA~--~la~~g~~VlliD~D   40 (237)
T 1g3q_A           12 GGTGKTTVTANLSV--ALGDRGRKVLAVDGD   40 (237)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTCCEEEEECC
T ss_pred             CCCCHHHHHHHHHH--HHHhcCCeEEEEeCC
Confidence            89999999999998  443332245566654

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=86.22  E-value=0.27  Score=41.31  Aligned_cols=29  Identities=28%  Similarity=0.399  Sum_probs=19.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+......+++  .++.|+..
T Consensus        12 gGvGKTt~a~~LA~~la~~g~--~VlliD~D   40 (260)
T 3q9l_A           12 GGVGKTTSSAAIATGLAQKGK--KTVVIDFA   40 (260)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTC--CEEEEECC
T ss_pred             CCCcHHHHHHHHHHHHHhCCC--cEEEEECC
Confidence            899999999999884332221  35555554

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=86.21  E-value=0.27  Score=38.59  Aligned_cols=15  Identities=27%  Similarity=0.547  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        16 ~~GsGKSTl~~~l~~   30 (175)
T 1knq_A           16 VSGSGKSAVASEVAH   30 (175)
T ss_dssp             STTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=86.21  E-value=0.28  Score=38.25  Aligned_cols=15  Identities=47%  Similarity=0.485  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        15 ~~GsGKSTva~~La~   29 (168)
T 1zuh_A           15 FMGSGKSSLAQELGL   29 (168)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=86.16  E-value=0.3  Score=41.35  Aligned_cols=14  Identities=43%  Similarity=0.605  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++++
T Consensus        53 ~GtGKT~la~~la~   66 (268)
T 2r62_A           53 PGTGKTLLAKAVAG   66 (268)
T ss_dssp             SCSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999998

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=86.05  E-value=0.6  Score=40.02  Aligned_cols=30  Identities=27%  Similarity=0.237  Sum_probs=19.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~   33 (348)
                      ||+||||+|..+..-...++  ..++.|+...
T Consensus        14 GGvGKTT~a~nLA~~La~~G--~~VlliD~D~   43 (286)
T 2xj4_A           14 GGAGKSTIAVHLVTALLYGG--AKVAVIDLDL   43 (286)
T ss_dssp             SCTTHHHHHHHHHHHHHHTT--CCEEEEECCT
T ss_pred             CCCCHHHHHHHHHHHHHHCC--CcEEEEECCC
Confidence            89999999999988333222  1345555544

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=85.93  E-value=0.29  Score=38.21  Aligned_cols=15  Identities=33%  Similarity=0.465  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        10 ~~GsGKsT~a~~La~   24 (173)
T 1e6c_A           10 ARGCGMTTVGRELAR   24 (173)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=85.79  E-value=0.32  Score=38.49  Aligned_cols=14  Identities=29%  Similarity=0.539  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+|||||++.+..
T Consensus        14 sGsGKSTL~~~L~~   27 (180)
T 1kgd_A           14 HGVGRRHIKNTLIT   27 (180)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh
Confidence            69999999999987

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=85.78  E-value=0.28  Score=42.27  Aligned_cols=29  Identities=24%  Similarity=0.232  Sum_probs=19.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..-...++  ..++.|+..
T Consensus        46 GGvGKTT~a~nLA~~la~~G--~rVlliD~D   74 (298)
T 2oze_A           46 GGVGKSKLSTMFAYLTDKLN--LKVLMIDKD   74 (298)
T ss_dssp             SSSSHHHHHHHHHHHHHHTT--CCEEEEEEC
T ss_pred             CCchHHHHHHHHHHHHHhCC--CeEEEEeCC
Confidence            89999999999987333222  134455543

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=85.76  E-value=0.29  Score=38.71  Aligned_cols=15  Identities=40%  Similarity=0.399  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        12 ~~GsGKST~~~~La~   26 (186)
T 3cm0_A           12 PPGAGKGTQASRLAQ   26 (186)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=85.76  E-value=0.32  Score=38.74  Aligned_cols=15  Identities=40%  Similarity=0.547  Sum_probs=13.2

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+++.+..
T Consensus        10 ~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A           10 PAGVGKSTTCKRLAA   24 (189)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHhc
Confidence            369999999999975

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=85.74  E-value=0.29  Score=38.89  Aligned_cols=15  Identities=33%  Similarity=0.687  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        18 ~~GsGKSTv~~~La~   32 (184)
T 1y63_A           18 TPGTGKTSMAEMIAA   32 (184)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=85.73  E-value=0.3  Score=37.93  Aligned_cols=15  Identities=33%  Similarity=0.441  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus         8 ~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            8 FMCSGKSTVGSLLSR   22 (168)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=85.64  E-value=0.33  Score=39.16  Aligned_cols=15  Identities=40%  Similarity=0.643  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+++.+..
T Consensus        37 ~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           37 VSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999987

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=85.54  E-value=0.3  Score=38.64  Aligned_cols=15  Identities=33%  Similarity=0.634  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        10 ~~GsGKsT~a~~La~   24 (184)
T 2iyv_A           10 LPGSGKSTIGRRLAK   24 (184)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=85.49  E-value=0.46  Score=41.36  Aligned_cols=29  Identities=17%  Similarity=0.230  Sum_probs=19.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      .|+|||+||+++++.... ..-..+.++++
T Consensus       161 ~GtGKT~La~aia~~~~~-~~g~~v~~~~~  189 (308)
T 2qgz_A          161 MGIGKSYLLAAMAHELSE-KKGVSTTLLHF  189 (308)
T ss_dssp             TTSSHHHHHHHHHHHHHH-HSCCCEEEEEH
T ss_pred             CCCCHHHHHHHHHHHHHH-hcCCcEEEEEH
Confidence            599999999999994321 22223455544

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=85.47  E-value=0.31  Score=42.62  Aligned_cols=29  Identities=21%  Similarity=0.206  Sum_probs=18.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      |||||||.|..+.--....+  ..+.-|+..
T Consensus        57 GGVGKTTtavNLA~aLA~~G--kkVllID~D   85 (314)
T 3fwy_A           57 GGIGKSTTSSNLSAAFSILG--KRVLQIGCD   85 (314)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT--CCEEEEEES
T ss_pred             CccCHHHHHHHHHHHHHHCC--CeEEEEecC
Confidence            89999999888776322222  235555554

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=85.43  E-value=0.29  Score=41.22  Aligned_cols=14  Identities=43%  Similarity=0.629  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++++
T Consensus        54 ~GtGKT~la~~la~   67 (257)
T 1lv7_A           54 PGTGKTLLAKAIAG   67 (257)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=85.39  E-value=0.43  Score=41.27  Aligned_cols=15  Identities=40%  Similarity=0.468  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+||||+|+++++.
T Consensus        76 ~GtGKT~la~~la~~   90 (309)
T 3syl_A           76 PGTGKTTVALKMAGL   90 (309)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999884

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=85.26  E-value=0.31  Score=41.22  Aligned_cols=15  Identities=40%  Similarity=0.709  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+..
T Consensus        12 ~pGSGKSTla~~La~   26 (260)
T 3a4m_A           12 LPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=85.20  E-value=0.48  Score=41.37  Aligned_cols=15  Identities=47%  Similarity=0.470  Sum_probs=13.7

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+||||||+++++.
T Consensus        46 ~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           46 VGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            699999999999983

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=85.14  E-value=0.33  Score=39.29  Aligned_cols=16  Identities=38%  Similarity=0.534  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+|+.+.+.
T Consensus        12 ~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A           12 IDGSGKSSQATLLKDW   27 (213)
T ss_dssp             CTTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4699999999999883

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=84.96  E-value=0.24  Score=39.06  Aligned_cols=15  Identities=47%  Similarity=0.423  Sum_probs=9.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        13 ~~GsGKST~a~~La~   27 (183)
T 2vli_A           13 PFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CC----CHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=84.81  E-value=0.35  Score=38.48  Aligned_cols=15  Identities=27%  Similarity=0.290  Sum_probs=13.3

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        11 ~~GsGKsT~a~~L~~   25 (196)
T 1tev_A           11 GPGAGKGTQCARIVE   25 (196)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=84.74  E-value=0.28  Score=42.54  Aligned_cols=14  Identities=50%  Similarity=0.710  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||||+++++
T Consensus        58 ~GtGKT~la~ala~   71 (301)
T 3cf0_A           58 PGCGKTLLAKAIAN   71 (301)
T ss_dssp             SSSSHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHH
Confidence            69999999999998

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=84.65  E-value=1  Score=36.55  Aligned_cols=42  Identities=12%  Similarity=0.143  Sum_probs=24.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      -|+||||+++.+++  .....++. ++..-.......+.+++++.
T Consensus        11 dGsGKsTq~~~L~~--~L~~~~~v-~~~~eP~~t~~g~~ir~~l~   52 (205)
T 4hlc_A           11 EGSGKTTVINEVYH--RLVKDYDV-IMTREPGGVPTGEEIRKIVL   52 (205)
T ss_dssp             TTSCHHHHHHHHHH--HHTTTSCE-EEEESSTTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH--HHHCCCCE-EEeeCCCCChHHHHHHHHHh
Confidence            49999999999998  44444432 23333333344455555543

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=84.65  E-value=0.32  Score=42.85  Aligned_cols=41  Identities=15%  Similarity=0.207  Sum_probs=26.2

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLAS  109 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal  109 (348)
                      +.+.++-.+++.+.+-.... ...   .+.+..|++.++|-|-.+
T Consensus       179 ~~~~~~l~~iL~~~~~~~~~-~~~---~~~~~~ia~~~~G~~R~a  219 (334)
T 1in4_A          179 FYTVKELKEIIKRAASLMDV-EIE---DAAAEMIAKRSRGTPRIA  219 (334)
T ss_dssp             CCCHHHHHHHHHHHHHHTTC-CBC---HHHHHHHHHTSTTCHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCC-CcC---HHHHHHHHHhcCCChHHH
Confidence            67778888888776532211 111   355778888888888544

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=84.63  E-value=1.2  Score=38.91  Aligned_cols=42  Identities=26%  Similarity=0.233  Sum_probs=28.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcC----CCeeEEEEcCCCCCHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR----FHLETWVYLFEDFDVFRITKT   43 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~----F~~~~wv~~~~~~~~~~l~~~   43 (348)
                      +|+||||||.++..+......    =..++|++....++..++.+.
T Consensus       116 ~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~  161 (324)
T 2z43_A          116 FGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENM  161 (324)
T ss_dssp             TTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHH
T ss_pred             CCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHH
Confidence            699999999998874222210    135789988877777666543

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=84.59  E-value=0.33  Score=41.25  Aligned_cols=14  Identities=36%  Similarity=0.411  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++++
T Consensus        73 ~GtGKT~la~~ia~   86 (272)
T 1d2n_A           73 PHSGKTALAAKIAE   86 (272)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999998

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=84.48  E-value=0.37  Score=38.45  Aligned_cols=15  Identities=27%  Similarity=0.306  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        17 ~~GsGKsT~~~~La~   31 (196)
T 2c95_A           17 GPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=84.46  E-value=0.39  Score=38.12  Aligned_cols=16  Identities=44%  Similarity=0.677  Sum_probs=14.0

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      .|+|||||++.+....
T Consensus         9 nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            9 PGVGKTTLVKKIVERL   24 (178)
T ss_dssp             TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            5999999999999843

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=84.45  E-value=0.34  Score=40.67  Aligned_cols=14  Identities=50%  Similarity=0.710  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||||+++++
T Consensus        58 ~G~GKTtl~~~i~~   71 (254)
T 1ixz_A           58 PGVGKTHLARAVAG   71 (254)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=84.44  E-value=1.3  Score=36.19  Aligned_cols=17  Identities=29%  Similarity=0.434  Sum_probs=14.3

Q ss_pred             CCCCcHHHHHHHHhcch
Q 043181            1 MGGVGKTTLAQLLCNNV   17 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~   17 (348)
                      +.|.||||+++.+.+..
T Consensus        14 ~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A           14 PEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             STTSSHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            36999999999999843

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=84.44  E-value=0.33  Score=41.82  Aligned_cols=15  Identities=33%  Similarity=0.492  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|+||||+|+.+..
T Consensus        41 ~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           41 QPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CTTSCTHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=84.31  E-value=0.38  Score=38.76  Aligned_cols=15  Identities=40%  Similarity=0.368  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        28 ~~GsGKST~a~~La~   42 (201)
T 2cdn_A           28 PPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=84.22  E-value=0.39  Score=39.34  Aligned_cols=15  Identities=33%  Similarity=0.291  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||+|..+..-
T Consensus        11 gGvGKTt~a~nLa~~   25 (224)
T 1byi_A           11 TEVGKTVASCALLQA   25 (224)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999999883

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=84.20  E-value=2.4  Score=37.97  Aligned_cols=46  Identities=24%  Similarity=0.415  Sum_probs=27.5

Q ss_pred             CCCCcHHHHHHHHhcchhhh---cCCC-eeEEEEcCCCCCHHHHHHHHHH
Q 043181            1 MGGVGKTTLAQLLCNNVKVK---NRFH-LETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~---~~F~-~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      ++|+||||||+++++.....   ..|+ ..+|++.....+...+.+.++.
T Consensus        60 ~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  109 (412)
T 1w5s_A           60 RVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVR  109 (412)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHH
Confidence            47999999999999843221   0122 3567775444445455444443

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=84.19  E-value=0.74  Score=40.81  Aligned_cols=15  Identities=47%  Similarity=0.601  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      ||+||||+|.++...
T Consensus        35 GGvGKTTvA~~LA~~   49 (349)
T 3ug7_A           35 GGVGKTTMSAATGVY   49 (349)
T ss_dssp             SSTTHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHH
Confidence            899999999999883

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=84.18  E-value=0.38  Score=38.44  Aligned_cols=15  Identities=33%  Similarity=0.337  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        20 ~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           20 GPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=84.13  E-value=0.79  Score=41.02  Aligned_cols=29  Identities=24%  Similarity=0.212  Sum_probs=20.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+...  ....=..++.++..
T Consensus       153 GGvGKTT~a~nLA~~--La~~g~rVlliD~D  181 (373)
T 3fkq_A          153 GGVGTSTVAAACAIA--HANMGKKVFYLNIE  181 (373)
T ss_dssp             TTSSHHHHHHHHHHH--HHHHTCCEEEEECC
T ss_pred             CCChHHHHHHHHHHH--HHhCCCCEEEEECC
Confidence            899999999999883  33221245666655

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=84.10  E-value=0.86  Score=40.38  Aligned_cols=30  Identities=23%  Similarity=0.189  Sum_probs=19.9

Q ss_pred             CCCcHHHHHHHHhcchhhh--cCCCeeEEEEcCC
Q 043181            2 GGVGKTTLAQLLCNNVKVK--NRFHLETWVYLFE   33 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~--~~F~~~~wv~~~~   33 (348)
                      ||+||||+|.++..  ...  ..=..++.|+...
T Consensus        27 GGvGKTt~a~~lA~--~la~~~~g~~vllid~D~   58 (348)
T 3io3_A           27 GGVGKTTTSSSVAV--QLALAQPNEQFLLISTDP   58 (348)
T ss_dssp             TTSSHHHHHHHHHH--HHHHHCTTSCEEEEECCS
T ss_pred             CCCcHHHHHHHHHH--HHHHhcCCCeEEEEECCC
Confidence            89999999999987  333  2212355555543

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=84.07  E-value=1.1  Score=36.08  Aligned_cols=16  Identities=25%  Similarity=0.378  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+|+.+.+.
T Consensus        17 ~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A           17 VDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3699999999999983

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=83.99  E-value=0.67  Score=39.00  Aligned_cols=29  Identities=34%  Similarity=0.209  Sum_probs=19.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..  .....=..++.|+..
T Consensus        12 gGvGKTt~a~~LA~--~la~~g~~VlliD~D   40 (263)
T 1hyq_A           12 GGTGKTTITANLGV--ALAQLGHDVTIVDAD   40 (263)
T ss_dssp             SCSCHHHHHHHHHH--HHHHTTCCEEEEECC
T ss_pred             CCCCHHHHHHHHHH--HHHhCCCcEEEEECC
Confidence            89999999999988  333321245556554

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=83.94  E-value=0.32  Score=41.90  Aligned_cols=14  Identities=43%  Similarity=0.555  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++++
T Consensus        63 ~GtGKT~la~~la~   76 (297)
T 3b9p_A           63 PGNGKTLLARAVAT   76 (297)
T ss_dssp             SSSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=83.82  E-value=0.3  Score=41.21  Aligned_cols=29  Identities=38%  Similarity=0.224  Sum_probs=19.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..-  ....=..++.|+..
T Consensus        16 GGvGKTt~a~~LA~~--la~~g~~VlliD~D   44 (257)
T 1wcv_1           16 GGVGKTTTAINLAAY--LARLGKRVLLVDLD   44 (257)
T ss_dssp             CCHHHHHHHHHHHHH--HHHTTCCEEEEECC
T ss_pred             CCchHHHHHHHHHHH--HHHCCCCEEEEECC
Confidence            899999999999983  33221234555543

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=83.79  E-value=0.41  Score=38.59  Aligned_cols=15  Identities=40%  Similarity=0.536  Sum_probs=13.3

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus         9 ~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            9 NIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHH
Confidence            369999999999976

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=83.77  E-value=0.41  Score=37.53  Aligned_cols=14  Identities=36%  Similarity=0.517  Sum_probs=12.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.|||||++.++.
T Consensus        18 nGsGKSTl~~~~~~   31 (171)
T 4gp7_A           18 SGSGKSTFAKKHFK   31 (171)
T ss_dssp             TTSCHHHHHHHHSC
T ss_pred             CCCCHHHHHHHHcc
Confidence            69999999999765

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=83.74  E-value=0.33  Score=42.54  Aligned_cols=14  Identities=36%  Similarity=0.570  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||+||+++++
T Consensus        60 pGtGKT~la~aia~   73 (322)
T 3eie_A           60 PGTGKSYLAKAVAT   73 (322)
T ss_dssp             SSSCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999998

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=83.72  E-value=0.38  Score=41.11  Aligned_cols=14  Identities=50%  Similarity=0.686  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.||||||++++.
T Consensus        53 ~GtGKTtLakala~   66 (274)
T 2x8a_A           53 PGCGKTLLAKAVAN   66 (274)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999998

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=83.65  E-value=0.41  Score=38.06  Aligned_cols=15  Identities=47%  Similarity=0.614  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus         8 ~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            8 IDGSGKTTQAKKLYE   22 (195)
T ss_dssp             STTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999988

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=83.62  E-value=0.41  Score=39.41  Aligned_cols=15  Identities=27%  Similarity=0.406  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+.+
T Consensus        15 ~~GsGKsT~a~~La~   29 (227)
T 1zd8_A           15 APGSGKGTVSSRITT   29 (227)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=83.60  E-value=0.42  Score=39.15  Aligned_cols=15  Identities=40%  Similarity=0.313  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        12 ~~GsGKsT~a~~La~   26 (220)
T 1aky_A           12 PPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=83.50  E-value=0.41  Score=39.23  Aligned_cols=15  Identities=27%  Similarity=0.302  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        13 ~~GsGKsT~~~~La~   27 (222)
T 1zak_A           13 APASGKGTQCELIKT   27 (222)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=83.43  E-value=0.96  Score=40.93  Aligned_cols=61  Identities=13%  Similarity=0.097  Sum_probs=43.7

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFV  338 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~  338 (348)
                      ..+..+.+|+.++++.|.++.+|...-...+|+.+.+..  .+..++. .+.++++|+.+.+..
T Consensus       174 ~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~--~l~~I~~~aF~~~~~L~~l~l~~  235 (401)
T 4fdw_A          174 DIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPV--TLKEIGSQAFLKTSQLKTIEIPE  235 (401)
T ss_dssp             STTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCT--TCCEECTTTTTTCTTCCCEECCT
T ss_pred             HHhhCcccCCeeecCCCcceEechhhEeecccCEEEeCC--chheehhhHhhCCCCCCEEecCC
Confidence            456778889999999888888877665567888887764  3666654 355666777777654

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=83.36  E-value=1.2  Score=39.60  Aligned_cols=35  Identities=17%  Similarity=0.172  Sum_probs=25.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVF   38 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~   38 (348)
                      +|+||||||.++.......+  ..++|++....++..
T Consensus        72 pGsGKTtLal~la~~~~~~g--~~vlyid~E~s~~~~  106 (356)
T 1u94_A           72 ESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI  106 (356)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH
T ss_pred             CCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCccHH
Confidence            69999999999987433222  368899887766643

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=83.09  E-value=0.43  Score=38.75  Aligned_cols=15  Identities=40%  Similarity=0.561  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|.|||||++.+..-
T Consensus        31 sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           31 PGSGKSTLSNPLAAA   45 (208)
T ss_dssp             TTSCTHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999883

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=82.96  E-value=1.3  Score=38.55  Aligned_cols=42  Identities=21%  Similarity=0.228  Sum_probs=28.8

Q ss_pred             CCCcHHHHHHHHhcchhhhc---------CC-----CeeEEEEcCCCCCHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKN---------RF-----HLETWVYLFEDFDVFRITKT   43 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~---------~F-----~~~~wv~~~~~~~~~~l~~~   43 (348)
                      +|+||||||.++..+.....         ..     ..++|++.-..++..++.+.
T Consensus       107 ~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~  162 (322)
T 2i1q_A          107 FGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM  162 (322)
T ss_dssp             TTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH
Confidence            69999999999886422211         11     35788988887777766644

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=82.93  E-value=0.44  Score=38.12  Aligned_cols=15  Identities=40%  Similarity=0.523  Sum_probs=13.2

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|+|||||++++..
T Consensus         9 PSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            9 PSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            379999999999876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=82.91  E-value=0.45  Score=38.48  Aligned_cols=16  Identities=31%  Similarity=0.484  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+|+.+.+.
T Consensus        18 ~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           18 LDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3699999999999883

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=82.81  E-value=1.3  Score=39.25  Aligned_cols=36  Identities=19%  Similarity=0.135  Sum_probs=22.4

Q ss_pred             CCCcHHHHHHHHhcchhhh--cCCCeeEEEEcCCCCCHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVK--NRFHLETWVYLFEDFDVFR   39 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~--~~F~~~~wv~~~~~~~~~~   39 (348)
                      ||+||||+|..+.-  ...  ..=..++-|+.....++..
T Consensus        27 GGvGKTTvaanLA~--~lA~~~~G~rVLLvD~D~~~~l~~   64 (354)
T 2woj_A           27 GGVGKTTSSCSIAI--QMALSQPNKQFLLISTDPAHNLSD   64 (354)
T ss_dssp             TTSSHHHHHHHHHH--HHHHHCTTSCEEEEECCSSCCHHH
T ss_pred             CCCcHHHHHHHHHH--HHHHhcCCCeEEEEECCCCCCHHH
Confidence            89999999999887  443  2212355565544344433

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=82.76  E-value=0.46  Score=38.22  Aligned_cols=15  Identities=33%  Similarity=0.503  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ..|.||||+++.+..
T Consensus        14 ~~GsGKSTl~~~L~~   28 (207)
T 2j41_A           14 PSGVGKGTVRKRIFE   28 (207)
T ss_dssp             STTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999987

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=82.68  E-value=0.47  Score=37.60  Aligned_cols=15  Identities=27%  Similarity=0.235  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        14 ~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A           14 GPGSGKGTQCANIVR   28 (194)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=82.67  E-value=0.49  Score=37.26  Aligned_cols=15  Identities=40%  Similarity=0.607  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+++.+..
T Consensus        13 ~~GsGKST~~~~L~~   27 (179)
T 2pez_A           13 LSGAGKTTVSMALEE   27 (179)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=82.52  E-value=0.48  Score=38.11  Aligned_cols=15  Identities=33%  Similarity=0.359  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        23 ~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           23 GPGAGKGTQCEKLVK   37 (203)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=82.44  E-value=1.9  Score=38.03  Aligned_cols=42  Identities=19%  Similarity=0.180  Sum_probs=28.7

Q ss_pred             CCCcHHHHHHHHhcchhhhc----CCCeeEEEEcCCCCCHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKN----RFHLETWVYLFEDFDVFRITKT   43 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~l~~~   43 (348)
                      +|+||||||.++..+.....    .=..++|++....++..++.+.
T Consensus       131 ~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~  176 (343)
T 1v5w_A          131 FRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDI  176 (343)
T ss_dssp             TTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHH
Confidence            59999999999887432211    1236789988877777665543

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=82.40  E-value=1.1  Score=39.37  Aligned_cols=29  Identities=28%  Similarity=0.190  Sum_probs=18.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..  .....=..++.++..
T Consensus        28 GGvGKTTva~~LA~--~lA~~G~rVllvD~D   56 (329)
T 2woo_A           28 GGVGKTTTSCSLAI--QMSKVRSSVLLISTD   56 (329)
T ss_dssp             SSSSHHHHHHHHHH--HHHTSSSCEEEEECC
T ss_pred             CCCcHHHHHHHHHH--HHHHCCCeEEEEECC
Confidence            89999999999887  333321134455544

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=82.39  E-value=0.48  Score=42.86  Aligned_cols=14  Identities=43%  Similarity=0.555  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      ||+||||+|..+..
T Consensus       118 GGvGKTT~a~nLA~  131 (398)
T 3ez2_A          118 GGVSKTVSTVSLAH  131 (398)
T ss_dssp             SSSSHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHH
Confidence            89999999999987

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=82.37  E-value=0.49  Score=38.47  Aligned_cols=16  Identities=38%  Similarity=0.449  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+|+.+...
T Consensus        33 ~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           33 LSASGKSTLAVELEHQ   48 (211)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4699999999999883

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=82.35  E-value=0.54  Score=39.27  Aligned_cols=15  Identities=33%  Similarity=0.437  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ..|.||||+++.+.+
T Consensus        35 ~~GsGKSTl~k~La~   49 (246)
T 2bbw_A           35 PPGSGKGTVCQRIAQ   49 (246)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999995

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=82.21  E-value=0.56  Score=37.69  Aligned_cols=14  Identities=43%  Similarity=0.717  Sum_probs=12.9

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.|||||++.+..
T Consensus        16 ~GsGKSTl~~~L~~   29 (205)
T 3tr0_A           16 SGAGKTSLVRALVK   29 (205)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh
Confidence            59999999999987

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=82.19  E-value=1.7  Score=35.42  Aligned_cols=33  Identities=27%  Similarity=0.267  Sum_probs=20.5

Q ss_pred             CCCcHHHHHHHHhcchhh---hc-CCCeeEEEEcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKV---KN-RFHLETWVYLFED   34 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~---~~-~F~~~~wv~~~~~   34 (348)
                      .|.|||||++.+......   .. .-...+|+.-...
T Consensus        34 nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~   70 (231)
T 4a74_A           34 FGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   70 (231)
T ss_dssp             TTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSC
T ss_pred             CCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCC
Confidence            699999999999762211   11 1234677765443

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=82.18  E-value=1.1  Score=36.91  Aligned_cols=16  Identities=31%  Similarity=0.395  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+++.+.+.
T Consensus        34 ~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           34 PEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CTTSCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3699999999999984

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=82.09  E-value=0.51  Score=38.41  Aligned_cols=15  Identities=33%  Similarity=0.503  Sum_probs=13.3

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus         8 ~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            8 LPGAGKGTQAEQIIE   22 (216)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999977

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=82.08  E-value=0.48  Score=40.41  Aligned_cols=14  Identities=50%  Similarity=0.710  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||||+++++
T Consensus        82 ~GtGKTtl~~~i~~   95 (278)
T 1iy2_A           82 PGVGKTHLARAVAG   95 (278)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CcChHHHHHHHHHH
Confidence            69999999999998

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=81.92  E-value=0.59  Score=37.72  Aligned_cols=15  Identities=47%  Similarity=0.578  Sum_probs=13.2

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+++.+..
T Consensus        10 ~~GsGKST~~~~La~   24 (206)
T 1jjv_A           10 GIGSGKTTIANLFTD   24 (206)
T ss_dssp             STTSCHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999976

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=81.91  E-value=1.1  Score=36.94  Aligned_cols=17  Identities=41%  Similarity=0.800  Sum_probs=11.5

Q ss_pred             CCCCcHHHHHHHHhcch
Q 043181            1 MGGVGKTTLAQLLCNNV   17 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~   17 (348)
                      +.|+||||+++.+.+..
T Consensus        33 ~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           33 IDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CC---CHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            36999999999999843

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=81.91  E-value=0.59  Score=37.78  Aligned_cols=14  Identities=50%  Similarity=0.487  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.||||+|+.+..
T Consensus        30 ~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           30 TNSGKTTLAKNLQK   43 (207)
T ss_dssp             TTSSHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999987

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=81.87  E-value=0.99  Score=35.41  Aligned_cols=14  Identities=36%  Similarity=0.316  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.|||||+..+..
T Consensus        13 sGsGKTTl~~~L~~   26 (169)
T 1xjc_A           13 KHSGKTTLMEKWVA   26 (169)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=81.85  E-value=0.48  Score=41.52  Aligned_cols=14  Identities=36%  Similarity=0.570  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||+||+++++
T Consensus        54 pGtGKT~la~ala~   67 (322)
T 1xwi_A           54 PGTGKSYLAKAVAT   67 (322)
T ss_dssp             SSSCHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHH
Confidence            69999999999998

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=81.85  E-value=0.54  Score=37.76  Aligned_cols=15  Identities=27%  Similarity=0.297  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        12 ~~GsGKsT~~~~L~~   26 (204)
T 2v54_A           12 LDKSGKTTQCMNIME   26 (204)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=81.84  E-value=0.58  Score=37.96  Aligned_cols=14  Identities=36%  Similarity=0.598  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||||++.+..
T Consensus        17 sGsGKsTl~~~L~~   30 (208)
T 3tau_A           17 SGVGKGTVREAVFK   30 (208)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh
Confidence            69999999999987

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=81.67  E-value=0.53  Score=39.61  Aligned_cols=15  Identities=40%  Similarity=0.698  Sum_probs=13.9

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+++.+..
T Consensus        56 ~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           56 MMGSGKTTVGKIMAR   70 (250)
T ss_dssp             STTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999988

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=81.54  E-value=0.55  Score=38.45  Aligned_cols=15  Identities=33%  Similarity=0.554  Sum_probs=13.3

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ..|.||||+|+.+..
T Consensus        13 ~~GsGKSTl~~~L~~   27 (227)
T 1cke_A           13 PSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999987

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=81.53  E-value=0.56  Score=38.34  Aligned_cols=15  Identities=27%  Similarity=0.399  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        13 ~~GsGKsT~a~~La~   27 (217)
T 3be4_A           13 APGSGKGTQCEFIKK   27 (217)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=81.44  E-value=0.58  Score=36.29  Aligned_cols=14  Identities=43%  Similarity=0.496  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.|||||++.+..
T Consensus        42 nGaGKTTLlr~l~g   55 (158)
T 1htw_A           42 LGAGKTTLTRGMLQ   55 (158)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            59999999999988

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=81.35  E-value=0.56  Score=38.17  Aligned_cols=15  Identities=27%  Similarity=0.472  Sum_probs=13.2

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+..
T Consensus         8 ~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            8 LPGAGKGTQGERIVE   22 (216)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999976

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=81.34  E-value=0.56  Score=38.18  Aligned_cols=15  Identities=33%  Similarity=0.313  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus         8 ~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            8 APVAGKGTQAQFIME   22 (214)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=81.30  E-value=0.96  Score=40.28  Aligned_cols=33  Identities=27%  Similarity=0.247  Sum_probs=21.3

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFD   36 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~   36 (348)
                      ||+||||+|..+..-  ....=..++.|+.....+
T Consensus        11 GGvGKTT~a~nLA~~--LA~~G~rVLlID~D~q~~   43 (361)
T 3pg5_A           11 GGVGKTTLSTNVAHY--FALQGKRVLYVDCDPQCN   43 (361)
T ss_dssp             CCHHHHHHHHHHHHH--HHHTTCCEEEEECCTTCT
T ss_pred             CCCcHHHHHHHHHHH--HHhCCCcEEEEEcCCCCC
Confidence            899999999999873  332212456666544333

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=81.15  E-value=1.9  Score=35.13  Aligned_cols=44  Identities=14%  Similarity=0.136  Sum_probs=26.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      .|.||||+++.+.+...-. .+..+.+..-.....+.+.+++++.
T Consensus        12 ~gsGKsT~~~~l~~~l~~~-~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A           12 EGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             TTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHc-CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            6999999999999844333 2323343333333345555666554

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=81.11  E-value=0.54  Score=39.66  Aligned_cols=15  Identities=33%  Similarity=0.346  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+|||++|+++++.
T Consensus        38 ~GtGKt~la~~i~~~   52 (265)
T 2bjv_A           38 RGTGKELIASRLHYL   52 (265)
T ss_dssp             TTSCHHHHHHHHHHT
T ss_pred             CCCcHHHHHHHHHHh
Confidence            599999999999983

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=81.05  E-value=1.3  Score=36.39  Aligned_cols=46  Identities=17%  Similarity=0.091  Sum_probs=26.2

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHHHHHHHHHH
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVFRITKTMLQ   46 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~l~~~il~   46 (348)
                      +.|.||||+++.+.+.......++..............+.+++++.
T Consensus        29 ~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           29 IDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             STTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            3699999999999984333122333332333333344555666655

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=80.99  E-value=0.48  Score=42.12  Aligned_cols=14  Identities=36%  Similarity=0.570  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||+||+++++
T Consensus        93 pGtGKT~la~ala~  106 (355)
T 2qp9_X           93 PGTGKSYLAKAVAT  106 (355)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999999

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=80.90  E-value=0.6  Score=38.62  Aligned_cols=15  Identities=40%  Similarity=0.395  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        24 ~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           24 PPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=80.82  E-value=0.56  Score=40.40  Aligned_cols=14  Identities=50%  Similarity=0.736  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++.+
T Consensus        59 ~GtGKT~la~~la~   72 (310)
T 1ofh_A           59 TGVGKTEIARRLAK   72 (310)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=80.81  E-value=9.4  Score=33.26  Aligned_cols=39  Identities=13%  Similarity=0.106  Sum_probs=25.2

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHH
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEIL  112 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~i  112 (348)
                      +++.++..+.+....    .  ..   .+....+++.++|.|..+..+
T Consensus       166 ~~~~~~~~~~L~~~~----~--~~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          166 PPPEQYAVTWLSREV----T--MS---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             CCCHHHHHHHHHHHC----C--CC---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             CCCHHHHHHHHHHhc----C--CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            677787777777664    1  11   234567888888888655443

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=80.77  E-value=0.61  Score=38.32  Aligned_cols=15  Identities=33%  Similarity=0.437  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus         8 ~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            8 PNGSGKGTQGNLVKD   22 (223)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=80.56  E-value=2  Score=37.44  Aligned_cols=37  Identities=3%  Similarity=-0.211  Sum_probs=25.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVF   38 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~   38 (348)
                      .|+||||||.++......++.=..++|++.-..++..
T Consensus        37 pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~   73 (333)
T 3io5_A           37 SKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA   73 (333)
T ss_dssp             SSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH
Confidence            6999999999988743322101357899887777653

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=80.53  E-value=0.57  Score=41.60  Aligned_cols=14  Identities=36%  Similarity=0.517  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+++.+
T Consensus        79 pGtGKT~la~~la~   92 (368)
T 3uk6_A           79 PGTGKTAIAMGMAQ   92 (368)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=80.32  E-value=1.8  Score=38.32  Aligned_cols=34  Identities=21%  Similarity=0.236  Sum_probs=24.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDV   37 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~   37 (348)
                      +|+||||||.++.......+  ..++|++....++.
T Consensus        70 pGsGKTtLal~la~~~~~~g--~~vlyi~~E~~~~~  103 (349)
T 2zr9_A           70 ESSGKTTVALHAVANAQAAG--GIAAFIDAEHALDP  103 (349)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCH
T ss_pred             CCCCHHHHHHHHHHHHHhCC--CeEEEEECCCCcCH
Confidence            69999999999987433222  35788888766664

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=80.18  E-value=0.66  Score=37.13  Aligned_cols=15  Identities=47%  Similarity=0.521  Sum_probs=13.5

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        16 ~~GsGKST~~~~La~   30 (203)
T 1uf9_A           16 NIGSGKSTVAALLRS   30 (203)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999987

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=80.09  E-value=0.69  Score=37.42  Aligned_cols=14  Identities=57%  Similarity=0.617  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.|||||++.+..
T Consensus        15 ~GsGKSTl~~~l~~   28 (211)
T 3asz_A           15 TASGKTTLAQALAR   28 (211)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999988

---

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	348
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	5e-12
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-04

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 63.3 bits (153), Expect = 5e-12
 Identities = 20/225 (8%), Positives = 45/225 (20%), Gaps = 76/225 (33%)

Query: 1   MGGVGKTTLAQLLCNN--VKVKNRFHLETWVYLFEDFDVFRITKTMLQSIST-------- 50
             G GK+ +A    +     +   +    W+                  +          
Sbjct: 52  RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLN 111

Query: 51  --------------------------EAVRDNDLNLLQLKKWSDDDCLCVFTQRSSRRTD 84
                                       V D+ +    ++   +    C+ T R    ++
Sbjct: 112 FPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISN 171

Query: 85  FNMH-----------------------------MHLKEIGEKIVKKCNGLPLASEILGGL 115
                                               +++  K ++  +G P    +    
Sbjct: 172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKS 231

Query: 116 LHGK-----------VDCIDWEDVLNSKAISCHYLLPHLKRCFSY 149
              K           ++      V      S   L   L+RC   
Sbjct: 232 CEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEV 276

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 41.1 bits (95), Expect = 1e-04
 Identities = 26/145 (17%), Positives = 52/145 (35%), Gaps = 4/145 (2%)

Query: 192 GELQSRSHFRQSSSNVSRFAMHDFINDLAHKYDGIKRFEAIDGVKHLRTSLPISSRVVWD 251
             L + +    +++ +S  A    +  L     G  +   I  +  L     +       
Sbjct: 238 ASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQL 297

Query: 252 YSHLNRNVLFDLS-LKLQCFRYELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETL 310
                 + L +L+ L L        S +  L  L+ L F++ +V +   S+  L N+  L
Sbjct: 298 EDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKV-SDVSSLANLTNINWL 356

Query: 311 KLQNCNRLQKLFADIGNLNNLHHLD 335
              + N++  L   + NL  +  L 
Sbjct: 357 SAGH-NQISDLTP-LANLTRITQLG 379

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	348
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.92
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.8
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.65
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.39
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.27
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.22
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.22
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.21
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.2
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.17
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.13
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.13
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.12
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.1
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.09
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.07
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.06
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.05
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.04
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.02
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.93
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	97.92
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	97.91
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	97.89
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	97.83
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	97.78
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	97.57
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	97.48
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	97.2
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	97.2
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	97.11
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.1
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	96.92
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	96.88
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	96.84
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	95.41
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.4
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	95.06
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	94.96
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	94.55
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.42
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	94.19
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	94.11
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	94.02
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	93.85
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	93.84
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	93.74
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	93.69
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	93.65
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	93.51
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	93.31
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	93.31
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	93.15
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	92.83
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	92.81
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	92.8
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.49
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.16
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	92.08
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	92.07
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	91.69
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	91.52
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	91.47
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.41
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	91.3
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	91.26
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	91.17
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	91.08
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	90.88
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	90.67
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	90.66
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	90.57
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	90.54
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	90.54
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	90.44
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	90.29
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	90.08
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	89.53
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	89.25
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	89.19
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	88.66
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	88.31
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	88.26
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	87.98
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	87.87
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	87.84
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	87.43
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	87.26
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	87.21
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	87.09
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	87.06
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	86.65
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	86.32
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	86.15
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	86.07
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	85.9
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	85.65
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	85.48
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	85.44
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	85.14
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	84.95
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	84.88
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	84.87
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	84.13
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	83.97
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	83.9
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	83.6
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	83.46
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	83.4
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	83.21
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	83.17
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	82.92
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	82.71
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	82.68
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	82.27
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	82.2
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	82.14
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	82.1
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	81.98

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.92  E-value=1.3e-25  Score=194.89  Aligned_cols=145  Identities=12%  Similarity=0.115  Sum_probs=109.2

Q ss_pred             CCCCcHHHHHHHHhcchh--hhcCCCeeEEEEcCCCCCHHHHHHHHHHhc---cccccC-----C---------------
Q 043181            1 MGGVGKTTLAQLLCNNVK--VKNRFHLETWVYLFEDFDVFRITKTMLQSI---STEAVR-----D---------------   55 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~--~~~~F~~~~wv~~~~~~~~~~l~~~il~~l---~~~~~~-----~---------------   55 (348)
                      ||||||||||+++|++.+  +..+|++++|+++++.++...+...+...+   ......     .               
T Consensus        52 mgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (277)
T d2a5yb3          52 RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNAL  131 (277)
T ss_dssp             STTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHH
Confidence            899999999999998643  778899999999999888666655443322   211100     0               


Q ss_pred             -------------CCh------------------------------hhhhcCCCChHHHHHHHHHhhcCCCCCCcChhHH
Q 043181           56 -------------NDL------------------------------NLLQLKKWSDDDCLCVFTQRSSRRTDFNMHMHLK   92 (348)
Q Consensus        56 -------------~~~------------------------------~~l~~~~l~~~~a~~Lf~~~a~~~~~~~~~~~~~   92 (348)
                                   .+.                              ..+...+|+.+|||+||+..+|....   .+..+
T Consensus       132 L~~kr~LlVLDDv~~~~~~~~~~~~~srilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~---~~~~~  208 (277)
T d2a5yb3         132 IDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV---GEKEE  208 (277)
T ss_dssp             TTSTTEEEEEEEECCHHHHHHHHHTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHH
T ss_pred             hccCCeeEecchhhHHhhhhhhcccCceEEEEeehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccC---chhhH
Confidence                         000                              00111189999999999999987653   34567


Q ss_pred             HHHHHHHHHcCCCchhHHHHHhhhcCCCCchhHHHHhcCcc------------cccccCchHHHHHHhH
Q 043181           93 EIGEKIVKKCNGLPLASEILGGLLHGKVDCIDWEDVLNSKA------------ISCHYLLPHLKRCFSY  149 (348)
Q Consensus        93 ~~~~~i~~~c~GlPLal~~ig~~L~~~~~~~~w~~~l~~~~------------~s~~~L~~~~k~~fl~  149 (348)
                      +++++|+++|+|+||||+++|+.|+.+ +.+.|.+..+.+.            .||+.||+++|+||.+
T Consensus       209 ~~~~~iv~~c~GlPLAl~~ig~~l~~k-~~~~~~~~~~~L~~~~~~~v~~il~~sY~~L~~~lk~c~~~  276 (277)
T d2a5yb3         209 DVLNKTIELSSGNPATLMMFFKSCEPK-TFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEV  276 (277)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHTTCCSS-SHHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccC-CHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccHHHHHHHHh
Confidence            899999999999999999999999988 6777877665432            9999999999999965

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.80  E-value=4.5e-09  Score=78.12  Aligned_cols=70  Identities=33%  Similarity=0.324  Sum_probs=53.1

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTFSLESL  345 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~~l~~l  345 (348)
                      .+|+.++.+++|+.|++++|.++.+|. ++.+++|+.|++++ +.+..+|.  .++.+++|+.|++++| .+...
T Consensus        34 ~lp~~~~~l~~L~~L~l~~N~i~~l~~-~~~l~~L~~L~l~~-N~i~~~~~~~~l~~~~~L~~L~l~~N-~i~~~  105 (124)
T d1dcea3          34 ALPPALAALRCLEVLQASDNALENVDG-VANLPRLQELLLCN-NRLQQSAAIQPLVSCPRLVLLNLQGN-SLCQE  105 (124)
T ss_dssp             CCCGGGGGCTTCCEEECCSSCCCCCGG-GTTCSSCCEEECCS-SCCCSSSTTGGGGGCTTCCEEECTTS-GGGGS
T ss_pred             cchhhhhhhhcccccccccccccccCc-cccccccCeEECCC-CccCCCCCchhhcCCCCCCEEECCCC-cCCcC
Confidence            677778888888888888888888764 78888888888887 56776663  4677788888888887 44433

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.65  E-value=2.6e-08  Score=73.87  Aligned_cols=68  Identities=22%  Similarity=0.346  Sum_probs=57.2

Q ss_pred             cccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .++++.+|++|++++|.++.+|+.++.+++|++|++++ +.+..+|. ++++++|++|++++| .+..+|.
T Consensus        15 ~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~-N~i~~l~~-~~~l~~L~~L~l~~N-~i~~~~~   82 (124)
T d1dcea3          15 HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASD-NALENVDG-VANLPRLQELLLCNN-RLQQSAA   82 (124)
T ss_dssp             CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCS-SCCCCCGG-GTTCSSCCEEECCSS-CCCSSST
T ss_pred             ccccCCCCCEEECCCCccCcchhhhhhhhccccccccc-ccccccCc-cccccccCeEECCCC-ccCCCCC
Confidence            47788889999999999888888888899999999988 68888874 888889999999888 6776654

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=2.1e-07  Score=72.24  Aligned_cols=107  Identities=18%  Similarity=0.152  Sum_probs=74.0

Q ss_pred             cccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchhh-hc
Q 043181          231 AIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESV-CK  303 (348)
Q Consensus       231 ~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~-~~  303 (348)
                      .+.+...+|.|...++...    .+. . +...+.++..|.+      .+ +.++.+++|++|++++|.++.+|+.+ ..
T Consensus        13 ~~~n~~~lr~L~L~~n~I~----~i~-~-~~~~l~~L~~L~Ls~N~i~~l-~~~~~l~~L~~L~ls~N~i~~l~~~~~~~   85 (162)
T d1a9na_          13 QYTNAVRDRELDLRGYKIP----VIE-N-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQA   85 (162)
T ss_dssp             EEECTTSCEEEECTTSCCC----SCC-C-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHH
T ss_pred             hccCcCcCcEEECCCCCCC----ccC-c-cccccccCCEEECCCCCCCcc-CCcccCcchhhhhcccccccCCCcccccc
Confidence            3445666777766665431    111 1 1112344555444      44 35788999999999999999988765 57


Q ss_pred             cCCCCEeeccCCCccchhHH--HhcccccCcEeeccCCCCCCCCC
Q 043181          304 LHNLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       304 l~~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +++|+.|++++ +.+..++.  .+..+++|++|++++| .+..+|
T Consensus        86 l~~L~~L~L~~-N~i~~~~~l~~l~~l~~L~~L~l~~N-~i~~~~  128 (162)
T d1a9na_          86 LPDLTELILTN-NSLVELGDLDPLASLKSLTYLCILRN-PVTNKK  128 (162)
T ss_dssp             CTTCCEEECCS-CCCCCGGGGGGGGGCTTCCEEECCSS-GGGGST
T ss_pred             ccccccceecc-ccccccccccccccccccchhhcCCC-cccccc
Confidence            99999999998 57777764  5778899999999999 555554

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=2.8e-07  Score=71.48  Aligned_cols=71  Identities=24%  Similarity=0.260  Sum_probs=58.6

Q ss_pred             eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHh-cccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADI-GNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i-~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+|..+..+.+|++|++++|.+++++ .+..+++|++|++++ +.+..+|+++ ..+++|++|++++| .+..++
T Consensus        32 ~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~-N~i~~l~~~~~~~l~~L~~L~L~~N-~i~~~~  103 (162)
T d1a9na_          32 VIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNN-NRICRIGEGLDQALPDLTELILTNN-SLVELG  103 (162)
T ss_dssp             SCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCS-SCCCEECSCHHHHCTTCCEEECCSC-CCCCGG
T ss_pred             ccCccccccccCCEEECCCCCCCccC-CcccCcchhhhhccc-ccccCCCccccccccccccceeccc-cccccc
Confidence            45665678899999999999999885 488999999999999 5788888754 57899999999998 665554

>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=98.22  E-value=1.7e-06  Score=69.31  Aligned_cols=69  Identities=20%  Similarity=0.336  Sum_probs=58.2

Q ss_pred             CccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ...+..+++|++|++++|.+..+| .+..+++|+.|++.+ +.+..+|+ ++++++|++|++++| .+..+|.
T Consensus       121 ~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~-n~l~~l~~-l~~l~~L~~L~ls~N-~i~~i~~  189 (199)
T d2omxa2         121 IDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSS-NQVTDLKP-LANLTTLERLDISSN-KVSDISV  189 (199)
T ss_dssp             CGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCS-SCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG
T ss_pred             ccccchhhhhHHhhhhhhhhcccc-ccccccccccccccc-ccccCCcc-ccCCCCCCEEECCCC-CCCCCcc
Confidence            345788999999999999988776 488899999999998 57888875 899999999999999 6777764

>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=98.22  E-value=6.3e-07  Score=76.87  Aligned_cols=64  Identities=13%  Similarity=0.238  Sum_probs=34.4

Q ss_pred             CccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHH-------hcccccCcEeeccCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFAD-------IGNLNNLHHLDNFVT  339 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~-------i~~l~~L~~L~l~~~  339 (348)
                      +..+..+++|++|+|++|.++++|+++..+++|++|++++ ++++.++..       ...+.+|+.|++++|
T Consensus       212 ~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~-N~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N  282 (305)
T d1xkua_         212 NGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHN-NNISAIGSNDFCPPGYNTKKASYSGVSLFSN  282 (305)
T ss_dssp             TTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECCS-SCCCCCCTTSSSCSSCCTTSCCCSEEECCSS
T ss_pred             cccccccccceeeecccccccccccccccccCCCEEECCC-CccCccChhhccCcchhcccCCCCEEECCCC
Confidence            3444555556666666655555555555556666666655 345555432       123445555555555

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.21  E-value=6.6e-07  Score=71.36  Aligned_cols=67  Identities=19%  Similarity=0.298  Sum_probs=57.3

Q ss_pred             eCCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTF  340 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~  340 (348)
                      ..+..+..+.+|++|++++|++..+|+ .+..+++|++|+|++ +.+..+|++ +..+++|++|++++|+
T Consensus        69 ~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~-N~l~~i~~~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          69 IEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYD-NQISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             BCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCS-SCCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             ccccccccccccceeeeccccccccCHHHHhCCCcccccccCC-ccccccCHHHhcCCcccccccccccc
Confidence            346778889999999999999998865 478899999999999 788998775 6789999999999884

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=9.8e-07  Score=67.85  Aligned_cols=65  Identities=18%  Similarity=0.068  Sum_probs=54.4

Q ss_pred             CccccCCCCccEEecCCCCCccCc-hhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSP-ESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp-~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      +..+..+++|+.|++++|.++.++ ..+..+++|++|+|++ +.+..+|.++....+|++|++++|+
T Consensus        49 ~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~-N~l~~l~~~~~~~~~l~~L~L~~Np  114 (156)
T d2ifga3          49 LRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSF-NALESLSWKTVQGLSLQELVLSGNP  114 (156)
T ss_dssp             GGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCS-SCCSCCCSTTTCSCCCCEEECCSSC
T ss_pred             chhhccccccCcceeeccccCCcccccccccccccceeccC-CCCcccChhhhccccccccccCCCc
Confidence            456888999999999999999885 4578899999999998 7889999877666689999998884

>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=98.17  E-value=4.4e-07  Score=78.20  Aligned_cols=74  Identities=22%  Similarity=0.256  Sum_probs=58.9

Q ss_pred             eCCccccCCCCccEEecCCCCCcc-CchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYLNFSDAQVET-SPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l~l~~~~~~~-lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      .+|.+++++++|++|++++|.+.. .|..+..+.+|+.+++.++.....+|.+++++++|+++++++|.....+|
T Consensus        92 ~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip  166 (313)
T d1ogqa_          92 PIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIP  166 (313)
T ss_dssp             CCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECC
T ss_pred             ccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCcccceeeccccccccccc
Confidence            578888888888888888888775 45557788888888888877777888888899999999998885554555

>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=98.13  E-value=1.5e-06  Score=73.05  Aligned_cols=65  Identities=22%  Similarity=0.170  Sum_probs=55.3

Q ss_pred             CccccCCCCccEEecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~  340 (348)
                      +..+..+.+|+++++++|+++.+|+. +..+++|++|+|++ +.+..+|.++..+++|+.|++++|+
T Consensus       141 ~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L~Ls~-N~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         141 PGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQE-NSLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             TTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEEECCS-SCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             cccccccccchhcccccccccccCccccccccccceeeccc-CCCcccChhHCCCCCCCEEEecCCC
Confidence            34456788999999999999887654 68899999999998 6788999999999999999998874

>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=98.13  E-value=3e-06  Score=69.23  Aligned_cols=65  Identities=23%  Similarity=0.380  Sum_probs=34.3

Q ss_pred             ccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +..+.+|++|+++++.+...++ ++.+++|+.|++++| .+..+|. +.++++|++|++++| .++.+|
T Consensus       147 ~~~~~~L~~L~l~~n~~~~~~~-l~~l~~L~~L~Ls~n-~l~~l~~-l~~l~~L~~L~Ls~N-~lt~i~  211 (227)
T d1h6ua2         147 LAGLTNLQYLSIGNAQVSDLTP-LANLSKLTTLKADDN-KISDISP-LASLPNLIEVHLKNN-QISDVS  211 (227)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCGG-GGGCTTCCEEECTTS-CCCBCG
T ss_pred             hccccccccccccccccccchh-hcccccceecccCCC-ccCCChh-hcCCCCCCEEECcCC-cCCCCc
Confidence            4445555555555555544433 555555555555553 4555543 555555555555555 444444

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.12  E-value=9.5e-07  Score=70.41  Aligned_cols=71  Identities=17%  Similarity=0.289  Sum_probs=61.5

Q ss_pred             CccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +..+..+.+|+.|++++|.+..+ +..+..+++|+.|++++ +.+..+|+. +.++++|++|+|++| .+..+|+
T Consensus        47 ~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~-N~l~~l~~~~F~~l~~L~~L~L~~N-~l~~i~~  119 (192)
T d1w8aa_          47 DGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE-NKIKEISNKMFLGLHQLKTLNLYDN-QISCVMP  119 (192)
T ss_dssp             SCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS-CCCCEECSSSSTTCTTCCEEECCSS-CCCEECT
T ss_pred             ccccCCCceEeeeeccccccccccccccccccccceeeecc-ccccccCHHHHhCCCcccccccCCc-cccccCH
Confidence            45678899999999999998875 46778899999999999 789999875 789999999999999 7887764

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.10  E-value=1.2e-06  Score=67.26  Aligned_cols=40  Identities=23%  Similarity=0.148  Sum_probs=23.8

Q ss_pred             CccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQN  314 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~  314 (348)
                      |..+..+++|++|+|++|+++++|+.+....+|+.|+|++
T Consensus        73 ~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~L~L~~  112 (156)
T d2ifga3          73 PDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSG  112 (156)
T ss_dssp             TTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCEEECCS
T ss_pred             cccccccccccceeccCCCCcccChhhhccccccccccCC
Confidence            3445566666666666666666665555445566666655

>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=98.09  E-value=3.5e-06  Score=68.04  Aligned_cols=60  Identities=27%  Similarity=0.397  Sum_probs=38.7

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFV  338 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~  338 (348)
                      ..+..+++|+++++++|.++.+++ ++.+++|+.|++++ +.+..+| ++.+|++|++|++++
T Consensus       150 ~~~~~l~~L~~l~l~~n~l~~i~~-l~~l~~L~~L~Ls~-N~i~~l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         150 TVLSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSK-NHISDLR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             GGGGGCTTCSEEECCSSCCCCCGG-GTTCTTCCEEECCS-SCCCBCG-GGTTCTTCSEEEEEE
T ss_pred             cccccccccccccccccccccccc-ccCCCCCCEEECCC-CCCCCCh-hhcCCCCCCEEEccC
Confidence            345566667777777776666654 66667777777766 3566666 366677777776653

>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=98.07  E-value=5.3e-06  Score=66.94  Aligned_cols=69  Identities=19%  Similarity=0.343  Sum_probs=56.7

Q ss_pred             CccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ...+..+++++.++++++.++..+ .++.+++|+.+++.+ +.+..+++ +.++++|+.|++++| .++.+|.
T Consensus       127 ~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~-n~l~~i~~-l~~l~~L~~L~Ls~N-~i~~l~~  195 (210)
T d1h6ta2         127 INGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLED-NQISDIVP-LAGLTKLQNLYLSKN-HISDLRA  195 (210)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCS-SCCCCCGG-GTTCTTCCEEECCSS-CCCBCGG
T ss_pred             cccccccccccccccccccccccc-ccccccccccccccc-cccccccc-ccCCCCCCEEECCCC-CCCCChh
Confidence            345777888888888888877654 478899999999999 47888875 899999999999999 7777764

>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=98.06  E-value=6.4e-06  Score=69.00  Aligned_cols=71  Identities=28%  Similarity=0.318  Sum_probs=59.9

Q ss_pred             CccccCCCCccEEecCCCCCccCchhh-hccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSPESV-CKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp~~~-~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +..+..+.++++|++++|.+..+|+.+ ..+++|+.+++++ +++..+|.+ ++.+++|++|++++| .++++|.
T Consensus       117 ~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~-N~l~~~~~~~~~~l~~L~~L~Ls~N-~L~~lp~  189 (266)
T d1p9ag_         117 LGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLAN-NNLTELPAGLLNGLENLDTLLLQEN-SLYTIPK  189 (266)
T ss_dssp             SSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTT-SCCSCCCTTTTTTCTTCCEEECCSS-CCCCCCT
T ss_pred             ccccccccccccccccccccceeccccccccccchhccccc-ccccccCccccccccccceeecccC-CCcccCh
Confidence            455677889999999999998887654 6789999999998 678888764 788999999999999 7889985

>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=98.05  E-value=2.4e-06  Score=73.05  Aligned_cols=70  Identities=21%  Similarity=0.296  Sum_probs=50.7

Q ss_pred             CCccccCCCCccEEecCCCCCccCch-hhhccCCCCEeeccCCCccchh-HHHhcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVETSPE-SVCKLHNLETLKLQNCNRLQKL-FADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~lp~-~~~~l~~L~~L~l~~c~~l~~l-p~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +|..+.  .++++|++++|.++++|+ ++..+++|++|++++| .+..+ |..+.++++|++|++++| .++.+|.
T Consensus        25 lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n-~~~~i~~~~f~~l~~L~~L~l~~n-~l~~l~~   96 (305)
T d1xkua_          25 VPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSKN-QLKELPE   96 (305)
T ss_dssp             CCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS-CCCCBCTTTTTTCTTCCEEECCSS-CCSBCCS
T ss_pred             cCCCCC--CCCCEEECcCCcCCCcChhHhhccccccccccccc-cccccchhhhhCCCccCEecccCC-ccCcCcc
Confidence            555553  568888888888888876 5778888888888874 44455 456778888888888887 6766664

>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=98.04  E-value=5e-06  Score=73.12  Aligned_cols=67  Identities=25%  Similarity=0.363  Sum_probs=42.7

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      ..+..+.++++|++++|.++.+++ +..+++|+.|++++| .++.+| +++++++|++|++++| .+..+|
T Consensus       301 ~~~~~~~~l~~L~ls~n~l~~l~~-l~~l~~L~~L~L~~n-~l~~l~-~l~~l~~L~~L~l~~N-~l~~l~  367 (384)
T d2omza2         301 SPISNLKNLTYLTLYFNNISDISP-VSSLTKLQRLFFANN-KVSDVS-SLANLTNINWLSAGHN-QISDLT  367 (384)
T ss_dssp             GGGGGCTTCSEEECCSSCCSCCGG-GGGCTTCCEEECCSS-CCCCCG-GGGGCTTCCEEECCSS-CCCBCG
T ss_pred             cccchhcccCeEECCCCCCCCCcc-cccCCCCCEEECCCC-CCCCCh-hHcCCCCCCEEECCCC-cCCCCh
Confidence            345566666777777776666654 666677777777764 566665 3666777777777666 455544

>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=98.02  E-value=1.8e-06  Score=74.26  Aligned_cols=68  Identities=21%  Similarity=0.188  Sum_probs=50.8

Q ss_pred             CccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~  343 (348)
                      ++.++.+.+|++|++++|+++ .+|++++++++|++|+|+++...+.+|. +++|++|+.+++.+|+.+.
T Consensus       237 ~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~-~~~L~~L~~l~l~~N~~l~  305 (313)
T d1ogqa_         237 LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDVSAYANNKCLC  305 (313)
T ss_dssp             GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCC-STTGGGSCGGGTCSSSEEE
T ss_pred             ccccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccccCCC-cccCCCCCHHHhCCCcccc
Confidence            446777788888888888877 6888888888888888888433347774 6778888888888875444

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=97.93  E-value=1.5e-07  Score=75.60  Aligned_cols=78  Identities=17%  Similarity=0.187  Sum_probs=62.5

Q ss_pred             hhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeecc
Q 043181          264 SLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNF  337 (348)
Q Consensus       264 ~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~  337 (348)
                      +.+++.|.+      .++ .++.+++|++|++++|.++++|.....+++|+.|++++ +.+..++. +.++++|++|+++
T Consensus        47 L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~-N~i~~l~~-~~~l~~L~~L~L~  123 (198)
T d1m9la_          47 LKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISY-NQIASLSG-IEKLVNLRVLYMS  123 (198)
T ss_dssp             TTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSE-EECCCHHH-HHHHHHSSEEEES
T ss_pred             ccccceeECcccCCCCcc-cccCCccccChhhccccccccccccccccccccccccc-cccccccc-ccccccccccccc
Confidence            445555554      443 58889999999999999999987777778899999998 58888875 8899999999999


Q ss_pred             CCCCCCCC
Q 043181          338 VTFSLESL  345 (348)
Q Consensus       338 ~~~~l~~l  345 (348)
                      +| .+..+
T Consensus       124 ~N-~i~~~  130 (198)
T d1m9la_         124 NN-KITNW  130 (198)
T ss_dssp             EE-ECCCH
T ss_pred             cc-hhccc
Confidence            88 55443

>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=97.92  E-value=1.1e-05  Score=65.80  Aligned_cols=60  Identities=20%  Similarity=0.289  Sum_probs=54.3

Q ss_pred             ccccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccC
Q 043181          276 SEIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFV  338 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~  338 (348)
                      ..++++++|+.|++++|.++.+|+ ++.+++|+.|++++| ++..+|+ ++++++|+.|++++
T Consensus       167 ~~l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L~~L~Ls~N-~lt~i~~-l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         167 TPLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNN-QISDVSP-LANTSNLFIVTLTN  226 (227)
T ss_dssp             GGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECTTS-CCCBCGG-GTTCTTCCEEEEEE
T ss_pred             hhhcccccceecccCCCccCCChh-hcCCCCCCEEECcCC-cCCCCcc-cccCCCCCEEEeeC
Confidence            458899999999999999999876 899999999999995 7999986 89999999999874

>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=97.91  E-value=1.5e-05  Score=63.48  Aligned_cols=110  Identities=16%  Similarity=0.223  Sum_probs=76.7

Q ss_pred             cccccccCccccceeeeccCcccccccccchhHHHHhhhhccccee-----eCCccccCCCCccEEecCCCCCccCchhh
Q 043181          227 KRFEAIDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY-----ELPSEIGDLKILRYLNFSDAQVETSPESV  301 (348)
Q Consensus       227 ~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-----~~p~~~~~l~~L~~l~l~~~~~~~lp~~~  301 (348)
                      ..++.+..+++|+++...++...    ....   ...+++++.+.+     .-.+.++.+++|++|+++++.+..++. +
T Consensus        53 ~~l~~l~~l~nL~~L~Ls~N~l~----~~~~---l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~~~~~~~~~-~  124 (199)
T d2omxa2          53 KSIDGVEYLNNLTQINFSNNQLT----DITP---LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDP-L  124 (199)
T ss_dssp             CCCTTGGGCTTCCEEECCSSCCC----CCGG---GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGG-G
T ss_pred             CCccccccCCCcCcCcccccccc----Cccc---ccCCcccccccccccccccccccccccccccccccccccccccc-c
Confidence            44555667788888877665431    1111   112345555554     222357889999999999988877654 8


Q ss_pred             hccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCC
Q 043181          302 CKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       302 ~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      ..+++|+.|++++ +.+..+| .+..+++|+.|++.+| .+..+|+
T Consensus       125 ~~l~~L~~L~l~~-n~l~~~~-~l~~~~~L~~L~l~~n-~l~~l~~  167 (199)
T d2omxa2         125 KNLTNLNRLELSS-NTISDIS-ALSGLTSLQQLNFSSN-QVTDLKP  167 (199)
T ss_dssp             TTCTTCSEEECCS-SCCCCCG-GGTTCTTCSEEECCSS-CCCCCGG
T ss_pred             chhhhhHHhhhhh-hhhcccc-cccccccccccccccc-cccCCcc
Confidence            8899999999998 4677777 4888999999999998 6666653

>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=97.89  E-value=1.1e-05  Score=70.86  Aligned_cols=60  Identities=23%  Similarity=0.347  Sum_probs=54.8

Q ss_pred             cccCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCC
Q 043181          277 EIGDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       277 ~~~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      .+..+++|+.|++++|.++.+| .++.+++|++|++++ +++..+|+ ++++++|+.|++++|
T Consensus       324 ~l~~l~~L~~L~L~~n~l~~l~-~l~~l~~L~~L~l~~-N~l~~l~~-l~~l~~L~~L~L~~N  383 (384)
T d2omza2         324 PVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGH-NQISDLTP-LANLTRITQLGLNDQ  383 (384)
T ss_dssp             GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCS-SCCCBCGG-GTTCTTCSEEECCCE
T ss_pred             ccccCCCCCEEECCCCCCCCCh-hHcCCCCCCEEECCC-CcCCCChh-hccCCCCCEeeCCCC
Confidence            4789999999999999999887 599999999999998 58889986 899999999999987

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=97.83  E-value=6e-07  Score=72.02  Aligned_cols=100  Identities=17%  Similarity=0.138  Sum_probs=73.4

Q ss_pred             ccCccccceeeeccCcccccccccchhHHHHhhhhccccee------eCCccccCCCCccEEecCCCCCccCchhhhccC
Q 043181          232 IDGVKHLRTSLPISSRVVWDYSHLNRNVLFDLSLKLQCFRY------ELPSEIGDLKILRYLNFSDAQVETSPESVCKLH  305 (348)
Q Consensus       232 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~------~~p~~~~~l~~L~~l~l~~~~~~~lp~~~~~l~  305 (348)
                      +..+++|+.+....+...    .+.  .+ ..+.+++.|.+      .+|.....+++|++|++++|.++.++. +..++
T Consensus        44 l~~L~~L~~L~Ls~n~I~----~i~--~l-~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~~-~~~l~  115 (198)
T d1m9la_          44 LSTLKACKHLALSTNNIE----KIS--SL-SGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSG-IEKLV  115 (198)
T ss_dssp             HHHTTTCCEEECSEEEES----CCC--CH-HHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHHH-HHHHH
T ss_pred             HhcccccceeECcccCCC----Ccc--cc-cCCccccChhhccccccccccccccccccccccccccccccccc-ccccc
Confidence            455777777766554431    111  12 23556666666      456555566789999999999998854 89999


Q ss_pred             CCCEeeccCCCccchhHH--HhcccccCcEeeccCCC
Q 043181          306 NLETLKLQNCNRLQKLFA--DIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       306 ~L~~L~l~~c~~l~~lp~--~i~~l~~L~~L~l~~~~  340 (348)
                      +|++|++++ +.+..++.  .+..+++|+.|++++|+
T Consensus       116 ~L~~L~L~~-N~i~~~~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         116 NLRVLYMSN-NKITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HSSEEEESE-EECCCHHHHHHHTTTTTCSEEEECSSH
T ss_pred             ccccccccc-chhccccccccccCCCccceeecCCCc
Confidence            999999998 67888774  68899999999999984

>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=97.78  E-value=1.5e-05  Score=67.23  Aligned_cols=64  Identities=25%  Similarity=0.217  Sum_probs=40.0

Q ss_pred             CccccCCCCccEEecCCCCCccC-chhhhccCCCCEeeccCCCccchhH-HHhcccccCcEeeccCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETS-PESVCKLHNLETLKLQNCNRLQKLF-ADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~l-p~~~~~l~~L~~L~l~~c~~l~~lp-~~i~~l~~L~~L~l~~~  339 (348)
                      +..+..+++|+++++++|.+..+ |..+..+++|+.|++++ +.+..+| ..++.+++|++|++++|
T Consensus       170 ~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~-N~i~~~~~~~~~~~~~L~~L~l~~N  235 (284)
T d1ozna_         170 ERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFA-NNLSALPTEALAPLRALQYLRLNDN  235 (284)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS-SCCSCCCHHHHTTCTTCCEEECCSS
T ss_pred             hhhhccccccchhhhhhccccccChhHhhhhhhcccccccc-cccccccccccccccccCEEEecCC
Confidence            34556666677777776666543 55666667777777766 3444444 34566667777777665

>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=97.57  E-value=4e-05  Score=66.13  Aligned_cols=62  Identities=23%  Similarity=0.163  Sum_probs=52.4

Q ss_pred             cCCCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCCCC
Q 043181          279 GDLKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLESL  348 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp~~  348 (348)
                      ..+++|++|++++|.++++|..   +++|+.|++++ +.++++|..   +++|++|++++| .++++|.+
T Consensus       281 ~~~~~L~~L~Ls~N~l~~lp~~---~~~L~~L~L~~-N~L~~l~~~---~~~L~~L~L~~N-~L~~lp~~  342 (353)
T d1jl5a_         281 DLPPSLEELNVSNNKLIELPAL---PPRLERLIASF-NHLAEVPEL---PQNLKQLHVEYN-PLREFPDI  342 (353)
T ss_dssp             CCCTTCCEEECCSSCCSCCCCC---CTTCCEEECCS-SCCSCCCCC---CTTCCEEECCSS-CCSSCCCC
T ss_pred             ccCCCCCEEECCCCccCccccc---cCCCCEEECCC-CcCCccccc---cCCCCEEECcCC-cCCCCCcc
Confidence            4467899999999999999964   57899999998 578999863   568999999999 69999863

>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=97.48  E-value=9.3e-05  Score=62.18  Aligned_cols=71  Identities=23%  Similarity=0.273  Sum_probs=57.9

Q ss_pred             CccccCCCCccEEecCCCCCccCc-hhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVETSP-ESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~lp-~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +..+..+.+|+.|++++|.++.+| ..+..+++|+.+++.++....-.|..+.++++|++|++++| .+..+|
T Consensus       146 ~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N-~i~~~~  217 (284)
T d1ozna_         146 DDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALP  217 (284)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS-CCSCCC
T ss_pred             hhHhccccchhhcccccCcccccchhhhccccccchhhhhhccccccChhHhhhhhhccccccccc-cccccc
Confidence            456788899999999999998875 45688999999999985444444778999999999999998 666665

>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=97.20  E-value=0.00016  Score=60.77  Aligned_cols=64  Identities=14%  Similarity=0.187  Sum_probs=36.7

Q ss_pred             ccccCCCCccEEecCCC-CCcc--CchhhhccCCCCEeeccCCCccc--hhHHHhccc-ccCcEeeccCC
Q 043181          276 SEIGDLKILRYLNFSDA-QVET--SPESVCKLHNLETLKLQNCNRLQ--KLFADIGNL-NNLHHLDNFVT  339 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~-~~~~--lp~~~~~l~~L~~L~l~~c~~l~--~lp~~i~~l-~~L~~L~l~~~  339 (348)
                      ..+.++++|++|+++++ .++.  +..-...+++|+.|++++|..+.  .++..+..+ ++|+.|++++|
T Consensus        89 ~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~  158 (284)
T d2astb2          89 NTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGY  158 (284)
T ss_dssp             HHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSC
T ss_pred             HHHhcCCCCcCccccccccccccccchhhHHHHhccccccccccccccccchhhhcccccccchhhhccc
Confidence            44566677777777764 3542  23323456777777777766553  233333333 46777777665

>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=97.20  E-value=0.00021  Score=61.39  Aligned_cols=60  Identities=27%  Similarity=0.252  Sum_probs=43.5

Q ss_pred             CCCccEEecCCCCCccCchhhhccCCCCEeeccCCCccchhHHHhcccccCcEeeccCCCCCCCCC
Q 043181          281 LKILRYLNFSDAQVETSPESVCKLHNLETLKLQNCNRLQKLFADIGNLNNLHHLDNFVTFSLESLE  346 (348)
Q Consensus       281 l~~L~~l~l~~~~~~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~i~~l~~L~~L~l~~~~~l~~lp  346 (348)
                      +.+|+.|++++|+++.++.-   .+.|++|++++ +.+..+|. ++++++|++|++++| .+...|
T Consensus        77 ~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~~-n~l~~lp~-~~~l~~L~~L~l~~~-~~~~~~  136 (353)
T d1jl5a_          77 PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSN-NQLEKLPE-LQNSSFLKIIDVDNN-SLKKLP  136 (353)
T ss_dssp             CTTCCEEECCSSCCSCCCSC---CTTCCEEECCS-SCCSSCCC-CTTCTTCCEEECCSS-CCSCCC
T ss_pred             hhhhhhhhhhhcccchhhhh---ccccccccccc-cccccccc-hhhhccceeeccccc-cccccc
Confidence            34677777777777766531   24688899987 57888885 788889999999887 455444

>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=97.11  E-value=0.00018  Score=58.71  Aligned_cols=73  Identities=19%  Similarity=0.257  Sum_probs=53.2

Q ss_pred             CCc-cccCCCCccEEecCCCCCcc-Cc-hhhhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCC
Q 043181          274 LPS-EIGDLKILRYLNFSDAQVET-SP-ESVCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       274 ~p~-~~~~l~~L~~l~l~~~~~~~-lp-~~~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      +|. .+.++++|++|++++|.+.. +| ..+..+++++.+.+..|+.+..++.. +.++++|+++++++| .+...|.
T Consensus        44 l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~-~l~~~~~  120 (242)
T d1xwdc1          44 IQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLPD  120 (242)
T ss_dssp             ECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESC-CCCSCCC
T ss_pred             cChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccccchh-hhccccc
Confidence            443 56788888999998888765 33 34677888888888777777666654 678888999988887 5655543

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.10  E-value=0.00013  Score=60.67  Aligned_cols=49  Identities=12%  Similarity=0.151  Sum_probs=34.7

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCchhHHHHHhhhcCC
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPLASEILGGLLHGK  119 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPLal~~ig~~L~~~  119 (348)
                      +++.+++.+++.+..-.... ...     ...+|.+.++|.|..+..+|..+...
T Consensus       207 ~l~~~e~~~~l~~~~~~~~~-~~~-----~~~~i~~~~~G~P~~L~~~~~~~~~~  255 (283)
T d2fnaa2         207 PFSREEAIEFLRRGFQEADI-DFK-----DYEVVYEKIGGIPGWLTYFGFIYLDN  255 (283)
T ss_dssp             CCCHHHHHHHHHHHHHHHTC-CCC-----CHHHHHHHHCSCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhhhhhcCC-CHH-----HHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            78899999988775422111 111     15689999999999999988766544

>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=96.92  E-value=0.00024  Score=54.24  Aligned_cols=61  Identities=25%  Similarity=0.095  Sum_probs=41.3

Q ss_pred             cCCCCccEEecCCCCCccCc---hhhhccCCCCEeeccCCCccchhHH-HhcccccCcEeeccCCC
Q 043181          279 GDLKILRYLNFSDAQVETSP---ESVCKLHNLETLKLQNCNRLQKLFA-DIGNLNNLHHLDNFVTF  340 (348)
Q Consensus       279 ~~l~~L~~l~l~~~~~~~lp---~~~~~l~~L~~L~l~~c~~l~~lp~-~i~~l~~L~~L~l~~~~  340 (348)
                      ..+++|++|++++|.++.++   ..+..+++|+.|++++ +.+..+++ ......+|+.|++++|+
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~-N~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSG-NELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTT-SCCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCccccccccc-CccccchhhhhhhccccceeecCCCC
Confidence            45677888888888877653   3456778888888887 67777765 11223457778887774

>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=96.88  E-value=0.00049  Score=57.65  Aligned_cols=68  Identities=18%  Similarity=0.273  Sum_probs=55.0

Q ss_pred             CccccCCCCccEEecCCCCCc-cCchhhhccCCCCEeeccCCCccch--hHHHhcccccCcEeeccCCCCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVE-TSPESVCKLHNLETLKLQNCNRLQK--LFADIGNLNNLHHLDNFVTFSL  342 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~-~lp~~~~~l~~L~~L~l~~c~~l~~--lp~~i~~l~~L~~L~l~~~~~l  342 (348)
                      +..+.++++|++|+++++.++ ..+..++++++|+.|++++|+.++.  +..-..++++|++|++++|..+
T Consensus        64 ~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~  134 (284)
T d2astb2          64 HGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDF  134 (284)
T ss_dssp             HHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTC
T ss_pred             HHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhcccccccccccc
Confidence            344678899999999999876 4677888999999999999988864  4443567899999999998654

>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=96.84  E-value=0.00049  Score=55.92  Aligned_cols=72  Identities=19%  Similarity=0.231  Sum_probs=45.7

Q ss_pred             eCCccccCCCCccEE-ecCCCCCccCchh-hhccCCCCEeeccCCCccchhHHH-hcccccCcEeeccCCCCCCCCCCC
Q 043181          273 ELPSEIGDLKILRYL-NFSDAQVETSPES-VCKLHNLETLKLQNCNRLQKLFAD-IGNLNNLHHLDNFVTFSLESLESL  348 (348)
Q Consensus       273 ~~p~~~~~l~~L~~l-~l~~~~~~~lp~~-~~~l~~L~~L~l~~c~~l~~lp~~-i~~l~~L~~L~l~~~~~l~~lp~~  348 (348)
                      .++.......++..+ .+.+|.++++|+. +..+++|+.|++++ +++..+|.. +.++++|+.+++   .+++++|++
T Consensus       167 ~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~-N~l~~l~~~~~~~l~~L~~l~~---~~l~~lp~~  241 (242)
T d1xwdc1         167 EIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR-TRIHSLPSYGLENLKKLRARST---YNLKKLPTL  241 (242)
T ss_dssp             EECTTTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTT-SCCCCCCSSSCTTCCEEESSSE---ESSSCSCCC
T ss_pred             ccccccccchhhhccccccccccccccHHHhcCCCCCCEEECCC-CcCCccCHHHHcCCcccccCcC---CCCCcCCCC
Confidence            344444445555444 4566778888764 57788888888888 568888763 444444444443   467778764

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.41  E-value=0.00041  Score=52.93  Aligned_cols=50  Identities=28%  Similarity=0.209  Sum_probs=38.9

Q ss_pred             cCchhhhccCCCCEeeccCCCccchh---HHHhcccccCcEeeccCCCCCCCCCC
Q 043181          296 TSPESVCKLHNLETLKLQNCNRLQKL---FADIGNLNNLHHLDNFVTFSLESLES  347 (348)
Q Consensus       296 ~lp~~~~~l~~L~~L~l~~c~~l~~l---p~~i~~l~~L~~L~l~~~~~l~~lp~  347 (348)
                      .++.....+++|++|+|++ +.+..+   +..+..+++|+.|++++| .++.++.
T Consensus        56 ~l~~~~~~~~~L~~L~Ls~-N~i~~l~~~~~~~~~l~~L~~L~Ls~N-~i~~l~~  108 (162)
T d1koha1          56 TLRIIEENIPELLSLNLSN-NRLYRLDDMSSIVQKAPNLKILNLSGN-ELKSERE  108 (162)
T ss_dssp             HHHHHHHHCTTCCCCCCCS-SCCCCCSGGGTHHHHSTTCCCCCCTTS-CCCCGGG
T ss_pred             hhHHHHHhCCCCCEeeCCC-ccccCCchhHHHHhhCCcccccccccC-ccccchh
Confidence            3444446799999999999 567665   455778999999999999 7777654

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.40  E-value=0.0058  Score=53.77  Aligned_cols=64  Identities=22%  Similarity=0.248  Sum_probs=47.1

Q ss_pred             CccccCCCCccEEecCCCCCcc-----Cchhhhc-cCCCCEeeccCCCccc-----hhHHHhcccccCcEeeccCC
Q 043181          275 PSEIGDLKILRYLNFSDAQVET-----SPESVCK-LHNLETLKLQNCNRLQ-----KLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       275 p~~~~~l~~L~~l~l~~~~~~~-----lp~~~~~-l~~L~~L~l~~c~~l~-----~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ...+..+++|+.|+|++|.++.     +...+.. ..+|+.|++++|. ++     .++..+..+++|++|++++|
T Consensus        48 ~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-it~~~~~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          48 SSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCC-LTGAGCGVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             HHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSC-CBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             HHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCCC-ccccccccccchhhccccccccccccc
Confidence            3445778899999999998752     2222222 3579999999964 53     36677888899999999988

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=95.06  E-value=0.0031  Score=47.23  Aligned_cols=15  Identities=33%  Similarity=0.512  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|+||||+|+.+.+
T Consensus        10 ~~GsGKSTvak~La~   24 (169)
T d1kaga_          10 PMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            589999999999998

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=94.96  E-value=0.0035  Score=47.77  Aligned_cols=23  Identities=17%  Similarity=0.278  Sum_probs=18.6

Q ss_pred             CchHHHHHHHHHHHHHhCCccce
Q 043181          180 EKPVEQLGHQYSGELQSRSHFRQ  202 (348)
Q Consensus       180 ~~~~~~~~~~~l~~L~~~sll~~  202 (348)
                      ..+.++.+...+..|-++|++..
T Consensus       160 ~~s~~e~v~~I~~~L~~~g~~~~  182 (183)
T d1m8pa3         160 KQSVRSIVHEIILVLESQGFLER  182 (183)
T ss_dssp             TSCHHHHHHHHHHHHHHTTTTCC
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCC
Confidence            35678888999999999998863

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.55  E-value=0.0056  Score=46.31  Aligned_cols=15  Identities=33%  Similarity=0.634  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |+|+||||+|+.+++
T Consensus         9 ~~G~GKSTig~~La~   23 (165)
T d2iyva1           9 LPGSGKSTIGRRLAK   23 (165)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            689999999999998

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=94.42  E-value=0.039  Score=44.69  Aligned_cols=49  Identities=18%  Similarity=0.156  Sum_probs=34.7

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCe-eEEEEcCCCCCHHHHHHHHHHhcccc
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHL-ETWVYLFEDFDVFRITKTMLQSISTE   51 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~l~~~il~~l~~~   51 (348)
                      ..|+||||+|+.+++  .+.+.+.. .+++..............+.......
T Consensus        51 ppGtGKT~l~~~l~~--~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (276)
T d1fnna2          51 RPGTGKTVTLRKLWE--LYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIP  100 (276)
T ss_dssp             CTTSSHHHHHHHHHH--HHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCC
T ss_pred             CCCCCHHHHHHHHHH--HHhcccCCcEEEecchhhhhhhhhhhhhHHhhhhh
Confidence            369999999999999  55444433 45666666667777777777766544

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.19  E-value=0.061  Score=42.67  Aligned_cols=15  Identities=33%  Similarity=0.426  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|+||||+|+.+++.
T Consensus        42 ~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          42 PGTGKTSTILALTKE   56 (237)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHH
Confidence            699999999999983

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.11  E-value=0.053  Score=42.82  Aligned_cols=38  Identities=5%  Similarity=-0.028  Sum_probs=23.8

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCc
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLP  106 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlP  106 (348)
                      +++.++....+.+.+...+-. .+   .+....|++.|+|-.
T Consensus       157 ~~~~~~i~~~l~~I~~~e~i~-i~---~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         157 PLPQEAIERRIANVLVHEKLK-LS---PNAEKALIELSNGDM  194 (227)
T ss_dssp             CCCHHHHHHHHHHHHHTTTCC-BC---HHHHHHHHHHHTTCH
T ss_pred             ccccccccccccccccccccc-CC---HHHHHHHHHHcCCcH
Confidence            778888888777766443321 22   245677888887753

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.02  E-value=0.0073  Score=46.68  Aligned_cols=27  Identities=22%  Similarity=0.099  Sum_probs=19.7

Q ss_pred             CCCCcHHHHHHHHhcchhhhcCCCeeEEE
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNRFHLETWV   29 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~F~~~~wv   29 (348)
                      ++|.||||+|+++..  +....+....++
T Consensus        27 ~pGSGKTTiAk~La~--~l~~~~~~~~~~   53 (195)
T d1x6va3          27 LSGAGKTTVSMALEE--YLVCHGIPCYTL   53 (195)
T ss_dssp             SCHHHHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             CCCCCHHHHHHHHHH--HHHhcCCCccch
Confidence            579999999999998  555555444444

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=93.85  E-value=0.0085  Score=45.72  Aligned_cols=15  Identities=27%  Similarity=0.297  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ..|+||||||+++.+
T Consensus        15 ~~GsGKTTla~~La~   29 (192)
T d1lw7a2          15 GESSGKSVLVNKLAA   29 (192)
T ss_dssp             CTTSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999988

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=93.84  E-value=0.0096  Score=44.87  Aligned_cols=15  Identities=53%  Similarity=0.693  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|+||||+|+.+.+
T Consensus        12 ~pGsGKTTia~~La~   26 (173)
T d1rkba_          12 TPGVGKTTLGKELAS   26 (173)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999987

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=93.74  E-value=0.084  Score=41.92  Aligned_cols=14  Identities=50%  Similarity=0.861  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+||||+|+.+.+
T Consensus        44 pGtGKT~lA~~la~   57 (238)
T d1in4a2          44 PGLGKTTLAHIIAS   57 (238)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHh
Confidence            69999999999998

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.69  E-value=0.037  Score=43.76  Aligned_cols=39  Identities=23%  Similarity=0.070  Sum_probs=24.5

Q ss_pred             CCChHHHHHHHHHhhcCCCCCCcChhHHHHHHHHHHHcCCCch
Q 043181           65 KWSDDDCLCVFTQRSSRRTDFNMHMHLKEIGEKIVKKCNGLPL  107 (348)
Q Consensus        65 ~l~~~~a~~Lf~~~a~~~~~~~~~~~~~~~~~~i~~~c~GlPL  107 (348)
                      +++.++-...+.+.+...+-. .+   .+....|++.|+|-+-
T Consensus       159 ~~~~~~i~~~l~~i~~~e~~~-i~---~~~l~~I~~~s~Gd~R  197 (224)
T d1sxjb2         159 KLSDEDVLKRLLQIIKLEDVK-YT---NDGLEAIIFTAEGDMR  197 (224)
T ss_dssp             CCCHHHHHHHHHHHHHHHTCC-BC---HHHHHHHHHHHTTCHH
T ss_pred             ccchhhhHHHHHHHHHhcccC-CC---HHHHHHHHHHcCCcHH
Confidence            778888877777766432211 22   2456788888887653

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=93.65  E-value=0.0099  Score=44.72  Aligned_cols=15  Identities=47%  Similarity=0.656  Sum_probs=14.3

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |+|+||||+|+.++.
T Consensus         8 ~~GsGKsTi~k~La~   22 (161)
T d1viaa_           8 FMGSGKSTLARALAK   22 (161)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            689999999999998

>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=93.51  E-value=0.013  Score=51.32  Aligned_cols=63  Identities=13%  Similarity=0.153  Sum_probs=45.7

Q ss_pred             ccCCCCccEEecCCCCCc-----cCchhhhccCCCCEeeccCCCccch-----hHHHhcc-cccCcEeeccCCCCC
Q 043181          278 IGDLKILRYLNFSDAQVE-----TSPESVCKLHNLETLKLQNCNRLQK-----LFADIGN-LNNLHHLDNFVTFSL  342 (348)
Q Consensus       278 ~~~l~~L~~l~l~~~~~~-----~lp~~~~~l~~L~~L~l~~c~~l~~-----lp~~i~~-l~~L~~L~l~~~~~l  342 (348)
                      ++.+.+++.|+|++|.++     .++..+..+++|+.|+|++| .++.     +...+.. ..+|++|++++| .+
T Consensus        23 ~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~~~~~~l~~~l~~~~~~L~~L~L~~n-~i   96 (460)
T d1z7xw1          23 LPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCVLQGLQTPSCKIQKLSLQNC-CL   96 (460)
T ss_dssp             HHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHHHHTTCSTTCCCCEEECTTS-CC
T ss_pred             HHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCC-cCChHHHHHHHHHHhcCCCCCCEEECCCC-Cc
Confidence            455778899999999876     35666788899999999984 5543     3333322 247999999998 44

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=93.31  E-value=0.013  Score=43.96  Aligned_cols=15  Identities=40%  Similarity=0.547  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|+||||+|+++..
T Consensus        10 ~~GsGKTTva~~L~~   24 (176)
T d2bdta1          10 PAGVGKSTTCKRLAA   24 (176)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999986

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.31  E-value=0.014  Score=43.03  Aligned_cols=15  Identities=33%  Similarity=0.399  Sum_probs=12.9

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+++..
T Consensus        10 ~pGsGKTTla~~L~~   24 (152)
T d1ly1a_          10 CPGSGKSTWAREFIA   24 (152)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999998865

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=93.15  E-value=0.015  Score=44.02  Aligned_cols=15  Identities=33%  Similarity=0.465  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      |+|+||||+|+.+++
T Consensus        10 ~~GsGKSTia~~LA~   24 (170)
T d1e6ca_          10 ARGCGMTTVGRELAR   24 (170)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999998

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=92.83  E-value=0.017  Score=43.46  Aligned_cols=15  Identities=33%  Similarity=0.687  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|+||||+|+.+.+
T Consensus        13 ~~GsGKTT~~~~La~   27 (174)
T d1y63a_          13 TPGTGKTSMAEMIAA   27 (174)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999988

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.81  E-value=0.031  Score=42.22  Aligned_cols=16  Identities=44%  Similarity=0.432  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .+|+|||||++++...
T Consensus         9 ~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           9 PPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCSSCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHH
Confidence            3799999999999984

>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=92.80  E-value=0.049  Score=46.05  Aligned_cols=63  Identities=17%  Similarity=0.218  Sum_probs=45.7

Q ss_pred             ccccCCCCccEEecCCCCCc-----cCchhhhccCCCCEeeccCCCccch-----hHHHhcc--cccCcEeeccCC
Q 043181          276 SEIGDLKILRYLNFSDAQVE-----TSPESVCKLHNLETLKLQNCNRLQK-----LFADIGN--LNNLHHLDNFVT  339 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~-----~lp~~~~~l~~L~~L~l~~c~~l~~-----lp~~i~~--l~~L~~L~l~~~  339 (348)
                      ..+...++|+.|++++|.+.     .+...+...++|+.|++++|. +..     +-..+..  .++|++|++++|
T Consensus       209 ~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~-i~~~g~~~l~~~l~~~~~~~L~~L~ls~N  283 (344)
T d2ca6a1         209 EGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYN  283 (344)
T ss_dssp             TTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSS
T ss_pred             hhhcchhhhcccccccccccccccccccccccccccchhhhhhcCc-cCchhhHHHHHHhhhccCCCCCEEECCCC
Confidence            34667888999999999875     356667788999999999964 433     2223333  256999999988

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=92.49  E-value=0.034  Score=44.11  Aligned_cols=29  Identities=34%  Similarity=0.209  Sum_probs=21.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..++.  ..+..=..++.|+..
T Consensus        11 GGvGKTtia~nlA~--~la~~g~~VlliD~D   39 (232)
T d1hyqa_          11 GGTGKTTITANLGV--ALAQLGHDVTIVDAD   39 (232)
T ss_dssp             SCSCHHHHHHHHHH--HHHHTTCCEEEEECC
T ss_pred             CCChHHHHHHHHHH--HHHhCCCCEEEEeCC
Confidence            89999999999998  444443457777654

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=92.16  E-value=0.053  Score=44.65  Aligned_cols=33  Identities=21%  Similarity=0.201  Sum_probs=21.2

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFD   36 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~   36 (348)
                      |||||||+|..+.....-+++  .++.|+.....+
T Consensus        17 GGVGKTTvaa~lA~~lA~~G~--rVLlvD~Dp~~~   49 (296)
T d1ihua1          17 GGVGKTSISCATAIRLAEQGK--RVLLVSTDPASN   49 (296)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTC--CEEEEECCTTCC
T ss_pred             CcChHHHHHHHHHHHHHHCCC--CEEEEeCCCCCC
Confidence            899999999998884333332  455665543333

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=92.08  E-value=0.024  Score=45.39  Aligned_cols=16  Identities=44%  Similarity=0.708  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ..|+||||+|+.+++.
T Consensus        43 PpG~GKTtla~~la~~   58 (239)
T d1ixsb2          43 PPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CTTSCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3699999999999983

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=92.07  E-value=0.028  Score=42.01  Aligned_cols=14  Identities=50%  Similarity=0.620  Sum_probs=13.3

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|.|||||++++.+
T Consensus        11 ~GSGKTTL~~~L~~   24 (170)
T d1np6a_          11 SGTGKTTLLKKLIP   24 (170)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999998

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.69  E-value=0.029  Score=43.69  Aligned_cols=15  Identities=27%  Similarity=0.383  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|+||||+|+++++
T Consensus        10 lpgsGKSTla~~L~~   24 (213)
T d1bifa1          10 LPARGKTYISKKLTR   24 (213)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            379999999999998

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=91.52  E-value=0.036  Score=41.65  Aligned_cols=15  Identities=47%  Similarity=0.678  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+++.+
T Consensus        12 ~~GsGKSTia~~La~   26 (176)
T d1zp6a1          12 HPGSGKSTIAEALAN   26 (176)
T ss_dssp             CTTSCHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>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=91.47  E-value=0.13  Score=38.42  Aligned_cols=58  Identities=10%  Similarity=0.078  Sum_probs=25.5

Q ss_pred             CCCccEEecCCCCCc-----cCchhhhccCCCCEeeccCCCccch-----hHHHhcccccCcEeeccCC
Q 043181          281 LKILRYLNFSDAQVE-----TSPESVCKLHNLETLKLQNCNRLQK-----LFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       281 l~~L~~l~l~~~~~~-----~lp~~~~~l~~L~~L~l~~c~~l~~-----lp~~i~~l~~L~~L~l~~~  339 (348)
                      ..+|+.|++++|.+.     .+...+...+.|+.|++++| .+..     +-..+..-++|++|++++|
T Consensus        43 n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n-~i~~~g~~~l~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          43 SKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN-FLTPELLARLLRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             CSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             CCccceeeccccccchhHHHHHhhhhhhcccccceeeehh-hcchHHHHHHHHHHHhCCcCCEEECCCC
Confidence            344555555555443     12233333455555555553 2221     2223334444555555544

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=91.41  E-value=0.052  Score=43.02  Aligned_cols=29  Identities=31%  Similarity=0.169  Sum_probs=21.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      ||+||||+|..+..  ..+..-..++.++..
T Consensus        12 GGvGKTtia~nLA~--~la~~g~~VlliD~D   40 (237)
T d1g3qa_          12 GGTGKTTVTANLSV--ALGDRGRKVLAVDGD   40 (237)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTCCEEEEECC
T ss_pred             CCCcHHHHHHHHHH--HHHhCCCCEEEEeCC
Confidence            89999999999988  444443456666653

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=91.30  E-value=0.034  Score=41.71  Aligned_cols=15  Identities=20%  Similarity=0.290  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|.||||+|+++.+
T Consensus        11 ~~GsGKsTva~~L~~   25 (178)
T d1qhxa_          11 GSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999988

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=91.26  E-value=0.063  Score=43.85  Aligned_cols=29  Identities=28%  Similarity=0.216  Sum_probs=19.0

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      |||||||+|..+..-...++  ..++-|+..
T Consensus        29 GGVGKTT~a~nLA~~lA~~G--~rVllvD~D   57 (279)
T d1ihua2          29 GGVGKTTMAAAIAVRLADMG--FDVHLTTSD   57 (279)
T ss_dssp             TTSSHHHHHHHHHHHHHHTT--CCEEEEESC
T ss_pred             CCCCHHHHHHHHHHHHHHCC--CcEEEEeCC
Confidence            89999999888877333222  235555554

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=91.17  E-value=0.035  Score=41.53  Aligned_cols=15  Identities=27%  Similarity=0.547  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+..
T Consensus        14 ~~GsGKsT~a~~La~   28 (171)
T d1knqa_          14 VSGSGKSAVASEVAH   28 (171)
T ss_dssp             STTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=91.08  E-value=0.039  Score=44.80  Aligned_cols=20  Identities=25%  Similarity=0.426  Sum_probs=15.9

Q ss_pred             CCCCcHHHHHHHHhcchhhhcC
Q 043181            1 MGGVGKTTLAQLLCNNVKVKNR   22 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~~~~~~~   22 (348)
                      ..|+||||||+++++  .....
T Consensus        40 pPGtGKT~la~~la~--~~~~~   59 (273)
T d1gvnb_          40 QPGSGKTSLRSAIFE--ETQGN   59 (273)
T ss_dssp             CTTSCTHHHHHHHHH--HTTTC
T ss_pred             CCCCCHHHHHHHHHH--Hhhcc
Confidence            369999999999998  44433

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=90.88  E-value=0.039  Score=45.55  Aligned_cols=29  Identities=28%  Similarity=0.240  Sum_probs=18.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLF   32 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~   32 (348)
                      |||||||+|..+..-...+++  .++-|+..
T Consensus        11 GGVGKTT~a~NLA~~LA~~G~--rVLlID~D   39 (289)
T d2afhe1          11 GGIGKSTTTQNLVAALAEMGK--KVMIVGCD   39 (289)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTC--CEEEEEEC
T ss_pred             CCCCHHHHHHHHHHHHHHCCC--CEEEEecC
Confidence            899999999988773322222  35555543

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=90.67  E-value=0.1  Score=42.29  Aligned_cols=49  Identities=22%  Similarity=0.348  Sum_probs=29.3

Q ss_pred             CCCcHHHHHHHHhcchhh----hcCCCeeEEEEcCCCCCHHHHHHHHHHhccc
Q 043181            2 GGVGKTTLAQLLCNNVKV----KNRFHLETWVYLFEDFDVFRITKTMLQSIST   50 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~l~~~il~~l~~   50 (348)
                      .|+||||+|+++++...-    ...-....+++....................
T Consensus        55 pGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (287)
T d1w5sa2          55 VGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGY  107 (287)
T ss_dssp             CSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhccc
Confidence            699999999999984311    1111234566655555555555555555443

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=90.66  E-value=0.042  Score=43.10  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=17.7

Q ss_pred             CchHHHHHHHHHHHHHhCCccc
Q 043181          180 EKPVEQLGHQYSGELQSRSHFR  201 (348)
Q Consensus       180 ~~~~~~~~~~~l~~L~~~sll~  201 (348)
                      ..+.++.+...+..|..+++|.
T Consensus       185 ~~s~~e~~~~Ii~~L~~~~~i~  206 (208)
T d1m7ga_         185 ELPVQDAVKQIIDYLDTKGYLP  206 (208)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCSC
T ss_pred             CCCHHHHHHHHHHHHHHcCCCC
Confidence            3567788888899999998875

>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=90.57  E-value=0.15  Score=42.93  Aligned_cols=66  Identities=23%  Similarity=0.240  Sum_probs=48.3

Q ss_pred             CCccccCCCCccEEecCCCCCcc-----Cchhhhc--cCCCCEeeccCCCccc-----hhHHHhc-ccccCcEeeccCCC
Q 043181          274 LPSEIGDLKILRYLNFSDAQVET-----SPESVCK--LHNLETLKLQNCNRLQ-----KLFADIG-NLNNLHHLDNFVTF  340 (348)
Q Consensus       274 ~p~~~~~l~~L~~l~l~~~~~~~-----lp~~~~~--l~~L~~L~l~~c~~l~-----~lp~~i~-~l~~L~~L~l~~~~  340 (348)
                      +...+...++|++|++++|.++.     +-..+..  .+.|+.|++++| .+.     .+...+. ++++|++|++++|.
T Consensus       235 L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N-~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         235 LAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYN-EIELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             HHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSS-CCBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             ccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCC-cCChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence            34556788999999999999863     2333333  367999999985 453     3555564 67899999999983

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=90.54  E-value=0.075  Score=43.19  Aligned_cols=28  Identities=29%  Similarity=0.245  Sum_probs=18.8

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      |||||||+|..+..-  ....=..++-|+.
T Consensus        10 GGvGKTT~a~nLA~~--LA~~G~rVllID~   37 (269)
T d1cp2a_          10 GGIGKSTTTQNLTSG--LHAMGKTIMVVGC   37 (269)
T ss_dssp             TTSSHHHHHHHHHHH--HHTTTCCEEEEEE
T ss_pred             CcCCHHHHHHHHHHH--HHhCCCcEEEEec
Confidence            899999999998883  3332223445544

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=90.54  E-value=0.072  Score=40.65  Aligned_cols=26  Identities=27%  Similarity=0.208  Sum_probs=17.7

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEE
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWV   29 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv   29 (348)
                      +|.||||||+++.+  ...........+
T Consensus        31 ~GSGKSTla~~L~~--~l~~~~~~~~~~   56 (198)
T d1rz3a_          31 SRSGKTTLANQLSQ--TLREQGISVCVF   56 (198)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             CCCCHHHHHHHHHH--Hhccccccceec
Confidence            69999999999988  444333333333

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=90.44  E-value=0.087  Score=39.90  Aligned_cols=15  Identities=33%  Similarity=0.510  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+|+.+..
T Consensus         9 ~~GsGKTT~~~~La~   23 (194)
T d1nksa_           9 IPGVGKSTVLAKVKE   23 (194)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.29  E-value=0.054  Score=40.95  Aligned_cols=15  Identities=33%  Similarity=0.357  Sum_probs=13.3

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+++..
T Consensus        22 ~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          22 FPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CTTSSHHHHHHHHTG
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999876

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=90.08  E-value=0.049  Score=41.05  Aligned_cols=14  Identities=50%  Similarity=0.724  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||||++.+..
T Consensus         9 ~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           9 PGVGKTTLVKKIVE   22 (178)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHh
Confidence            69999999999998

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.53  E-value=0.047  Score=43.80  Aligned_cols=16  Identities=31%  Similarity=0.364  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      .+|+||||+|+++++.
T Consensus        41 p~G~GKTt~~~~la~~   56 (252)
T d1sxje2          41 PNGTGKKTRCMALLES   56 (252)
T ss_dssp             STTSSHHHHHHTHHHH
T ss_pred             CCCCCHHHHHHHHHHh
Confidence            3799999999999883

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=89.25  E-value=0.06  Score=39.94  Aligned_cols=15  Identities=40%  Similarity=0.638  Sum_probs=13.4

Q ss_pred             CCcHHHHHHHHhcch
Q 043181            3 GVGKTTLAQLLCNNV   17 (348)
Q Consensus         3 GiGKTtLa~~v~~~~   17 (348)
                      |.||||+++.+.+..
T Consensus        43 GaGKTtfvr~~~~~l   57 (158)
T d1htwa_          43 GAGKTTLTRGMLQGI   57 (158)
T ss_dssp             TSSHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHHhhc
Confidence            899999999999844

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=89.19  E-value=0.066  Score=40.43  Aligned_cols=15  Identities=47%  Similarity=0.612  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|+||||+++.+.+
T Consensus         9 ~~GsGKsT~~~~L~~   23 (190)
T d1khta_           9 VPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CTTSCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=88.66  E-value=0.071  Score=44.49  Aligned_cols=15  Identities=47%  Similarity=0.634  Sum_probs=13.8

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|+|||.||+++++
T Consensus        57 PpG~GKT~lAkalA~   71 (309)
T d1ofha_          57 PTGVGKTEIARRLAK   71 (309)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHhh
Confidence            369999999999998

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.31  E-value=0.075  Score=42.59  Aligned_cols=32  Identities=22%  Similarity=0.073  Sum_probs=21.4

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCCCHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDFDVF   38 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~   38 (348)
                      .|+||||+|+++++  ....   ...+++.+...+..
T Consensus        61 pG~GKTt~a~~la~--~~~~---~~~~~~~~~~~~~~   92 (253)
T d1sxja2          61 PGIGKTTAAHLVAQ--ELGY---DILEQNASDVRSKT   92 (253)
T ss_dssp             TTSSHHHHHHHHHH--HTTC---EEEEECTTSCCCHH
T ss_pred             CCCCHHHHHHHHHH--HHHh---hhhccccccchhhH
Confidence            69999999999998  3321   24456555544433

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=88.26  E-value=0.077  Score=42.69  Aligned_cols=14  Identities=36%  Similarity=0.411  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||++|+++++
T Consensus        49 pGtGKT~la~alA~   62 (246)
T d1d2na_          49 PHSGKTALAAKIAE   62 (246)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhh
Confidence            69999999999998

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=87.98  E-value=0.082  Score=41.81  Aligned_cols=14  Identities=57%  Similarity=0.629  Sum_probs=13.2

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+||||+|+.+.+
T Consensus        54 ~G~GKTtla~~iak   67 (231)
T d1iqpa2          54 PGVGKTTAALALAR   67 (231)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999988

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=87.87  E-value=0.09  Score=39.16  Aligned_cols=15  Identities=33%  Similarity=0.288  Sum_probs=13.5

Q ss_pred             CCCcHHHHHHHHhcc
Q 043181            2 GGVGKTTLAQLLCNN   16 (348)
Q Consensus         2 gGiGKTtLa~~v~~~   16 (348)
                      .|.|||||+.++...
T Consensus        10 ~gSGKTTli~~l~~~   24 (165)
T d1xjca_          10 KHSGKTTLMEKWVAA   24 (165)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            599999999999983

>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=87.84  E-value=0.39  Score=35.61  Aligned_cols=64  Identities=22%  Similarity=0.241  Sum_probs=45.6

Q ss_pred             cCCCCccEEecCCC-CCc-----cCchhhhccCCCCEeeccCCCc----cchhHHHhcccccCcEeeccCCCCCC
Q 043181          279 GDLKILRYLNFSDA-QVE-----TSPESVCKLHNLETLKLQNCNR----LQKLFADIGNLNNLHHLDNFVTFSLE  343 (348)
Q Consensus       279 ~~l~~L~~l~l~~~-~~~-----~lp~~~~~l~~L~~L~l~~c~~----l~~lp~~i~~l~~L~~L~l~~~~~l~  343 (348)
                      .+.+.|+.|+|+++ .++     .+-..+...++|+.|++++|.-    ...+-..+...+.|++|++++| .+.
T Consensus        12 ~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_          12 EDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESN-FLT   85 (167)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSS-BCC
T ss_pred             hCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehh-hcc
Confidence            34578999999975 354     2445566778999999999643    1334445666788999999998 443

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=87.43  E-value=0.2  Score=39.66  Aligned_cols=31  Identities=19%  Similarity=0.124  Sum_probs=24.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCC
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFED   34 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~   34 (348)
                      +|+||||||.++..  ....+...++|++....
T Consensus        35 pGsGKT~l~~qia~--~~~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          35 TGTGKTLLVSRFVE--NACANKERAILFAYEES   65 (242)
T ss_dssp             TTSSHHHHHHHHHH--HHHTTTCCEEEEESSSC
T ss_pred             CCCCHHHHHHHHHH--HHHHhccccceeeccCC
Confidence            69999999999998  45566667888887543

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=87.26  E-value=0.078  Score=40.71  Aligned_cols=14  Identities=36%  Similarity=0.318  Sum_probs=12.7

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      -|+||||+|+.+.+
T Consensus        18 ~GsGKTTl~~~L~~   31 (197)
T d2vp4a1          18 IGSGKTTYLNHFEK   31 (197)
T ss_dssp             TTSCHHHHHHTTGG
T ss_pred             CCCCHHHHHHHHHH
Confidence            59999999999877

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=87.21  E-value=0.11  Score=39.39  Aligned_cols=16  Identities=38%  Similarity=0.362  Sum_probs=14.1

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+|+.+++.
T Consensus         8 ~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           8 PPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CTTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4699999999999983

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.09  E-value=0.32  Score=37.70  Aligned_cols=27  Identities=19%  Similarity=0.154  Sum_probs=18.4

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEE
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVY   30 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~   30 (348)
                      -|+||||+|+.+.+  ....+--.+.++.
T Consensus        12 dGsGKsT~~~~L~~--~L~~~g~~v~~~~   38 (209)
T d1nn5a_          12 DRAGKSTQSRKLVE--ALCAAGHRAELLR   38 (209)
T ss_dssp             TTSSHHHHHHHHHH--HHHHTTCCEEEEE
T ss_pred             CCCCHHHHHHHHHH--HHHHCCCcEEEEe
Confidence            49999999999999  5544322334443

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=87.06  E-value=0.11  Score=39.71  Aligned_cols=16  Identities=25%  Similarity=0.300  Sum_probs=14.0

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      +.|.||||+|+.+.+.
T Consensus        11 ppGsGKsT~a~~La~~   26 (189)
T d1zaka1          11 APASGKGTQCELIKTK   26 (189)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4699999999999883

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=86.65  E-value=0.12  Score=39.04  Aligned_cols=15  Identities=33%  Similarity=0.490  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.++.
T Consensus         8 ~pGSGKsT~a~~La~   22 (182)
T d1zina1           8 LPGAGKGTQAEKIVA   22 (182)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=86.32  E-value=0.13  Score=39.45  Aligned_cols=15  Identities=27%  Similarity=0.412  Sum_probs=13.9

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+..
T Consensus        14 ~PGSGKtT~a~~La~   28 (189)
T d2ak3a1          14 APGSGKGTVSSRITK   28 (189)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            579999999999988

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=86.15  E-value=0.13  Score=39.39  Aligned_cols=15  Identities=27%  Similarity=0.235  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+++
T Consensus        14 ~pGSGKsT~a~~La~   28 (194)
T d1qf9a_          14 GPGSGKGTQCANIVR   28 (194)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999988

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.07  E-value=0.38  Score=37.69  Aligned_cols=38  Identities=16%  Similarity=0.127  Sum_probs=25.1

Q ss_pred             CCCcHHHHHHHHhcchhhhcCC----CeeEEEEcCCCCCHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRF----HLETWVYLFEDFDVFR   39 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F----~~~~wv~~~~~~~~~~   39 (348)
                      +|.||||||.++..+......+    ...+|++....++...
T Consensus        43 pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   84 (251)
T d1szpa2          43 FRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR   84 (251)
T ss_dssp             TTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGG
T ss_pred             CCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHH
Confidence            6999999999987754332222    3567887766655433

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.90  E-value=0.34  Score=37.67  Aligned_cols=18  Identities=33%  Similarity=0.486  Sum_probs=14.8

Q ss_pred             CCCcHHHHHHHHhcchhhhc
Q 043181            2 GGVGKTTLAQLLCNNVKVKN   21 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~   21 (348)
                      -|+||||+++.+.+  +.+.
T Consensus        12 DGsGKST~~~~L~~--~L~~   29 (214)
T d1tmka_          12 DRTGKTTQCNILYK--KLQP   29 (214)
T ss_dssp             TTSSHHHHHHHHHH--HTTT
T ss_pred             CCCcHHHHHHHHHH--HHHh
Confidence            49999999999988  5544

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.65  E-value=0.13  Score=39.96  Aligned_cols=14  Identities=14%  Similarity=0.351  Sum_probs=12.8

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|.||||+|+.+.+
T Consensus        11 ~gSGKSTla~~L~~   24 (213)
T d1uj2a_          11 TASGKSSVCAKIVQ   24 (213)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            59999999999987

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=85.48  E-value=0.22  Score=38.85  Aligned_cols=28  Identities=32%  Similarity=0.217  Sum_probs=21.6

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEc
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYL   31 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~   31 (348)
                      .|+|||-|++++++  +........++++.
T Consensus        45 ~G~GKTHLl~A~~~--~~~~~~~~~~~~~~   72 (213)
T d1l8qa2          45 VGTGKTHLLQAAGN--EAKKRGYRVIYSSA   72 (213)
T ss_dssp             SSSSHHHHHHHHHH--HHHHTTCCEEEEEH
T ss_pred             CCCcHHHHHHHHHH--HhccCccceEEech
Confidence            69999999999999  55555556667754

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=85.44  E-value=0.51  Score=34.82  Aligned_cols=17  Identities=12%  Similarity=0.069  Sum_probs=7.9

Q ss_pred             HHhcccccCcEeeccCC
Q 043181          323 ADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       323 ~~i~~l~~L~~L~l~~~  339 (348)
                      ..+...++|++|+++.+
T Consensus       126 ~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_         126 NMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHHHCSSCCEEECCCS
T ss_pred             HHHHhCCCcCEEeCcCC
Confidence            33444445555555443

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.14  E-value=0.16  Score=38.40  Aligned_cols=15  Identities=40%  Similarity=0.313  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+.+
T Consensus        10 ~pGSGKtT~a~~La~   24 (180)
T d1akya1          10 PPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            469999999999988

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.95  E-value=0.16  Score=38.93  Aligned_cols=15  Identities=33%  Similarity=0.359  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|.||||+|+.+++
T Consensus        16 ppGSGKsT~a~~La~   30 (196)
T d1ukza_          16 GPGAGKGTQCEKLVK   30 (196)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999988

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=84.88  E-value=0.16  Score=38.38  Aligned_cols=16  Identities=31%  Similarity=0.482  Sum_probs=14.2

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ++|.||||+|+.+++.
T Consensus         8 ~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           8 LPGAGKGTQADRIVEK   23 (182)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999983

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=84.87  E-value=0.28  Score=41.05  Aligned_cols=18  Identities=22%  Similarity=0.545  Sum_probs=14.9

Q ss_pred             CCcHHHHHHHHhcchhhhcC
Q 043181            3 GVGKTTLAQLLCNNVKVKNR   22 (348)
Q Consensus         3 GiGKTtLa~~v~~~~~~~~~   22 (348)
                      |+||||+++.+.+  .....
T Consensus        16 GsGKSTl~~~L~~--~l~~~   33 (333)
T d1p6xa_          16 GIGKSTTGRVMAS--AASGG   33 (333)
T ss_dssp             TSSHHHHHHHHHS--GGGCS
T ss_pred             cCCHHHHHHHHHH--HhccC
Confidence            9999999999999  44443

>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=84.13  E-value=0.76  Score=33.77  Aligned_cols=64  Identities=9%  Similarity=0.072  Sum_probs=44.6

Q ss_pred             ccccCCCCccEEecCCCCCc-----cCchhhhccCCCCEeeccCCCc----cchhHHHhcccccCcEeeccCC
Q 043181          276 SEIGDLKILRYLNFSDAQVE-----TSPESVCKLHNLETLKLQNCNR----LQKLFADIGNLNNLHHLDNFVT  339 (348)
Q Consensus       276 ~~~~~l~~L~~l~l~~~~~~-----~lp~~~~~l~~L~~L~l~~c~~----l~~lp~~i~~l~~L~~L~l~~~  339 (348)
                      ..+...++|+.|++++|.++     .+-..+...+.++.+++++|..    ...+-..+...++|+.+++..+
T Consensus        40 ~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~~~l~~~~~L~~l~L~l~  112 (166)
T d1io0a_          40 EALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALVEALQSNTSLIELRIDNQ  112 (166)
T ss_dssp             HHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHHHGGGGCSSCCEEECCCC
T ss_pred             HHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHHHHHHhCccccEEeeccC
Confidence            34557788999999999875     2344556678899999988643    2444456777788887766543

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=83.97  E-value=0.17  Score=39.41  Aligned_cols=16  Identities=25%  Similarity=0.596  Sum_probs=14.0

Q ss_pred             CCCcHHHHHHHHhcch
Q 043181            2 GGVGKTTLAQLLCNNV   17 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~   17 (348)
                      +|+||||+|+.+..+.
T Consensus        12 ~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_          12 ASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             SCSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            6999999999999843

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=83.90  E-value=0.19  Score=38.58  Aligned_cols=14  Identities=43%  Similarity=0.636  Sum_probs=12.9

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|||||+++..++.
T Consensus        52 pGVGKTalv~~LA~   65 (195)
T d1jbka_          52 PGVGKTAIVEGLAQ   65 (195)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCcccHHHHHHHHH
Confidence            69999999999887

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.60  E-value=0.19  Score=38.32  Aligned_cols=15  Identities=40%  Similarity=0.547  Sum_probs=13.4

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|+||||||+++.+
T Consensus         8 PsGsGK~tl~~~L~~   22 (190)
T d1lvga_           8 PSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999987

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=83.46  E-value=0.59  Score=35.92  Aligned_cols=42  Identities=14%  Similarity=0.177  Sum_probs=23.5

Q ss_pred             CCCcHHHHHHHHhcchhhhcC-CCeeEEEEcCCCCCHHHHHHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVKNR-FHLETWVYLFEDFDVFRITKTML   45 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~-F~~~~wv~~~~~~~~~~l~~~il   45 (348)
                      -|+||||+++.+.+  ..... +....+..-.......+.+++..
T Consensus        11 dGsGKsT~~~~L~~--~L~~~g~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_          11 EGAGKTTARNVVVE--TLEQLGIRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             TTSCHHHHHHHHHH--HHHHTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH--HHHhCCCCeEEEecCCCCccchhhhHHHH
Confidence            49999999999988  44332 33344443333223334444433

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.40  E-value=0.2  Score=38.10  Aligned_cols=15  Identities=27%  Similarity=0.290  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      .+|.||||+|+.+++
T Consensus         9 ppGSGKsT~a~~La~   23 (194)
T d1teva_           9 GPGAGKGTQCARIVE   23 (194)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            369999999999998

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.21  E-value=0.19  Score=38.26  Aligned_cols=14  Identities=43%  Similarity=0.617  Sum_probs=13.1

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      +|+|||||++.+.+
T Consensus        10 sG~GK~tl~~~L~~   23 (186)
T d1gkya_          10 SGTGKSTLLKKLFA   23 (186)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999987

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.17  E-value=0.19  Score=39.82  Aligned_cols=14  Identities=43%  Similarity=0.598  Sum_probs=12.8

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      -|+||||+++.+.+
T Consensus        11 ~GsGKST~~~~L~~   24 (241)
T d2ocpa1          11 IAVGKSTFVKLLTK   24 (241)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            49999999999987

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=82.92  E-value=0.2  Score=40.13  Aligned_cols=14  Identities=50%  Similarity=0.710  Sum_probs=13.4

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      .|+|||++|+++.+
T Consensus        51 pGtGKT~la~aia~   64 (247)
T d1ixza_          51 PGVGKTHLARAVAG   64 (247)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCChhHHHHHHHH
Confidence            69999999999998

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=82.71  E-value=0.22  Score=37.36  Aligned_cols=15  Identities=33%  Similarity=0.313  Sum_probs=13.6

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      +.|.||||+|+.+++
T Consensus         8 ~pGSGKsT~~~~La~   22 (179)
T d1e4va1           8 APVAGKGTQAQFIME   22 (179)
T ss_dssp             STTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=82.68  E-value=0.23  Score=37.73  Aligned_cols=15  Identities=40%  Similarity=0.395  Sum_probs=13.7

Q ss_pred             CCCCcHHHHHHHHhc
Q 043181            1 MGGVGKTTLAQLLCN   15 (348)
Q Consensus         1 mgGiGKTtLa~~v~~   15 (348)
                      ++|.||||+|+.+.+
T Consensus        11 ~pGSGKsT~a~~La~   25 (190)
T d1ak2a1          11 PPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CTTSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            479999999999987

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.27  E-value=0.69  Score=37.37  Aligned_cols=45  Identities=31%  Similarity=0.291  Sum_probs=31.9

Q ss_pred             CCCcHHHHHHHHhcchhhhcCCCeeEEEEcCCCC-CHHHHHHHHHHh
Q 043181            2 GGVGKTTLAQLLCNNVKVKNRFHLETWVYLFEDF-DVFRITKTMLQS   47 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~l~~~il~~   47 (348)
                      +|+|||||+..+.++. .+.+=+..+++.+++.. +..++.+++...
T Consensus        77 ~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          77 AGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             TTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            5999999999998842 23344578889888764 456666666553

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=82.20  E-value=0.4  Score=36.75  Aligned_cols=14  Identities=43%  Similarity=0.646  Sum_probs=13.0

Q ss_pred             CCCcHHHHHHHHhc
Q 043181            2 GGVGKTTLAQLLCN   15 (348)
Q Consensus         2 gGiGKTtLa~~v~~   15 (348)
                      -|+||||+++.+.+
T Consensus         9 dGsGKST~~~~L~~   22 (208)
T d1gsia_           9 DGAGKRTLVEKLSG   22 (208)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            49999999999998

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=82.14  E-value=0.83  Score=35.85  Aligned_cols=39  Identities=31%  Similarity=0.294  Sum_probs=25.7

Q ss_pred             CCCcHHHHHHHHhcchhhh----cCCCeeEEEEcCCCCCHHHH
Q 043181            2 GGVGKTTLAQLLCNNVKVK----NRFHLETWVYLFEDFDVFRI   40 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~l   40 (348)
                      +|+||||+|.++..+...+    ..-...+|+......+...+
T Consensus        45 pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          45 FGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             TTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            6999999999987643222    12245678877776665444

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=82.10  E-value=0.25  Score=38.21  Aligned_cols=19  Identities=32%  Similarity=0.282  Sum_probs=14.6

Q ss_pred             CCCcHHHHHHHHhcchhhh
Q 043181            2 GGVGKTTLAQLLCNNVKVK   20 (348)
Q Consensus         2 gGiGKTtLa~~v~~~~~~~   20 (348)
                      .||||||++..+..-...+
T Consensus        11 ~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_          11 TEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             TTSCHHHHHHHHHHHHHHT
T ss_pred             CCccHHHHHHHHHHHHHHC
Confidence            3999999999998843333

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=81.98  E-value=0.23  Score=38.51  Aligned_cols=16  Identities=31%  Similarity=0.513  Sum_probs=14.3

Q ss_pred             CCCCcHHHHHHHHhcc
Q 043181            1 MGGVGKTTLAQLLCNN   16 (348)
Q Consensus         1 mgGiGKTtLa~~v~~~   16 (348)
                      ++|.||||+|+.+.++
T Consensus        11 ppGSGKgT~ak~La~~   26 (225)
T d1ckea_          11 PSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             CTTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            4799999999999984