Citrus Sinensis ID: 038724

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480---
Protein Sequence
IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQSGGSEIFTPLS
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHccccEEEEEcccccccccccccccccccccccEEEEEcccHHHHHHcccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccccHHHHHHHccccccccHHHHHHHHHcccccccccccccHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHccccccccccEEEEcccHHHHHHHHcccEEEEEEcccccccccccccccccEEEEccccccccccHHHcccccEEEEEccccccccccccccccccccccccccccccccccHHHHccccccEEccccccHHHHccccccccHHHHHHHccccccccEEEEEcccccccccccccccccccccEEEEccccccHHHHHHHHccccEEEEcccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccHHHHHccccEEEEEEEcccccEEEEEEEEEEcccEEEEEEEccccHccHHHHcccccccccccEEEEEEcccHHHHHHcccHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccccHHHHHEcHcccccHHHHHHHHHHEcccccccEcHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHcccccccEEHHHHHHHHHHHHcccEEEEEEcccccccccccccHcHEEEcccccccccccHHHHHHcccEEEEEccccccHHcccccccccHHEEEEEccccccccccHHHHHHHHHHEEEHcccHHHcccccccccHccHHHHHccccccEEEccccccccccccccHHHcEEEEEEEEcccccccccHHHHHHHHHcccEEEEEccc
Coil and Loop (DISEMBL)
IENPKQFYQVWRFLVKKDvgiiglfgtggvgkTTILKQINnrfcserpgfDVVIWVVVSKElkletsqddmILSTKKFLLLLDDLWETidlskigvplpsqkiVSKVVFTthseevcvdcftpqeSWQVFQMKVGnetlvshpaihkpakmvakdcgglplALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFsfdrlpsdqirscflfcspfpgdyrihkrDLVVNYwidegiilddefdrnkainrrysINGDLIRASLLEEEEDILEKLRDvvpsdalkWLGLRRMSLMNNQIKtllntpscphlltlflndnyLQDIKNGFFQFMPCLKVLNLSYNrfltklpsgISKLVSlqhldisftstlELPEELKALEKLkyldmddhqqvmeegncqsdDAESLLKEMLCLEQLniirltscslcslcglptvqcltsrrlnlevedwhKCTGEVHKVLqsggseiftpls
Flexible Loop (DISEMBL)
IENPKQFYQVWRFLVKKDVGIiglfgtggvgktTILKQINNRFCSERPGFDVVIWVVVSKELkletsqddmiLSTKKFLLLLDDLWETIDLSkigvplpsqkIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEgiilddefdrnkainrrysingdliRASLLEEEEDILeklrdvvpsdalKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWHKCTGEVHKvlqsggseiftpls
Low Complexity Region (SEG)
IENPKQFYQVWRFLVKKDvgiiglfgtggvgkttILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASlleeeedileklRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTlelpeelkaleklkylDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRltscslcslcGLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQSGGSEIFTPLS
Disordered region (IsUnstruct)
*****QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLI*****************VVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLD*******************SLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQ***********
Disordered Region (DISOPRED)
*ENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILM**********KVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDE*****AINRRYSINGDLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLN**********************EIFTPL*
Disordered Region (DISEMBL)
IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQSGGSEIFTPLS
Disordered Region (DISPRO)
IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDD******AINRRYSINGDLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQSGGSEIFTPLS
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQSGGSEIFTPLS
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	483	2.2.26 [Sep-21-2011]
P60838	894	Probable disease resistan	yes	no	0.801	0.432	0.424	8e-89
Q8RXS5	888	Probable disease resistan	no	no	0.801	0.435	0.413	2e-88
O64973	889	Disease resistance protei	no	no	0.906	0.492	0.387	2e-85
Q9FG91	848	Probable disease resistan	no	no	0.797	0.454	0.406	5e-84
Q8L3R3	885	Disease resistance protei	no	no	0.807	0.440	0.404	9e-84
Q940K0	889	Probable disease resistan	no	no	0.799	0.434	0.389	6e-81
O82484	892	Putative disease resistan	no	no	0.805	0.436	0.395	1e-80
O64789	925	Probable disease resistan	no	no	0.799	0.417	0.393	2e-80
Q9C8T9	898	Putative disease resistan	no	no	0.906	0.487	0.378	2e-80
O22727	967	Probable disease resistan	no	no	0.884	0.441	0.372	4e-80

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

 Score =  328 bits (840), Expect = 8e-89,   Method: Compositional matrix adjust.
 Identities = 193/455 (42%), Positives = 263/455 (57%), Gaps = 68/455 (14%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           +VW  L +    I+GL+G GGVGKTT+L +INN+F  +  GF VVIWVVVSK   +   Q
Sbjct: 166 RVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQ 225

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
            D+                         +L  +KF+LLLDD+WE ++L  +GVP PS++ 
Sbjct: 226 GDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQN 285

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KVVFTT S +VC          V C  P E+W++FQMKVG  TL  HP I + A+ VA
Sbjct: 286 GCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVA 345

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSD 213
             C GLPLAL ++G  MA K+  +EW++AI++L   A +FPG+ ++   LK+S+D L  +
Sbjct: 346 GKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPGMEQILPILKYSYDNLNKE 405

Query: 214 QIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASL 273
           Q++ CFL+CS FP DYR+ K  L ++YWI EG I D+   R +A+++ Y I G L+RA L
Sbjct: 406 QVKPCFLYCSLFPEDYRMEKERL-IDYWICEGFI-DENESRERALSQGYEIIGILVRACL 463

Query: 274 LEEEEDILE--KLRDVVPSDAL----------------------------KWLGLRRMSL 303
           L EE    E  K+ DVV   AL                             W  +RRMSL
Sbjct: 464 LLEEAINKEQVKMHDVVREMALWIASDLGEHKERCIVQVGVGLREVPKVKNWSSVRRMSL 523

Query: 304 MNNQIKTLLNTPSCPHLLTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI 362
           M N+I+ L  +P C  L TLFL  N  L  I + FF+ +P L VL+LS N  L KLP+ I
Sbjct: 524 MENEIEILSGSPECLELTTLFLQKNDSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQI 583

Query: 363 SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           SKLVSL++LD+S+T    LP  L+ L+KL+YL +D
Sbjct: 584 SKLVSLRYLDLSWTYIKRLPVGLQELKKLRYLRLD 618

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

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

 Score =  327 bits (837), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 190/459 (41%), Positives = 263/459 (57%), Gaps = 72/459 (15%)

Query: 10  VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQD 69
            W  L++ ++GI+GL G GGVGKTT+L  INNRF      FD+VIW+VVSKEL+++  QD
Sbjct: 165 AWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQD 224

Query: 70  DM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIV 104
           ++                         +L  K+F+LLLDD+W  +DL+++GVP PS++  
Sbjct: 225 EIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSRENG 284

Query: 105 SKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAK 154
            K+VFTT  +E+C          V C  P ++W +F  KVG  TL SHP I   A+ VAK
Sbjct: 285 CKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAK 344

Query: 155 DCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPSD 213
            C GLPLAL ++G  MAYK+T +EW+ AI++L  SA +F G+ +++   LK+S+D L S+
Sbjct: 345 KCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGMEDEILPILKYSYDNLKSE 404

Query: 214 QIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRN--KAINRRYSINGDLIRA 271
           Q++ CF +C+ FP D+ I K DL V+YWI EG I     DRN  KA N+ Y I G L+R+
Sbjct: 405 QLKLCFQYCALFPEDHNIEKNDL-VDYWIGEGFI-----DRNKGKAENQGYEIIGILVRS 458

Query: 272 SLLEEEEDILEKLRDVVPSDAL----------------------------KWLGLRRMSL 303
            LL EE     K+ DVV   AL                            KW   RR+SL
Sbjct: 459 CLLMEENQETVKMHDVVREMALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKVARRVSL 518

Query: 304 MNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS 363
           M N I+++ + P  P L+TL L  N+L  I + FF+ MP L VL+LS NR L  LP+ IS
Sbjct: 519 MFNNIESIRDAPESPQLITLLLRKNFLGHISSSFFRLMPMLVVLDLSMNRDLRHLPNEIS 578

Query: 364 KLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
           + VSLQ+L +S T     P  L  L KL YL+++  + V
Sbjct: 579 ECVSLQYLSLSRTRIRIWPAGLVELRKLLYLNLEYTRMV 617

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  317 bits (811), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 203/524 (38%), Positives = 289/524 (55%), Gaps = 86/524 (16%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           + W  L++   GI+GL+G GGVGKTT+L +INN+F      FDVVIWVVVS+   +   Q
Sbjct: 166 KAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQ 225

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
            D+                         +L  +KF+LLLDD+WE ++L  +GVP PS+  
Sbjct: 226 RDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDN 285

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KV FTT S +VC          V C  P+ESW +FQMKVG  TL SHP I   A+ VA
Sbjct: 286 GCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVA 345

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPS 212
           + C GLPLAL ++G AMA K+T  EW  AI++L  SA+ F G+ +++ + LK+S+D L  
Sbjct: 346 RKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSGMEDEILHVLKYSYDNLNG 405

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
           + ++SCFL+CS FP DY I K  L V+YWI EG I + E  R + IN+ Y I G L+RA 
Sbjct: 406 ELMKSCFLYCSLFPEDYLIDKEGL-VDYWISEGFINEKE-GRERNINQGYEIIGTLVRAC 463

Query: 273 LLEEEE---------DILEKLRDVVPSDALK---------------------WLGLRRMS 302
           LL EEE         D++ ++   + SD  K                     W  +R++S
Sbjct: 464 LLLEEERNKSNVKMHDVVREMALWISSDLGKQKEKCIVRAGVGLREVPKVKDWNTVRKIS 523

Query: 303 LMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI 362
           LMNN+I+ + ++  C  L TLFL  N +  I   FF+ MP L VL+LS N+ L +LP  I
Sbjct: 524 LMNNEIEEIFDSHECAALTTLFLQKNDVVKISAEFFRCMPHLVVLDLSENQSLNELPEEI 583

Query: 363 SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ---QVMEEGNCQS------DDA 413
           S+L SL++ ++S+T   +LP  L  L+KL +L+++       ++   N  +       D+
Sbjct: 584 SELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEHMSSLGSILGISNLWNLRTLGLRDS 643

Query: 414 E-----SLLKEMLCLEQLNIIRL-TSCSLCS---LCGLPTVQCL 448
                 SL+KE+  LE L +I L  S SL +   LC    V+C+
Sbjct: 644 RLLLDMSLVKELQLLEHLEVITLDISSSLVAEPLLCSQRLVECI 687

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  311 bits (798), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 184/453 (40%), Positives = 264/453 (58%), Gaps = 68/453 (15%)

Query: 10  VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQD 69
            W  L+  ++  +GL+G GG+GKTT+L+ +NN+F      FDVVIWVVVSK+ +LE  QD
Sbjct: 163 AWESLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQD 222

Query: 70  DMI------------------------LSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVS 105
            ++                        L  KKF+LLLDDLW  +DL KIGVP PS++  S
Sbjct: 223 QILGRLRPDKEWERETESKKASLINNNLKRKKFVLLLDDLWSEVDLIKIGVPPPSRENGS 282

Query: 106 KVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKD 155
           K+VFTT S+EVC          VDC +P E+W++F++ VG+  L SH  I   A++VA  
Sbjct: 283 KIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAK 342

Query: 156 CGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGIN-KVYYRLKFSFDRLPSDQ 214
           C GLPLAL ++G+AM  K+T +EW+ AI +L     +FPG+  ++   LKFS+D L + +
Sbjct: 343 CHGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGMEERILPILKFSYDSLKNGE 402

Query: 215 IRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASLL 274
           I+ CFL+CS FP D+ I K D ++ YWI EG I  + ++ +   N+ Y I G L+RA LL
Sbjct: 403 IKLCFLYCSLFPEDFEIEK-DKLIEYWICEGYINPNRYE-DGGTNQGYDIIGLLVRAHLL 460

Query: 275 EEEE--------DILEKLR----------------------DVVPSDALKWLGLRRMSLM 304
            E E        D++ ++                        ++P+D + W  +R+MSL+
Sbjct: 461 IECELTDKVKMHDVIREMALWINSDFGNQQETICVKSGAHVRLIPND-ISWEIVRQMSLI 519

Query: 305 NNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISK 364
           + Q++ +  +P+CP+L TL L  N L DI  GFF FMP L VL+LS N  L +LP  IS 
Sbjct: 520 STQVEKIACSPNCPNLSTLLLPYNKLVDISVGFFLFMPKLVVLDLSTNWSLIELPEEISN 579

Query: 365 LVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           L SLQ+L++S T    LP  LK L KL YL+++
Sbjct: 580 LGSLQYLNLSLTGIKSLPVGLKKLRKLIYLNLE 612

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  311 bits (796), Expect = 9e-84,   Method: Compositional matrix adjust.
 Identities = 187/462 (40%), Positives = 264/462 (57%), Gaps = 72/462 (15%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           +VW  L++  V I+GL+G GGVGKTT+L QINN+F     GFDVVIWVVVSK   +   Q
Sbjct: 166 KVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQ 225

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
             +                         +L  KKF+LLLDD+WE ++L  IGVP PS + 
Sbjct: 226 KSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGEN 285

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KV FTTHS+EVC          + C     +W + + KVG  TL SHP I + A+ V+
Sbjct: 286 GCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVS 345

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPS 212
           + C GLPLAL ++G  M++K+T +EW+ A E+L  SA  F G+ +++   LK+S+D L  
Sbjct: 346 EKCCGLPLALNVIGETMSFKRTIQEWRHATEVLT-SATDFSGMEDEILPILKYSYDSLNG 404

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
           +  +SCFL+CS FP D+ I K ++++ YWI EG I + +  R KA N+ Y I G L+R+S
Sbjct: 405 EDAKSCFLYCSLFPEDFEIRK-EMLIEYWICEGFIKEKQ-GREKAFNQGYDILGTLVRSS 462

Query: 273 LLEE---EEDILEKLRDVVPSDAL----------------------------KWLGLRRM 301
           LL E   ++D++  + D+V   AL                             W  ++RM
Sbjct: 463 LLLEGAKDKDVV-SMHDMVREMALWIFSDLGKHKERCIVQAGIGLDELPEVENWRAVKRM 521

Query: 302 SLMNNQIKTLLNTPSCPHLLTLFLNDNY-LQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           SLMNN  + +L +P C  L+TLFL +NY L DI   FF+ MP L VL+LS N  L++LP 
Sbjct: 522 SLMNNNFEKILGSPECVELITLFLQNNYKLVDISMEFFRCMPSLAVLDLSENHSLSELPE 581

Query: 361 GISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            IS+LVSLQ+LD+S T    LP  L  L KL +L ++  +++
Sbjct: 582 EISELVSLQYLDLSGTYIERLPHGLHELRKLVHLKLERTRRL 623

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  301 bits (772), Expect = 6e-81,   Method: Compositional matrix adjust.
 Identities = 176/452 (38%), Positives = 253/452 (55%), Gaps = 66/452 (14%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           + W  L++  VGI+GL G GGVGKTT+ K+I+N+F      FD+VIW+VVSK + +   Q
Sbjct: 162 KAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQ 221

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
           +D+                         +L  K+F+L+LDD+WE +DL  IG+P PS+  
Sbjct: 222 EDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVN 281

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KV FTT S EVC          V+C  P+++W++F+ KVG+ TL S P I + A+ VA
Sbjct: 282 KCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVA 341

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPS 212
           + C GLPLAL ++G  M+ K   +EW+ AI +   SA +F  + NK+   LK+S+D L  
Sbjct: 342 QKCRGLPLALNVIGETMSSKTMVQEWEHAIHVFNTSAAEFSDMQNKILPILKYSYDSLGD 401

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
           + I+SCFL+C+ FP D  I+   L+ +YWI EG I +D+  + +A N+ Y++ G L RA+
Sbjct: 402 EHIKSCFLYCALFPEDGEIYNEKLI-DYWICEGFIGEDQVIK-RARNKGYAMLGTLTRAN 459

Query: 273 LLEEEEDILEKLRDVVPSDAL----------------------------KWLGLRRMSLM 304
           LL +       + DVV   AL                             W  +R+MSLM
Sbjct: 460 LLTKVGTYYCVMHDVVREMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRKMSLM 519

Query: 305 NNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISK 364
           +N I+ +     C  L TLFL  N L+++   F ++M  L VL+LSYNR   KLP  IS 
Sbjct: 520 DNDIEEITCESKCSELTTLFLQSNKLKNLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISG 579

Query: 365 LVSLQHLDISFTSTLELPEELKALEKLKYLDM 396
           LVSLQ LD+S TS   +P  LK L+KL +LD+
Sbjct: 580 LVSLQFLDLSNTSIEHMPIGLKELKKLTFLDL 611

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  301 bits (770), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 181/458 (39%), Positives = 259/458 (56%), Gaps = 69/458 (15%)

Query: 7   FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLET 66
           F + W  L+   VG +GL+G GGVGKTT+L QI+N     + G D+VIWVVVS +L++  
Sbjct: 161 FQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHK 220

Query: 67  SQDDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQ 101
            Q+D+                          LS K+F+LLLDD+W+ +DL+KIG+P  ++
Sbjct: 221 IQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTR 280

Query: 102 KIVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKM 151
           +   KVVFTT S +VC          V C +  ++W++FQ KVG  +L SHP I + AK 
Sbjct: 281 ENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHPDILELAKK 340

Query: 152 VAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRL 210
           VA  C GLPLAL ++G  MA K+  +EW  A+++L   A +F G+ + +   LK+S+D L
Sbjct: 341 VAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGMDDHILLILKYSYDNL 400

Query: 211 PSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIR 270
               +RSCF +C+ +P DY I K  L ++YWI EG I D    + +A+N+ Y I G L+R
Sbjct: 401 NDKHVRSCFQYCALYPEDYSIKKYRL-IDYWICEGFI-DGNIGKERAVNQGYEILGTLVR 458

Query: 271 ASLLEEE-EDILE-KLRDVVPSDAL----------------------------KWLGLRR 300
           A LL EE ++ LE K+ DVV   AL                             W  +RR
Sbjct: 459 ACLLSEEGKNKLEVKMHDVVREMALWTLSDLGKNKERCIVQAGSGLRKVPKVEDWGAVRR 518

Query: 301 MSLMNNQIKTLLNTPSCPHLLTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP 359
           +SLMNN I+ +  +P CP L TLFL +N  L  I   FF+ M  L VL+LS N  L  LP
Sbjct: 519 LSLMNNGIEEISGSPECPELTTLFLQENKSLVHISGEFFRHMRKLVVLDLSENHQLDGLP 578

Query: 360 SGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
             IS+LV+L++LD+S T+   LP  L+ L+ L +L+++
Sbjct: 579 EQISELVALRYLDLSHTNIEGLPACLQDLKTLIHLNLE 616

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  300 bits (768), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 182/463 (39%), Positives = 260/463 (56%), Gaps = 77/463 (16%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           + W  L++  VGI+GL G GGVGKTT+ K+I+N+F      FD+VIW+VVS+  KL   Q
Sbjct: 164 KAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQ 223

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
           +D+                         +L  K+F+L+LDD+WE +DL  IG+P PS+  
Sbjct: 224 EDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVN 283

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KV FTT S EVC          V+C  P+++W++F+ KVG+ TL S P I   A+ VA
Sbjct: 284 KCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVA 343

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPS 212
           + C GLPLAL ++G  MA K   +EW+ AI++L RSA +F G+ NK+   LK+S+D L  
Sbjct: 344 QKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTRSAAEFSGMENKILPILKYSYDSLGD 403

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
           + I+SCFL+C+ FP D +I+   L ++  I EG I +D+  + +A N+ Y++ G L RA+
Sbjct: 404 EHIKSCFLYCALFPEDGQIYTETL-IDKLICEGFIGEDQVIK-RARNKGYAMLGTLTRAN 461

Query: 273 LL----EEEEDILEK-------LRDVVPSDAL---------------------------- 293
           LL     E  ++L K       + DVV   AL                            
Sbjct: 462 LLTKVGTELANLLTKVSIYHCVMHDVVREMALWIASDFGKQKENFVVQASAGLHEIPEVK 521

Query: 294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNR 353
            W  +RRMSLM N+I+ +     C  L TLFL  N L+++   F ++M  L VL+LS NR
Sbjct: 522 DWGAVRRMSLMRNEIEEITCESKCSELTTLFLQSNQLKNLSGEFIRYMQKLVVLDLSDNR 581

Query: 354 FLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDM 396
              +LP  IS LVSLQ+LD+SFT   +LP  LK L+KL +LD+
Sbjct: 582 DFNELPEQISGLVSLQYLDLSFTRIEQLPVGLKELKKLTFLDL 624

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  300 bits (767), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 200/528 (37%), Positives = 281/528 (53%), Gaps = 90/528 (17%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
             W  L++  VGI+GL+G GGVGKTT+L QINN+F     GFD VIWVVVSKE+ +E   
Sbjct: 162 NAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFSKYMCGFDSVIWVVVSKEVNVENIL 221

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
           D++                          L   +F+L LDD+WE ++L +IGVP P+ K 
Sbjct: 222 DEIAQKVHISGEKWDTKYKYQKGVYLYNFLRKMRFVLFLDDIWEKVNLVEIGVPFPTIKN 281

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KVVFTT S +VC          V C    +++ +FQ KVG  TL S P I + +++VA
Sbjct: 282 KCKVVFTTRSLDVCTSMGVEKPMEVQCLADNDAYDLFQKKVGQITLGSDPEIRELSRVVA 341

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGIN-KVYYRLKFSFDRLPS 212
           K C GLPLAL +V   M+ K+T +EW+ AI +L   A +F G++ K+   LK+S+D L  
Sbjct: 342 KKCCGLPLALNVVSETMSCKRTVQEWRHAIYVLNSYAAKFSGMDDKILPLLKYSYDSLKG 401

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
           + ++ C L+C+ FP D +I K +L+  YWI E II D     +KA N+ Y I G L+RAS
Sbjct: 402 EDVKMCLLYCALFPEDAKIRKENLI-EYWICEEII-DGSEGIDKAENQGYEIIGSLVRAS 459

Query: 273 LLEEEEDI----LEKLRDVVPSDAL----------------------------KWLGLRR 300
           LL EE ++    +  L DVV   AL                             W  +RR
Sbjct: 460 LLMEEVELDGANIVCLHDVVREMALWIASDLGKQNEAFIVRASVGLREILKVENWNVVRR 519

Query: 301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           MSLM N I  L     C  L TL L   +L+ I + FF  MP L VL+LS N +L++LP+
Sbjct: 520 MSLMKNNIAHLDGRLDCMELTTLLLQSTHLEKISSEFFNSMPKLAVLDLSGNYYLSELPN 579

Query: 361 GISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME---------------E 405
           GIS+LVSLQ+L++S T    LP+ L+ L+KL +L ++   Q+                  
Sbjct: 580 GISELVSLQYLNLSSTGIRHLPKGLQELKKLIHLYLERTSQLGSMVGISCLHNLKVLKLS 639

Query: 406 GNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRL 453
           G+  + D ++ +KE+  LE L ++  T       C L T Q L+S RL
Sbjct: 640 GSSYAWDLDT-VKELEALEHLEVLTTT----IDDCTLGTDQFLSSHRL 682

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  299 bits (765), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 192/515 (37%), Positives = 281/515 (54%), Gaps = 88/515 (17%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           + W  L++  VGI+GL G GGVGKTT+ K+I+N+F      FD+VIW+VVS+  KL   Q
Sbjct: 163 KAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQ 222

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
           +D+                         +L  K+F+L+LDD+WE +DL  IG+P PS+  
Sbjct: 223 EDIAEKLHLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVN 282

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KV FTT  ++VC          V C  P+++W++F+ KVG+ TL S P I   A+ VA
Sbjct: 283 KCKVAFTTRDQKVCGQMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVA 342

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPS 212
           + C GLPLAL+ +G  MA K   +EW+ AI++L RSA +F  + NK+   LK+S+D L  
Sbjct: 343 QKCRGLPLALSCIGETMASKTMVQEWEHAIDVLTRSAAEFSDMQNKILPILKYSYDSLED 402

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
           + I+SCFL+C+ FP D +I  + L+ N WI EG I +D+  + +A N+ Y + G LIRA+
Sbjct: 403 EHIKSCFLYCALFPEDDKIDTKTLI-NKWICEGFIGEDQVIK-RARNKGYEMLGTLIRAN 460

Query: 273 LLEEEEDILE---KLRDVVPSDAL----------------------------KWLGLRRM 301
           LL  +   ++    + DVV   AL                             W  +RRM
Sbjct: 461 LLTNDRGFVKWHVVMHDVVREMALWIASDFGKQKENYVVRARVGLHEIPKVKDWGAVRRM 520

Query: 302 SLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG 361
           SLM N+I+ +     C  L TLFL  N L+++   F ++M  L VL+LS+N    +LP  
Sbjct: 521 SLMMNEIEEITCESKCSELTTLFLQSNQLKNLSGEFIRYMQKLVVLDLSHNPDFNELPEQ 580

Query: 362 ISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV----------------MEE 405
           IS LVSLQ+LD+S+T   +LP  LK L+KL +L++   +++                + E
Sbjct: 581 ISGLVSLQYLDLSWTRIEQLPVGLKELKKLIFLNLCFTERLCSISGISRLLSLRWLSLRE 640

Query: 406 GNCQSDDAESLLKEMLCLEQLNIIRLT-SCSLCSL 439
            N   D   S+LKE+  LE L  +R+T S  L SL
Sbjct: 641 SNVHGD--ASVLKELQQLENLQDLRITESAELISL 673

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	483
24461866	890	NBS-LRR type disease resistance protein	0.801	0.434	0.494	1e-103
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.931	0.511	0.423	7e-99
24461864	899	NBS-LRR type disease resistance protein	0.805	0.432	0.440	7e-95
24461863	889	NBS-LRR type disease resistance protein	0.795	0.431	0.459	2e-93
24461861	890	NBS-LRR type disease resistance protein	0.795	0.431	0.451	2e-93
225443158	903	PREDICTED: probable disease resistance p	0.902	0.482	0.421	9e-93
408683737	580	NBS-LRR disease resistance protein NBS39	0.747	0.622	0.458	5e-92
359482672	905	PREDICTED: probable disease resistance p	0.803	0.428	0.476	4e-91
24461865	892	NBS-LRR type disease resistance protein	0.803	0.434	0.481	8e-88
15221277	894	LRR and NB-ARC domain-containing disease	0.801	0.432	0.424	5e-87

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 226/457 (49%), Positives = 280/457 (61%), Gaps = 70/457 (15%)

Query: 6   QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE 65
           Q  QVWR LV++  GI+GL+G GGVGKTT+L  INN+F      F+ VIWVVVSK+L+LE
Sbjct: 162 QLEQVWRCLVEEPAGIVGLYGMGGVGKTTLLTHINNKFLESTTNFNYVIWVVVSKDLRLE 221

Query: 66  TSQDDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPS 100
             Q+ +                         IL  KKF+LLLDDLW+ +DL ++GVPLP 
Sbjct: 222 NIQETIGEKIGLLNDTWKNRRIEQKALDIFKILKEKKFVLLLDDLWQRVDLVEVGVPLPG 281

Query: 101 -QKIVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPA 149
            Q   SKVVFT+ SEEVC          V C +  ++W++FQ KVG ETL S P I + A
Sbjct: 282 PQSSTSKVVFTSRSEEVCGLMEAHKKFKVACLSDIDAWELFQQKVGEETLKS-PDIRQLA 340

Query: 150 KMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFD 208
           +  AK+CGGLPLAL  +GRAMA KKTPEEW  AIE+L  S+ QFPG+ N+VY  LKFS+D
Sbjct: 341 QTAAKECGGLPLALITIGRAMACKKTPEEWTYAIEVLRTSSSQFPGLGNEVYPLLKFSYD 400

Query: 209 RLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDL 268
            LPSD IRSC L+C  +P DY I K +++++ WI EG +   E DR    N+ Y I G L
Sbjct: 401 SLPSDTIRSCLLYCCLYPEDYCISK-EILIDCWIGEGFL--TERDRFGEQNQGYHILGIL 457

Query: 269 IRASLLEEEEDILEKLRDVVPSDAL----------------------------KWLGLRR 300
           + A LLEE  D   K+ DVV   AL                             W   RR
Sbjct: 458 LHACLLEEGGDGEVKMHDVVRDMALWIACAIEKEKDNFLVYAGVGLIEAPDVSGWEKARR 517

Query: 301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           +SLM+NQI  L    +CPHLLTLFLN+N LQ I N FF+FMP LKVLNL+ +  LT LP 
Sbjct: 518 LSLMHNQITNLSEVATCPHLLTLFLNENELQMIHNDFFRFMPSLKVLNLA-DSSLTNLPE 576

Query: 361 GISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           GISKLVSLQHLD+S +S  ELP ELKAL  LK L+++
Sbjct: 577 GISKLVSLQHLDLSKSSIEELPLELKALVNLKCLNLE 613

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055915|ref|XP_002298700.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222845958|gb|EEE83505.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  367 bits (942), Expect = 7e-99,   Method: Compositional matrix adjust.
 Identities = 232/548 (42%), Positives = 309/548 (56%), Gaps = 98/548 (17%)

Query: 7   FYQVWRFLVK-KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE 65
           F QVW  L + K VGI+GL+G GGVGKTT+L QINN        FD+VIWVVVSK+LKL 
Sbjct: 162 FNQVWTCLREEKQVGIVGLYGMGGVGKTTLLTQINNESLKTPDDFDIVIWVVVSKDLKLN 221

Query: 66  TSQ----------DDM---------------ILSTKKFLLLLDDLWETIDLSKIGVPLPS 100
           T Q          DD+                L  K+F++LLDD+WE +DL K+GVPLP 
Sbjct: 222 TVQESIGRNIGCSDDLWKNKSLDEKAVDIFNALRHKRFVMLLDDIWERVDLKKLGVPLPD 281

Query: 101 QKIVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAK 150
               SKVVFTT SEE+C          VDC    ++W +FQ KVG++TL  H  I K A+
Sbjct: 282 MNNGSKVVFTTRSEEICGLMDAHKTMKVDCLAWDDAWDLFQKKVGDQTLCVHTDIPKLAR 341

Query: 151 MVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDR 209
            VAK+CGGLPLAL  +GRAMA KKTP+EW+ AIE+L +SA +F G+ ++V+  LKFS+D 
Sbjct: 342 NVAKECGGLPLALITIGRAMACKKTPQEWRHAIEVLRKSASEFSGMGDEVFPLLKFSYDN 401

Query: 210 LPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLI 269
           L   +IR+CFL+CS FP D+ I+K DL+ +YWI EGI  D    R    N  Y + G L+
Sbjct: 402 LSKQKIRTCFLYCSLFPEDFLINKNDLI-DYWIGEGI-FDGSDGREVVENWGYHVIGCLL 459

Query: 270 RASLLEEEEDILEKLRDVVPSDAL----------------------------KWLGLRRM 301
            A LLE+++D + ++ DV+   AL                            KW G+R++
Sbjct: 460 HACLLEDKDDCV-RMHDVIRDMALWIASDIERDQQNFFVQTGAQSSKALEVGKWEGVRKV 518

Query: 302 SLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG 361
           SLM N I  L  TP+C +L TLFL   +L  I  GFFQFMP L VL+LS N  L  LP  
Sbjct: 519 SLMANHIVHLSGTPNCSNLRTLFLGSIHLNKISRGFFQFMPNLTVLDLSNNNSLLGLPRD 578

Query: 362 ISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD------------------------ 397
           + KLVSLQ+L++S T   ELP EL  L KL+YL+++                        
Sbjct: 579 VWKLVSLQYLNLSRTGIKELPTELNELVKLRYLNLEYTHSLYLLPHGVISGFPMMRILRM 638

Query: 398 ----DHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRL 453
                 +Q  E+  C     ESL++E+ CLE+LN++ +T  S  +L  L + Q + S   
Sbjct: 639 FRCGSSEQAAED--CILSRDESLVEELQCLEELNMLTVTIRSAAALERLSSFQGMQSSTR 696

Query: 454 NLEVEDWH 461
            L +E +H
Sbjct: 697 VLYLELFH 704

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  354 bits (908), Expect = 7e-95,   Method: Compositional matrix adjust.
 Identities = 205/465 (44%), Positives = 277/465 (59%), Gaps = 76/465 (16%)

Query: 6   QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERP-GFDVVIWVVVSKELKL 64
           Q  QVWR LV++ VGI+GL+G GGVGKTT+L  +NN+F  +R   FD +IWVVVSK+L++
Sbjct: 163 QLEQVWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQI 222

Query: 65  ETSQDDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLP 99
           E  Q+ +                         +L  KKF+LLLDD+W+ +D + +GVP+P
Sbjct: 223 EKIQEIIGKKVGLFNDSWMKKNLAERAVDIYNVLKEKKFVLLLDDVWQRVDFATVGVPIP 282

Query: 100 SQ-KIVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKP 148
            + K  SKVVFTT S EVC          V+C +  ++W++F+  VG ETL   P I + 
Sbjct: 283 PRDKSASKVVFTTRSTEVCGRMGAHKKIEVECLSANDAWELFRQNVGEETLNGQPKILEL 342

Query: 149 AKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSF 207
           A+ VAK+CG LPLAL + GRAMA KKTP EW+DAI++L  SA +FPG+ N V   LKFS+
Sbjct: 343 AERVAKECGCLPLALIVTGRAMACKKTPAEWRDAIKVLQTSASEFPGLENNVLRVLKFSY 402

Query: 208 DRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGD 267
           D LP D  RSC L+C  FP DYRI+K +L+ + WI EG +      + +  +R ++I G+
Sbjct: 403 DSLPDDTTRSCLLYCCLFPEDYRIYKENLI-DCWIGEGFL--KVTGKYELQDRGHTILGN 459

Query: 268 LIRASLLEEEEDILEKLRDVVPSDAL---------------------------------- 293
           ++ A LLEEE D + K+ DV+    L                                  
Sbjct: 460 IVHACLLEEEGDDVVKMHDVIRDMTLWIACDTEKTEDTEKKKENYLVYEGAGLTEAPNVR 519

Query: 294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNY-LQDIKNGFFQFMPCLKVLNLSYN 352
           +W   +R+SLM  QI+ L   P+C HLLTLFL  N  L+ I   FF+ MPCLKVLNLS  
Sbjct: 520 EWENAKRLSLMETQIRNLSEVPTCLHLLTLFLVFNEELEMITGDFFKSMPCLKVLNLSGA 579

Query: 353 RFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           R ++  P G+S LVSLQHLD+S T+  ELP+EL ALE LK L++D
Sbjct: 580 RRMSSFPLGVSVLVSLQHLDLSGTAIQELPKELNALENLKSLNLD 624

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  349 bits (895), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 209/455 (45%), Positives = 275/455 (60%), Gaps = 71/455 (15%)

Query: 10  VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERP-GFDVVIWVVVSKELKLETSQ 68
           VWR LV++ VGI+GL+G GGVGKTT+L  +NN+F  +R   FD +IWVVVSK+L++E  Q
Sbjct: 157 VWRCLVEEPVGIVGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQ 216

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQ-K 102
           + +                         +L  KKF+LLLDD+W+ +D + +GVP+P + K
Sbjct: 217 EIIGKKVGFFNDSWMKKNLAERAVDIYNVLKEKKFVLLLDDVWQRVDFATVGVPIPPRDK 276

Query: 103 IVSKVVFTTHSEEVCV----------DCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMV 152
             SKVVFTT S EVCV           C +  ++W++F+  VG ETL S   I + A++V
Sbjct: 277 SASKVVFTTRSAEVCVWMGAHKKFGVGCLSANDAWELFRQNVGEETLTSDHDIAELAQIV 336

Query: 153 AKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPS 212
           A++CGGLPLAL  +G+AMAYKKT EEW+ AIE+L RSA +FPG + V    KFS+D LP 
Sbjct: 337 AEECGGLPLALITIGQAMAYKKTVEEWRHAIEVLRRSASEFPGFDNVLRVFKFSYDSLPD 396

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
           D  RSCFL+C  +P DY I K DL+ + WI EG +  +E  R  A N+ Y I G L+ A 
Sbjct: 397 DTTRSCFLYCCLYPKDYGILKWDLI-DCWIGEGFL--EESARFVAENQGYCIVGTLVDAC 453

Query: 273 LLEEEEDILEKLRDVVPSDAL----------------------------KWLGLRRMSLM 304
           LLEE ED   K+ DVV   AL                            +W  +RR+SLM
Sbjct: 454 LLEEIEDDKVKMHDVVRYMALWIVCEIEEEKRNFLVRAGAGLEQAPAVKEWENVRRLSLM 513

Query: 305 NNQIKTLLNTPSCPHLLTLFL-NDNYLQDIKNGFFQFMPCLKVLNLSY--NRFLTKLPSG 361
            N IK L   P+CP L TLFL ++N LQ I +GFF+FMP LKVL +S+  +  + KLP G
Sbjct: 514 QNDIKILSEVPTCPDLHTLFLASNNNLQRITDGFFKFMPSLKVLKMSHCGDLKVLKLPLG 573

Query: 362 ISKLVSLQHLDISFTSTLELPEELKALEKLKYLDM 396
           +S L SL+ LDIS TS  ELPEELK L  LK L++
Sbjct: 574 MSMLGSLELLDISQTSIGELPEELKLLVNLKCLNL 608

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  349 bits (895), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 209/463 (45%), Positives = 279/463 (60%), Gaps = 79/463 (17%)

Query: 6   QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE 65
           Q  +VWR LV++ VGI+GL+G GGVGKTT+L  INN+F      FD+VI VVVSK+L+LE
Sbjct: 163 QLEEVWRCLVEEPVGIVGLYGMGGVGKTTLLTHINNKFLGSPTNFDLVILVVVSKDLRLE 222

Query: 66  TSQDDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLP- 99
           + Q+ +                         IL  K F++LLDD+W+ +DL+K+G+PLP 
Sbjct: 223 SIQEVIGEKIGLLNDAWKSRRIEQKALDIFRILRGKNFVVLLDDIWQRVDLAKVGIPLPN 282

Query: 100 SQKIVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPA 149
           SQ   SKVVFTT SEEVC          V+C +  ++W++F+ KVG ETL  H  I + A
Sbjct: 283 SQTSASKVVFTTRSEEVCGLMEAHKKFKVECLSGNDAWELFRQKVGEETLNCHHDILELA 342

Query: 150 KMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFD 208
           + V K+CGGLPLAL  +GRAMA KKTPEEW  AI++L  S+ QFPG+ N+VY  LKFS+D
Sbjct: 343 QTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQVLRTSSSQFPGLGNEVYPLLKFSYD 402

Query: 209 RLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAIN-----RRYS 263
            LP+D IRSC L+C  +P D  I K +L V+ WI EG++       N ++      + Y 
Sbjct: 403 NLPNDTIRSCLLYCCLYPEDCCISKENL-VDCWIGEGLL-------NGSVTLGSHEQGYH 454

Query: 264 INGDLIRASLLEEEEDILEKLRDVV----------------------------PSDALKW 295
           + G L+ + LLEE ++   K+ DV+                              D ++W
Sbjct: 455 VVGILVHSCLLEEVDEDEVKMHDVIRDMALWLACDAEKEKENYLVYAGAGLREAPDVIEW 514

Query: 296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLN-DNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
             LRR+SLM NQI+ L   P+CPHLLTLFLN D+ L  I + F Q M  LKVLNLS    
Sbjct: 515 EKLRRLSLMENQIENLSEVPTCPHLLTLFLNSDDILWRINSDFLQSMLRLKVLNLSRYMG 574

Query: 355 LTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           L  LP GISKLVSL++LD+S +   E+PEELKAL  LK L+++
Sbjct: 575 LLVLPLGISKLVSLEYLDLSTSLISEIPEELKALVNLKCLNLE 617

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225443158|ref|XP_002263674.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  347 bits (889), Expect = 9e-93,   Method: Compositional matrix adjust.
 Identities = 226/536 (42%), Positives = 308/536 (57%), Gaps = 100/536 (18%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           +VW  L ++ V IIGL+G GGVGKTT++ Q+NN F      FD+VIWVVVS++   E  Q
Sbjct: 164 EVWSCLREEQVQIIGLYGMGGVGKTTLMTQVNNEFLKTIHQFDIVIWVVVSRDPNPEKVQ 223

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
           D++                         IL  KKF+L LDD+WE  DL K+G+PLP+Q+ 
Sbjct: 224 DEIWKKVGFCDDKWKSKSQDEKAISIFRILGKKKFVLFLDDVWERFDLLKVGIPLPNQQN 283

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
            SK+VFTT SEEVC          V+C   +++W +FQ  VG +TL SHP I + A+ + 
Sbjct: 284 NSKLVFTTRSEEVCGRMGAHRRIKVECLAWKQAWDLFQNMVGEDTLNSHPEIPQLAETIV 343

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPS 212
           K+C GLPLAL   GR MA KK P+EWK AI++L  S+  FPG+ ++V+  LKFS+D LPS
Sbjct: 344 KECLGLPLALVTTGRTMACKKAPQEWKFAIKMLQSSSSSFPGMRDEVFSLLKFSYDNLPS 403

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEF-DRNKAINRRYSINGDLIRA 271
           D  RSCFL+CS +P D  I K DL ++ WI EG +  DEF DR+ A N+ + I G LIRA
Sbjct: 404 DTARSCFLYCSLYPEDNDIFKEDL-IDCWICEGFL--DEFDDRDGARNQGFDIIGSLIRA 460

Query: 272 SLLEEEEDILEKLRDVVPSDAL----------------------------KWLGLRRMSL 303
            LLEE  +   K+ DV+   AL                            KW G+ RMSL
Sbjct: 461 CLLEESREYFVKMHDVIRDMALWIACECGRVKDKFLVQAGAGLTELPEIGKWKGVERMSL 520

Query: 304 MNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS 363
           M+N I+ L   P+CP+LLTLFLN+N L+ I +GFFQ MP L+VLNLS++R +++LP+ I 
Sbjct: 521 MSNHIEKLTQVPTCPNLLTLFLNNNSLEVITDGFFQLMPRLQVLNLSWSR-VSELPTEIF 579

Query: 364 KLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV--------------------- 402
           +LVSL++LD+S+T    LP E K L  LKYL++D  QQ+                     
Sbjct: 580 RLVSLRYLDLSWTCISHLPNEFKNLVNLKYLNLDYTQQLGIIPRHVVSSMSRLQVLKMFH 639

Query: 403 -----MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRL 453
                + E N  SD  E+L+ E+ CL  L  + +T  S  +L      +CL S ++
Sbjct: 640 CGFYGVGEDNVLSDGNEALVNELECLNNLCDLNITIRSASAL-----QRCLCSEKI 690

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|408683737|gb|AFM77964.2| NBS-LRR disease resistance protein NBS39 [Dimocarpus longan]

 Score =  344 bits (883), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 198/432 (45%), Positives = 259/432 (59%), Gaps = 71/432 (16%)

Query: 7   FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLET 66
           F  VWR+L +K VG+IGL+G GGVGKTT+L QINN+F      FD+V+WVVVSK+L+LE 
Sbjct: 114 FDAVWRYLGEKQVGVIGLYGMGGVGKTTLLTQINNKFVDVSNDFDIVMWVVVSKDLQLEK 173

Query: 67  SQDDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQ 101
            Q+++                         IL  K+F+LLLDD+WE +DL K+GVP  S 
Sbjct: 174 IQENIGRKIGLSDESWRSKSLEEKAMDIFKILRRKRFVLLLDDIWERVDLVKVGVPPLSS 233

Query: 102 K-----IVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIH 146
                   SKVVFTT   EVC          V+C   +E+W++F+ KVG + L +HP I 
Sbjct: 234 PPLSSSFTSKVVFTTRFVEVCGHMEAHRKLKVECLADEEAWKLFRSKVGGDALDNHPEIP 293

Query: 147 KPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINK-VYYRLKF 205
           + A+  AK+CGGLPLAL  +GRAMA KKTP EW+ AIE+L RSA +FPG+ K VY  LKF
Sbjct: 294 ELAQTAAKECGGLPLALITIGRAMACKKTPAEWRYAIEVLRRSAHEFPGLGKEVYPLLKF 353

Query: 206 SFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSIN 265
           S+D LPS  +R+C L+CS FP DY I K+ L ++ WI EG + DD+    +   + +   
Sbjct: 354 SYDSLPSCTLRACLLYCSLFPEDYNIPKKHL-IDCWIGEGFLGDDDVGGTQYQGQHHV-- 410

Query: 266 GDLIRASLLEEEEDILEKLRDVVPSDAL---------------------------KWLGL 298
           G L+ A LLEEE+D   K+ DV+    L                           +W G+
Sbjct: 411 GVLLHACLLEEEDDDFVKMHDVIRDMTLWLACEFDKEKENFLVRAGTGMTEPGVGRWEGV 470

Query: 299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKL 358
           RR+SLM NQI +L  +P+CPHLLTLFLN N L  I +GFF +M  L+VLNLS N  L +L
Sbjct: 471 RRISLMENQINSLSGSPTCPHLLTLFLNRNDLSSITDGFFAYMSSLRVLNLSNNDSLREL 530

Query: 359 PSGISKLVSLQH 370
           P+ ISKLVSL  
Sbjct: 531 PAEISKLVSLHQ 542

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482672|ref|XP_003632805.1| PREDICTED: probable disease resistance protein At1g12280-like [Vitis vinifera]

 Score =  341 bits (875), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 219/460 (47%), Positives = 288/460 (62%), Gaps = 72/460 (15%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           +VW  L ++ VGIIGL+G GGVGKTT+L QINN F      FD VIW  VSK + LE  Q
Sbjct: 164 KVWSSLHQEQVGIIGLYGLGGVGKTTLLTQINNAFTKRTHDFDFVIWATVSKNVNLENIQ 223

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
           DD+                         +LS K+F+LLLDDLWE +DLS +GVP  ++K 
Sbjct: 224 DDIWKKIGFCDDKWKNKSRDEKATSIWRVLSEKRFVLLLDDLWERLDLSDVGVPFQNKK- 282

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
            +K+VFTT SEEVC          V+C T  ESW++F+MK+G +TL  HP I + A+ VA
Sbjct: 283 -NKIVFTTRSEEVCAQMEADKKIKVECLTWTESWELFRMKLGEDTLDFHPEIPELAQAVA 341

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPS 212
           ++C GLPL LT +GRAMA KKTPEEWK AI++L  SA +FPG+ ++V+  LK+S+D LP+
Sbjct: 342 QECCGLPLVLTTMGRAMACKKTPEEWKYAIKVLRSSASKFPGMGDRVFPLLKYSYDCLPT 401

Query: 213 DQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEF-DRNKAINRRYSINGDLIRA 271
           +  RSCFL+CS +P DY++ K  L +N WI EG +  DEF D   A N+ Y+I G LI A
Sbjct: 402 EVSRSCFLYCSLYPEDYQMPKLSL-INRWICEGFL--DEFDDMEGAKNQGYNIIGTLIHA 458

Query: 272 SLLEEEE-DILEKLRDVVPSDAL----------------------------KWLGLRRMS 302
            LLEE + D   KL DV+   AL                            +W+G +R+S
Sbjct: 459 CLLEEGDVDYKVKLHDVIRDMALWIGCETGKEQDKFLVKAGSTLTEAPEVAEWMGPKRIS 518

Query: 303 LMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI 362
           LM+NQI+ L  +P CP+L TLFL DN L+ I + FFQFMP L+VL+LS N  +T+LP GI
Sbjct: 519 LMDNQIEELTGSPKCPNLSTLFLADNSLKMISDTFFQFMPSLRVLDLSKNS-ITELPRGI 577

Query: 363 SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
           S LVSLQ+L++S T+  ELP ELK L+KLK L + D  Q+
Sbjct: 578 SNLVSLQYLNLSQTNIKELPIELKNLDKLKCLVLVDMPQL 617

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461865|gb|AAN62352.1|AF506028_19 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  330 bits (847), Expect = 8e-88,   Method: Compositional matrix adjust.
 Identities = 220/457 (48%), Positives = 274/457 (59%), Gaps = 69/457 (15%)

Query: 6   QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE 65
           QF QV   L ++   I+GL+G GGVGKTT+L  I+N+F      F+ VIWVV SK+L+LE
Sbjct: 162 QFEQVCNCLEEESARIVGLYGMGGVGKTTLLTHIHNKFIQSPTNFNYVIWVVASKDLRLE 221

Query: 66  TSQDDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPS 100
             Q+ +                         IL  KKFLLLLDDLW+ +DL+K+GVPLP 
Sbjct: 222 NIQETIGEQIGLLNDTWKNKRIEQKAQDIFRILKQKKFLLLLDDLWQRVDLTKVGVPLPG 281

Query: 101 -QKIVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPA 149
            Q   SKVVFTT SEEVC          V C +  ++W++F+  VG ET+ SHP I + A
Sbjct: 282 PQNNASKVVFTTRSEEVCGLMGAHTRFKVACLSNIDAWELFRQNVGEETMNSHPDILQLA 341

Query: 150 KMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFD 208
           +  A++CGGLPLAL  +GRAMA KKTPEEW  AIE+L  S+ QFPG+ N+VY  LKFS+D
Sbjct: 342 QTAARECGGLPLALITIGRAMACKKTPEEWSYAIEVLRTSSSQFPGLGNEVYPLLKFSYD 401

Query: 209 RLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDL 268
            LPSD IRSC L+CS +P DY I K  L+ + WI E ++   E DR       Y I G L
Sbjct: 402 SLPSDTIRSCHLYCSLYPEDYCISKEKLI-DCWIGERLL--TERDRTGEQKEGYHILGIL 458

Query: 269 IRASLLEEEEDILEKLRDVVPSDAL----------------------------KWLGLRR 300
           + A LLEE  D   K+ DV+   AL                             W   RR
Sbjct: 459 LHACLLEEGGDGEVKMHDVIRDMALWIACDIEREKENFFVYAGVGLVEAPDVRGWEKARR 518

Query: 301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           +SLM NQI+ L   P+CPHLLTL LN+N L+ I+N FFQFMP LKVLNLS+   LTKLP 
Sbjct: 519 LSLMQNQIRNLSEIPTCPHLLTLLLNENNLRKIQNYFFQFMPSLKVLNLSHCE-LTKLPV 577

Query: 361 GISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           GIS+LVSLQHLD+S +   E P ELKAL  LK LD++
Sbjct: 578 GISELVSLQHLDLSESDIEEFPGELKALVNLKCLDLE 614

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15221277|ref|NP_172692.1| LRR and NB-ARC domain-containing disease resistance protein [Arabidopsis thaliana] gi|46395647|sp|P60838.1|DRL1_ARATH RecName: Full=Probable disease resistance protein At1g12280 gi|332190740|gb|AEE28861.1| LRR and NB-ARC domain-containing disease resistance protein [Arabidopsis thaliana]

 Score =  328 bits (840), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 193/455 (42%), Positives = 263/455 (57%), Gaps = 68/455 (14%)

Query: 9   QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ 68
           +VW  L +    I+GL+G GGVGKTT+L +INN+F  +  GF VVIWVVVSK   +   Q
Sbjct: 166 RVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQ 225

Query: 69  DDM-------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
            D+                         +L  +KF+LLLDD+WE ++L  +GVP PS++ 
Sbjct: 226 GDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQN 285

Query: 104 VSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVA 153
             KVVFTT S +VC          V C  P E+W++FQMKVG  TL  HP I + A+ VA
Sbjct: 286 GCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVA 345

Query: 154 KDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSD 213
             C GLPLAL ++G  MA K+  +EW++AI++L   A +FPG+ ++   LK+S+D L  +
Sbjct: 346 GKCCGLPLALNVIGETMACKRMVQEWRNAIDVLSSYAAEFPGMEQILPILKYSYDNLNKE 405

Query: 214 QIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASL 273
           Q++ CFL+CS FP DYR+ K  L ++YWI EG I D+   R +A+++ Y I G L+RA L
Sbjct: 406 QVKPCFLYCSLFPEDYRMEKERL-IDYWICEGFI-DENESRERALSQGYEIIGILVRACL 463

Query: 274 LEEEEDILE--KLRDVVPSDAL----------------------------KWLGLRRMSL 303
           L EE    E  K+ DVV   AL                             W  +RRMSL
Sbjct: 464 LLEEAINKEQVKMHDVVREMALWIASDLGEHKERCIVQVGVGLREVPKVKNWSSVRRMSL 523

Query: 304 MNNQIKTLLNTPSCPHLLTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI 362
           M N+I+ L  +P C  L TLFL  N  L  I + FF+ +P L VL+LS N  L KLP+ I
Sbjct: 524 MENEIEILSGSPECLELTTLFLQKNDSLLHISDEFFRCIPMLVVLDLSGNSSLRKLPNQI 583

Query: 363 SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           SKLVSL++LD+S+T    LP  L+ L+KL+YL +D
Sbjct: 584 SKLVSLRYLDLSWTYIKRLPVGLQELKKLRYLRLD 618

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	483
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.486	0.264	0.415	2.8e-72
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.409	0.221	0.461	7.1e-72
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.409	0.232	0.459	7.5e-71
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.409	0.223	0.448	7.7e-70
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.459	0.291	0.411	1.1e-69
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.409	0.222	0.483	5.3e-68
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.459	0.246	0.406	6.5e-67
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.412	0.205	0.433	4.9e-65
TAIR|locus:2170902	862	AT5G43740 [Arabidopsis thalian	0.432	0.242	0.426	2.1e-64
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.457	0.247	0.407	2.2e-64

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

 Score = 491 (177.9 bits), Expect = 2.8e-72, Sum P(3) = 2.8e-72
 Identities = 105/253 (41%), Positives = 154/253 (60%)

Query:    55 WVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSE 114
             W   ++++K     +  +L  K+F+LLLDD+W  +DL+++GVP PS++   K+VFTT  +
Sbjct:   237 WKQKTEDIKASNIYN--VLKHKRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLK 294

Query:   115 EVC----VD------CFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT 164
             E+C    VD      C  P ++W +F  KVG  TL SHP I   A+ VAK C GLPLAL 
Sbjct:   295 EICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALN 354

Query:   165 IVGRAMAYKKTPEEWKDAIEILMRSALQFPGI-NKVYYRLKFSFDRLPSDQIRSCFLFCS 223
             ++G  MAYK+T +EW+ AI++L  SA +F G+ +++   LK+S+D L S+Q++ CF +C+
Sbjct:   355 VIGETMAYKRTVQEWRSAIDVLTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCA 414

Query:   224 PFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASXXXXXXXXXXX 283
              FP D+ I K DLV +YWI EG I  D  ++ KA N+ Y I G L+R+            
Sbjct:   415 LFPEDHNIEKNDLV-DYWIGEGFI--DR-NKGKAENQGYEIIGILVRSCLLMEENQETVK 470

Query:   284 XRDVVPSDALKWL 296
               DVV   AL W+
Sbjct:   471 MHDVVREMAL-WI 482

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 497 (180.0 bits), Expect = 7.1e-72, Sum P(3) = 7.1e-72
 Identities = 97/210 (46%), Positives = 139/210 (66%)

Query:    72 ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----------VDCF 121
             +L  +KF+LLLDD+WE ++L  +GVP PS++   KVVFTT S +VC          V C 
Sbjct:   254 VLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCL 313

Query:   122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKD 181
              P E+W++FQMKVG  TL  HP I + A+ VA  C GLPLAL ++G  MA K+  +EW++
Sbjct:   314 EPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRN 373

Query:   182 AIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYW 241
             AI++L   A +FPG+ ++   LK+S+D L  +Q++ CFL+CS FP DYR+ K  L+ +YW
Sbjct:   374 AIDVLSSYAAEFPGMEQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLI-DYW 432

Query:   242 IDEGIILDDEFDRNKAINRRYSINGDLIRA 271
             I EG I D+   R +A+++ Y I G L+RA
Sbjct:   433 ICEGFI-DENESRERALSQGYEIIGILVRA 461

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 468 (169.8 bits), Expect = 7.5e-71, Sum P(3) = 7.5e-71
 Identities = 97/211 (45%), Positives = 138/211 (65%)

Query:    72 ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----------VDCF 121
             IL+ KKF+LLLDDLW  +DL KIGVP  +++  SK+VFTT S++VC          VDC 
Sbjct:   251 ILNVKKFVLLLDDLWSEVDLEKIGVPPLTRENGSKIVFTTRSKDVCRDMEVDGEMKVDCL 310

Query:   122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKD 181
              P E+W++FQ KVG   L SH  I   A+ VA+ C GLPLAL+++G+AMA ++T +EW+ 
Sbjct:   311 PPDEAWELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQH 370

Query:   182 AIEILMRSALQFPGIN-KVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNY 240
              I +L  S+ +FP +  K+   LKFS+D L  ++++ CFL+CS FP DY + K +L+  Y
Sbjct:   371 VIHVLNSSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELI-EY 429

Query:   241 WIDEGIILDDEFDRNKAINRRYSINGDLIRA 271
             W+ EG I D   D + A N+ + I G L+RA
Sbjct:   430 WMCEGFI-DGNEDEDGANNKGHDIIGSLVRA 459

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 455 (165.2 bits), Expect = 7.7e-70, Sum P(3) = 7.7e-70
 Identities = 95/212 (44%), Positives = 136/212 (64%)

Query:    72 ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----VD------CF 121
             +L  KKF+LLLDD+WE ++L  IGVP PS +   KV FTTHS+EVC    VD      C 
Sbjct:   254 VLRRKKFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCL 313

Query:   122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKD 181
                 +W + + KVG  TL SHP I + A+ V++ C GLPLAL ++G  M++K+T +EW+ 
Sbjct:   314 DTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRH 373

Query:   182 AIEILMRSALQFPGI-NKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNY 240
             A E+L  SA  F G+ +++   LK+S+D L  +  +SCFL+CS FP D+ I K ++++ Y
Sbjct:   374 ATEVLT-SATDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRK-EMLIEY 431

Query:   241 WIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
             WI EG I + +  R KA N+ Y I G L+R+S
Sbjct:   432 WICEGFIKEKQ-GREKAFNQGYDILGTLVRSS 462

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

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

 Score = 453 (164.5 bits), Expect = 1.1e-69, Sum P(3) = 1.1e-69
 Identities = 97/236 (41%), Positives = 143/236 (60%)

Query:    72 ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----------VDCF 121
             +L  K+F+L+LDD+WE +DL  IGVP PS+    KV FTT  ++VC          V C 
Sbjct:   139 VLKGKRFVLMLDDIWEKVDLEAIGVPYPSEVNKCKVAFTTRDQKVCGEMGDHKPMQVKCL 198

Query:   122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKD 181
              P+++W++F+ KVG+ TL S P I + A+ VA+ C GLPLAL+++G  MA K   +EW+ 
Sbjct:   199 EPEDAWELFKNKVGDNTLRSDPVIVELAREVAQKCRGLPLALSVIGETMASKTMVQEWEH 258

Query:   182 AIEILMRSALQFPGI-NKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNY 240
             AI++L RSA +F  + NK+   LK+S+D L  + I+SCFL+C+ FP D  I+   L+ +Y
Sbjct:   259 AIDVLTRSAAEFSNMGNKILPILKYSYDSLGDEHIKSCFLYCALFPEDDEIYNEKLI-DY 317

Query:   241 WIDEGIILDDEFDRNKAINRRYSINGDLIRASXXXXXXXXXXXXRDVVPSDALKWL 296
             WI EG I +D+  + +A N+ Y + G L  A+             DVV   AL W+
Sbjct:   318 WICEGFIGEDQVIK-RARNKGYEMLGTLTLANLLTKVGTEHVVMHDVVREMAL-WI 371

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 494 (179.0 bits), Expect = 5.3e-68, Sum P(3) = 5.3e-68
 Identities = 102/211 (48%), Positives = 137/211 (64%)

Query:    72 ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----------VDCF 121
             +L  +KF+LLLDD+WE ++L  +GVP PS+    KV FTT S +VC          V C 
Sbjct:   254 VLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCL 313

Query:   122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKD 181
              P+ESW +FQMKVG  TL SHP I   A+ VA+ C GLPLAL ++G AMA K+T  EW  
Sbjct:   314 QPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCH 373

Query:   182 AIEILMRSALQFPGI-NKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNY 240
             AI++L  SA+ F G+ +++ + LK+S+D L  + ++SCFL+CS FP DY I K  LV +Y
Sbjct:   374 AIDVLTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLV-DY 432

Query:   241 WIDEGIILDDEFDRNKAINRRYSINGDLIRA 271
             WI EG I + E  R + IN+ Y I G L+RA
Sbjct:   433 WISEGFINEKE-GRERNINQGYEIIGTLVRA 462

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

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

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

 Score = 450 (163.5 bits), Expect = 6.5e-67, Sum P(3) = 6.5e-67
 Identities = 96/236 (40%), Positives = 142/236 (60%)

Query:    72 ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----------VDCF 121
             +L  K+F+L+LDD+WE +DL  IG+P PS+    KV FTT S EVC          V+C 
Sbjct:   250 VLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCL 309

Query:   122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKD 181
              P+++W++F+ KVG+ TL S P I + A+ VA+ C GLPLAL ++G  M+ K   +EW+ 
Sbjct:   310 EPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTMVQEWEH 369

Query:   182 AIEILMRSALQFPGI-NKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNY 240
             AI +   SA +F  + NK+   LK+S+D L  + I+SCFL+C+ FP D  I+   L+ +Y
Sbjct:   370 AIHVFNTSAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYNEKLI-DY 428

Query:   241 WIDEGIILDDEFDRNKAINRRYSINGDLIRASXXXXXXXXXXXXRDVVPSDALKWL 296
             WI EG I +D+  + +A N+ Y++ G L RA+             DVV   AL W+
Sbjct:   429 WICEGFIGEDQVIK-RARNKGYAMLGTLTRANLLTKVGTYYCVMHDVVREMAL-WI 482

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 442 (160.7 bits), Expect = 4.9e-65, Sum P(3) = 4.9e-65
 Identities = 92/212 (43%), Positives = 136/212 (64%)

Query:    72 ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----------VDCF 121
             +L  K+F+L+LDD+WE +DL  IG+P PS+    KV FTT  ++VC          V C 
Sbjct:   251 VLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQMGDHKPMQVKCL 310

Query:   122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKD 181
              P+++W++F+ KVG+ TL S P I   A+ VA+ C GLPLAL+ +G  MA K   +EW+ 
Sbjct:   311 EPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETMASKTMVQEWEH 370

Query:   182 AIEILMRSALQFPGI-NKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNY 240
             AI++L RSA +F  + NK+   LK+S+D L  + I+SCFL+C+ FP D +I  + L+ N 
Sbjct:   371 AIDVLTRSAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPEDDKIDTKTLI-NK 429

Query:   241 WIDEGIILDDEFDRNKAINRRYSINGDLIRAS 272
             WI EG I +D+  + +A N+ Y + G LIRA+
Sbjct:   430 WICEGFIGEDQVIK-RARNKGYEMLGTLIRAN 460

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170902 AT5G43740 [Arabidopsis thaliana (taxid:3702)]

 Score = 439 (159.6 bits), Expect = 2.1e-64, Sum P(3) = 2.1e-64
 Identities = 96/225 (42%), Positives = 140/225 (62%)

Query:    61 ELKLETSQDDMI---LSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC 117
             E + E+ +  +I   L  KKF+LLLDDLW  +D++KIGVP P+++  SK+VFTT S EVC
Sbjct:   234 ERETESKKASLIYNNLERKKFVLLLDDLWSEVDMTKIGVPPPTRENGSKIVFTTRSTEVC 293

Query:   118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVG 167
                       V C +P E+W++F++ VG+  L SH  I   A++VA  C GLPLAL ++G
Sbjct:   294 KHMKADKQIKVACLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIG 353

Query:   168 RAMAYKKTPEEWKDAIEILMRSALQFPGIN-KVYYRLKFSFDRLPSDQIRSCFLFCSPFP 226
             +AM+ K+T +EW  AI +L  +  +FPG+  ++   LKFS+D L + +I+ CFL+CS FP
Sbjct:   354 KAMSCKETIQEWSHAINVLNSAGHEFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFP 413

Query:   227 GDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRA 271
              D  I K   +  YWI EG I  + ++ +   N  Y I G L+RA
Sbjct:   414 EDSEIPKEKWI-EYWICEGFINPNRYE-DGGTNHGYDIIGLLVRA 456

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 444 (161.4 bits), Expect = 2.2e-64, Sum P(3) = 2.2e-64
 Identities = 97/238 (40%), Positives = 146/238 (61%)

Query:    46 ERPGFDVVIWVVVSKELKLETSQDDM-ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIV 104
             E+ GF    W   +K+ + + + D +  LS K+F+LLLDD+W+ +DL+KIG+P  +++  
Sbjct:   227 EKLGFIGKEW---NKKQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTRENK 283

Query:   105 SKVVFTTHSEEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAK 154
              KVVFTT S +VC          V C +  ++W++FQ KVG  +L SHP I + AK VA 
Sbjct:   284 CKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHPDILELAKKVAG 343

Query:   155 DCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINK-VYYRLKFSFDRLPSD 213
              C GLPLAL ++G  MA K+  +EW  A+++L   A +F G++  +   LK+S+D L   
Sbjct:   344 KCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGMDDHILLILKYSYDNLNDK 403

Query:   214 QIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRA 271
              +RSCF +C+ +P DY I K  L+ +YWI EG I D    + +A+N+ Y I G L+RA
Sbjct:   404 HVRSCFQYCALYPEDYSIKKYRLI-DYWICEGFI-DGNIGKERAVNQGYEILGTLVRA 459

GO:0000166 "nucleotide binding" evidence=IEA

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

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

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

Your Input: fgenesh4_pm.C_LG_I001004 cc-nbs-lrr resistance protein (880 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	483
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-66
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	7e-09
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	4e-08
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	4e-05
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.002
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.003
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	0.003

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

 Score =  215 bits (549), Expect = 1e-66
 Identities = 98/277 (35%), Positives = 142/277 (51%), Gaps = 41/277 (14%)

Query: 9   QVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLET 66
            +   L++   ++G++G+ G GGVGKTT+ KQI N        FD V WVVVSK      
Sbjct: 7   ALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGG-HFDSVAWVVVSKTYTEFR 65

Query: 67  SQDDMI-------------------------LSTKKFLLLLDDLWETIDLSKIGVPLPSQ 101
            Q D++                         L  K+FLL+LDD+WE  D  KIGVP P  
Sbjct: 66  LQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFPDG 125

Query: 102 KIVSKVVFTTHSEEVC-----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAK 150
           +  S+V+ TT SE V            V+   P+ESW++F  KV  + L   P + + AK
Sbjct: 126 ENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAK 185

Query: 151 MVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRL 210
            + + C GLPLAL ++G  +A+K T +EW+  +E L        G+N+V   L  S+D L
Sbjct: 186 EIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSLSYDNL 245

Query: 211 PSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGII 247
           P   ++ CFL+ + FP DY I K + ++  WI EG +
Sbjct: 246 PMH-LKRCFLYLALFPEDYNIRK-EQLIKLWIAEGFV 280

Length = 285

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

 Score = 57.3 bits (138), Expect = 7e-09
 Identities = 44/174 (25%), Positives = 76/174 (43%), Gaps = 18/174 (10%)

Query: 297 GLRRMSLMNNQIKTLL-NTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
            L+ + L +N+I++L     + P+L  L L+ N L D+       +  L  L+LS N+ +
Sbjct: 141 NLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSN-LSNLNNLDLSGNK-I 198

Query: 356 TKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAES 415
           + LP  I  L +L+ LD+S  S +EL   L  L+ L  L++ +++           D   
Sbjct: 199 SDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLE---------DLPE 249

Query: 416 LLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLT------SRRLNLEVEDWHKC 463
            +  +  LE L++      S+ SL  L  ++ L       S  L L        
Sbjct: 250 SIGNLSNLETLDLSNNQISSISSLGSLTNLRELDLSGNSLSNALPLIALLLLLL 303

Length = 394

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

 Score = 49.5 bits (119), Expect = 4e-08
 Identities = 24/59 (40%), Positives = 36/59 (61%)

Query: 319 HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
           +L +L L++N L  I +G F+ +P LKVL+LS N   +  P   S L SL+ LD+S  +
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNN 59

Length = 60

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

 Score = 41.0 bits (97), Expect = 4e-05
 Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 297 GLRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
            L+ + L NN++  + +      P+L  L L+ N L  I    F  +P L+ L+LS N  
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 40.6 bits (95), Expect = 0.002
 Identities = 28/110 (25%), Positives = 47/110 (42%), Gaps = 2/110 (1%)

Query: 267 DLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLL--NTPSCPHLLTLF 324
           D   +  LE  +    +    VP        L ++ L  N++   +     SC  L++L 
Sbjct: 470 DSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLD 529

Query: 325 LNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS 374
           L+ N L       F  MP L  L+LS N+   ++P  +  + SL  ++IS
Sbjct: 530 LSHNQLSGQIPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNIS 579

Length = 968

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

 Score = 35.6 bits (83), Expect = 0.003
 Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 3/57 (5%)

Query: 344 LKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           LK L+LS NR LT +P G    L +L+ LD+S  +   +  E    L  L+ LD+  
Sbjct: 2   LKSLDLSNNR-LTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSG 57

Length = 60

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

 Score = 39.8 bits (93), Expect = 0.003
 Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 7/74 (9%)

Query: 334 KNGFFQFMP------CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELK 386
           +N FF  +P       L+ L+LS N+F   +P  +  L  L  L +S    + E+P+EL 
Sbjct: 461 RNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELS 520

Query: 387 ALEKLKYLDMDDHQ 400
           + +KL  LD+  +Q
Sbjct: 521 SCKKLVSLDLSHNQ 534

Length = 968

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	483
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	100.0
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.58
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.54
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.5
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.49
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.48
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.48
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.47
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.4
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.31
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.23
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	99.19
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.19
PRK04841	903	transcriptional regulator MalT; Provisional	99.19
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.12
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	99.11
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.1
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.09
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.08
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.07
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.03
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.02
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.01
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.01
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.0
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.0
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.0
PF05729	166	NACHT: NACHT domain	99.0
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	99.0
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.99
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.9
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.89
COG3899	849	Predicted ATPase [General function prediction only	98.89
PRK13342	413	recombination factor protein RarA; Reviewed	98.88
PRK04195	482	replication factor C large subunit; Provisional	98.86
PLN03025	319	replication factor C subunit; Provisional	98.85
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.85
PRK06893	229	DNA replication initiation factor; Validated	98.82
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.82
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.82
PLN03150	623	hypothetical protein; Provisional	98.81
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.81
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.8
PRK12402	337	replication factor C small subunit 2; Reviewed	98.79
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.79
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.79
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.79
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.78
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.77
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.75
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.75
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.75
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.74
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.73
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.72
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.71
PF13173	128	AAA_14: AAA domain	98.7
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.7
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.69
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.68
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.68
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.68
KOG2028	554	consensus ATPase related to the helicase subunit o	98.68
PLN03150	623	hypothetical protein; Provisional	98.67
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.66
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.65
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.64
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.64
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.64
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.64
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.63
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.61
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.61
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.61
PRK08727	233	hypothetical protein; Validated	98.6
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.58
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.57
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.57
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.57
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.56
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.55
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.54
PRK13341	725	recombination factor protein RarA/unknown domain f	98.54
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.53
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.52
PRK08084	235	DNA replication initiation factor; Provisional	98.52
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.51
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.5
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.49
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.48
cd01128	249	rho_factor Transcription termination factor rho is	98.47
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.46
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.46
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.45
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.44
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.43
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.43
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.42
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.41
PRK09376	416	rho transcription termination factor Rho; Provisio	98.41
COG3903	414	Predicted ATPase [General function prediction only	98.39
PRK05642	234	DNA replication initiation factor; Validated	98.36
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.36
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.35
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.34
PRK09087	226	hypothetical protein; Validated	98.31
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.3
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.27
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.26
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.25
PF14516	331	AAA_35: AAA-like domain	98.25
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.24
PHA02544	316	44 clamp loader, small subunit; Provisional	98.24
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.24
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.23
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.22
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.21
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	98.21
PRK10865	857	protein disaggregation chaperone; Provisional	98.19
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.18
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.16
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.16
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.15
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.13
TIGR00767	415	rho transcription termination factor Rho. Members	98.09
PRK06620	214	hypothetical protein; Validated	98.09
CHL00095	821	clpC Clp protease ATP binding subunit	98.08
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.07
CHL00181	287	cbbX CbbX; Provisional	98.06
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.06
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	98.05
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.05
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.05
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.03
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.01
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	98.01
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.0
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.99
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.98
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.98
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.97
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.97
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.96
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.95
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.95
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.95
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.93
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.92
CHL00176	638	ftsH cell division protein; Validated	97.91
PRK15386	426	type III secretion protein GogB; Provisional	97.86
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.86
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.84
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.83
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.82
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.81
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.79
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.79
PRK15386	426	type III secretion protein GogB; Provisional	97.78
PRK10536	262	hypothetical protein; Provisional	97.78
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.76
PTZ00202	550	tuzin; Provisional	97.75
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.74
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.73
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.71
PF00004	132	AAA: ATPase family associated with various cellula	97.71
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.7
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.68
smart00382	148	AAA ATPases associated with a variety of cellular	97.67
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.65
PRK08118	167	topology modulation protein; Reviewed	97.64
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.63
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.61
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.6
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.58
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.58
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.57
PRK12422	445	chromosomal replication initiation protein; Provis	97.57
PRK07261	171	topology modulation protein; Provisional	97.56
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.56
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.55
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.55
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.54
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.53
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.53
PRK08181	269	transposase; Validated	97.52
PRK08116	268	hypothetical protein; Validated	97.52
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.5
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.47
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.46
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.46
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.45
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.44
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.43
CHL00195	489	ycf46 Ycf46; Provisional	97.43
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.42
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.4
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.39
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.38
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.37
PRK06696	223	uridine kinase; Validated	97.37
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.37
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.36
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.34
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.33
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.32
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.32
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.32
PRK04132	846	replication factor C small subunit; Provisional	97.31
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.31
PRK06921	266	hypothetical protein; Provisional	97.3
PRK09183	259	transposase/IS protein; Provisional	97.29
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.29
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.29
PRK06526	254	transposase; Provisional	97.27
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.27
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.26
PRK07952	244	DNA replication protein DnaC; Validated	97.26
CHL00095	821	clpC Clp protease ATP binding subunit	97.25
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.24
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.2
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.19
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.18
PRK12377	248	putative replication protein; Provisional	97.17
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.16
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.16
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.14
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.13
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.12
PRK06547	172	hypothetical protein; Provisional	97.1
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.09
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.07
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.06
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.05
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.05
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.04
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.04
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.03
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.02
PRK13531	498	regulatory ATPase RavA; Provisional	97.02
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.01
PRK12608	380	transcription termination factor Rho; Provisional	97.0
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.0
PRK10865	857	protein disaggregation chaperone; Provisional	96.99
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.98
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	96.97
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.96
PRK06835	329	DNA replication protein DnaC; Validated	96.93
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.93
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.92
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.91
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.91
PHA00729	226	NTP-binding motif containing protein	96.91
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.9
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.88
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.88
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.86
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.84
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.83
PRK08939	306	primosomal protein DnaI; Reviewed	96.8
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.77
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.77
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.77
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.76
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.73
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.72
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.69
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.65
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.64
PRK15455	644	PrkA family serine protein kinase; Provisional	96.63
PRK08233	182	hypothetical protein; Provisional	96.61
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.58
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.58
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.58
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.56
PTZ00301	210	uridine kinase; Provisional	96.55
PRK07667	193	uridine kinase; Provisional	96.53
PRK05541	176	adenylylsulfate kinase; Provisional	96.53
PRK06762	166	hypothetical protein; Provisional	96.52
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.5
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	96.5
PRK05480	209	uridine/cytidine kinase; Provisional	96.49
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.49
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.46
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.42
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.42
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.41
PRK03839	180	putative kinase; Provisional	96.37
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	96.34
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.34
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.33
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.32
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.32
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.31
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.31
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.31
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.3
PRK09354	349	recA recombinase A; Provisional	96.29
PF13245	76	AAA_19: Part of AAA domain	96.28
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.27
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.26
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.26
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.25
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.25
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.24
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.23
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.23
cd02117	212	NifH_like This family contains the NifH (iron prot	96.22
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.21
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.21
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.2
PRK04040	188	adenylate kinase; Provisional	96.19
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.19
PRK00625	173	shikimate kinase; Provisional	96.18
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.18
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.17
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.16
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.13
TIGR01287	275	nifH nitrogenase iron protein. This model describe	96.13
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.13
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.1
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.09
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.08
PRK06217	183	hypothetical protein; Validated	96.08
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.08
PRK04296	190	thymidine kinase; Provisional	96.07
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.07
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.07
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.07
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.05
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.05
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.04
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.04
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.03
PRK00131	175	aroK shikimate kinase; Reviewed	96.02
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.02
PRK13236	296	nitrogenase reductase; Reviewed	96.02
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.01
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.01
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.01
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.0
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.0
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.0
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.99
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.99
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.99
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.99
PRK07276	290	DNA polymerase III subunit delta'; Validated	95.99
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.99
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	95.99
PF07726	131	AAA_3: ATPase family associated with various cellu	95.98
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	95.97
PRK08149	428	ATP synthase SpaL; Validated	95.97
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.97
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.97
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	95.97
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.96
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.95
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.93
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.93
PRK04328	249	hypothetical protein; Provisional	95.93
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.92
PRK05439	311	pantothenate kinase; Provisional	95.92
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	95.91
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.91
PRK06936	439	type III secretion system ATPase; Provisional	95.89
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.89
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.89
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.86
PRK13235	274	nifH nitrogenase reductase; Reviewed	95.85
PRK07594	433	type III secretion system ATPase SsaN; Validated	95.85
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.85
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.84
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.83
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.81
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.81
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.8
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.8
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.79
PRK13947	171	shikimate kinase; Provisional	95.78
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.78
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.78
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.78
PRK13232	273	nifH nitrogenase reductase; Reviewed	95.77
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.76
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.76
CHL00206	2281	ycf2 Ycf2; Provisional	95.76
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.75
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.74
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.74
PHA02774	613	E1; Provisional	95.74
PRK14737	186	gmk guanylate kinase; Provisional	95.73
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.73
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.71
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	95.71
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.7
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	95.7
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.67
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	95.67
PRK05917	290	DNA polymerase III subunit delta'; Validated	95.67
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	95.66
PRK00889	175	adenylylsulfate kinase; Provisional	95.66
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.65
PRK13230	279	nitrogenase reductase-like protein; Reviewed	95.65
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.64
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	95.63
PRK13949	169	shikimate kinase; Provisional	95.63
PRK14530	215	adenylate kinase; Provisional	95.62
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	95.61
PRK05022	509	anaerobic nitric oxide reductase transcription reg	95.61
COG0714	329	MoxR-like ATPases [General function prediction onl	95.6
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.59
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.59
PRK05922	434	type III secretion system ATPase; Validated	95.58
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.57
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.56
PRK09099	441	type III secretion system ATPase; Provisional	95.55
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.54
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.54
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.54
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.53
PLN02200	234	adenylate kinase family protein	95.49
PRK14527	191	adenylate kinase; Provisional	95.49
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.47
PRK03846	198	adenylylsulfate kinase; Provisional	95.47
PRK12678	672	transcription termination factor Rho; Provisional	95.45
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.44
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.44
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.43
PRK06067	234	flagellar accessory protein FlaH; Validated	95.42
PRK05973	237	replicative DNA helicase; Provisional	95.42
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.41
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.41
PRK06820	440	type III secretion system ATPase; Validated	95.41
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	95.41
PRK13948	182	shikimate kinase; Provisional	95.41
CHL00059	485	atpA ATP synthase CF1 alpha subunit	95.4
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.39
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.38
PRK00300	205	gmk guanylate kinase; Provisional	95.38
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.37
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.37
TIGR02236	310	recomb_radA DNA repair and recombination protein R	95.35
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.35
PRK14738	206	gmk guanylate kinase; Provisional	95.34
PRK13975	196	thymidylate kinase; Provisional	95.33
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	95.33
PRK13946	184	shikimate kinase; Provisional	95.33
PTZ00035	337	Rad51 protein; Provisional	95.32
PRK04196	460	V-type ATP synthase subunit B; Provisional	95.32
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.32
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.3
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	95.3
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.29
PRK06851	367	hypothetical protein; Provisional	95.28
PRK05057	172	aroK shikimate kinase I; Reviewed	95.28
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	95.28
PRK15453	290	phosphoribulokinase; Provisional	95.27
PRK13765	637	ATP-dependent protease Lon; Provisional	95.27
PTZ00185	574	ATPase alpha subunit; Provisional	95.26
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.25
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.24
PRK12338	319	hypothetical protein; Provisional	95.24
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.22
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.21
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	95.2
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.2
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	95.19
PLN02165	334	adenylate isopentenyltransferase	95.19
cd02032	267	Bchl_like This family of proteins contains bchL an	95.18
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	95.17
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.17
PRK14532	188	adenylate kinase; Provisional	95.16
PRK04182	180	cytidylate kinase; Provisional	95.13
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.12
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	95.12
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.12
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	95.11
PLN02348	395	phosphoribulokinase	95.09
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.09
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.08
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.08
PTZ00088	229	adenylate kinase 1; Provisional	95.08
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	95.07
PRK13768	253	GTPase; Provisional	95.07
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	95.07
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.07
PRK13234	295	nifH nitrogenase reductase; Reviewed	95.06
PRK10416	318	signal recognition particle-docking protein FtsY;	95.06
PRK06761	282	hypothetical protein; Provisional	95.06
PRK06851	367	hypothetical protein; Provisional	95.05
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	95.05
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.04
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.04
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	95.03

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2.1e-67  Score=547.43  Aligned_cols=401  Identities=47%  Similarity=0.797  Sum_probs=365.6

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------   71 (483)
                      ||.+..++++++.|.+++..+++|+||||+||||||++++++...++.+|+.++||.+|++++...+..+|         
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE  240 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence            79999999999999998889999999999999999999999994489999999999999999999888888         


Q ss_pred             ----------------hhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh-----------hccCChH
Q 038724           72 ----------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC-----------VDCFTPQ  124 (483)
Q Consensus        72 ----------------~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~-----------l~~L~~~  124 (483)
                                      .++++|++||+||||+..+|+.+..++|...+||+|++|||++.|+           +++|+++
T Consensus       241 ~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~  320 (889)
T KOG4658|consen  241 EWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPE  320 (889)
T ss_pred             ccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCcc
Confidence                            6889999999999999999999999999988999999999999998           8899999


Q ss_pred             HHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhc-ccCCCC-hHHHHHh
Q 038724          125 ESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRS-ALQFPG-INKVYYR  202 (483)
Q Consensus       125 ~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~-~~~~~~-~~~~~~~  202 (483)
                      +||++|.+.++.......+..++.+++++++|+|+|||+.++|+.++.+.+..+|+++.+.+.+. ....++ .+.+..+
T Consensus       321 eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~i  400 (889)
T KOG4658|consen  321 EAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPI  400 (889)
T ss_pred             ccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHh
Confidence            99999999998876555566899999999999999999999999999999999999999988877 344433 3489999


Q ss_pred             hhcccCCCCchhhhHHHhhhcCCCCCCccccccceehhhhhcCCccCCccchHHHHHHHHHHhhHHHHhhhhhhhh----
Q 038724          203 LKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASLLEEEE----  278 (483)
Q Consensus       203 l~~s~~~L~~~~~~~~~~~~a~fp~~~~i~~~~l~i~~w~~eg~~~~~~~~~~~~~~~~~~~l~~L~~~sll~~~~----  278 (483)
                      +.+||+.||+ ++|.||+|||.||+++.|+++.+ +.+|+||||+.... ....++++++.++++|++++++..+.    
T Consensus       401 LklSyd~L~~-~lK~CFLycalFPED~~I~~e~L-i~yWiaEGfi~~~~-~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~  477 (889)
T KOG4658|consen  401 LKLSYDNLPE-ELKSCFLYCALFPEDYEIKKEKL-IEYWIAEGFIDPLD-GGETAEDVGYDYIEELVRASLLIEERDEGR  477 (889)
T ss_pred             hhccHhhhhH-HHHHHHHhhccCCcccccchHHH-HHHHHhccCcCccc-cccchhcchHHHHHHHHHHHHHhhcccccc
Confidence            9999999997 99999999999999999999999 99999999998844 56788999999999999999999864    


Q ss_pred             hhhhhhcccCccccc----------------------------cccceEEEEccccccccccCCCCCCcccEEEecCCc-
Q 038724          279 DILEKLRDVVPSDAL----------------------------KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNY-  329 (483)
Q Consensus       279 ~~~~~l~~~~~~~~~----------------------------~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~-  329 (483)
                      ...|+|||++++++.                            .+...+++++.+|.+..++....+++|++|-+.+|. 
T Consensus       478 ~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~  557 (889)
T KOG4658|consen  478 KETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSD  557 (889)
T ss_pred             eeEEEeeHHHHHHHHHHhccccccccceEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecch
Confidence            378899998887655                            345677888888888888877888899999999996 


Q ss_pred             -cccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          330 -LQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       330 -~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                       +..++..+|..++.|++|||++|.-.+.+|..++.|-+|+||+++++.+..+|.++++|++|.+|++..+.....
T Consensus       558 ~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~  633 (889)
T KOG4658|consen  558 WLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLES  633 (889)
T ss_pred             hhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheecccccccccc
Confidence             788888889999999999999998899999999999999999999999999999999999999999999876544

>PLN03210 Resistant to P

Probab=100.00  E-value=2.3e-47  Score=418.23  Aligned_cols=375  Identities=19%  Similarity=0.285  Sum_probs=277.3

Q ss_pred             CCChhHHHHHHHHHh--cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEe---CCCc-----------Cc
Q 038724            1 IENPKQFYQVWRFLV--KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVV---SKEL-----------KL   64 (483)
Q Consensus         1 vgr~~~~~~l~~~l~--~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~---~~~~-----------~~   64 (483)
                      |||++.++++.+++.  .+++++|+|+||||+||||||+++|++.   ..+|++.+|+..   +...           ..
T Consensus       187 vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~  263 (1153)
T PLN03210        187 VGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANPDDYNM  263 (1153)
T ss_pred             cchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhcccccccccch
Confidence            799999999999885  3578999999999999999999999977   678999888742   1110           00


Q ss_pred             -c----chhHHh----------------hhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh------
Q 038724           65 -E----TSQDDM----------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC------  117 (483)
Q Consensus        65 -~----~~~~~i----------------~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~------  117 (483)
                       .    +++.++                .++++|+||||||||+..+++.+.....+.++||+||||||++.++      
T Consensus       264 ~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~  343 (1153)
T PLN03210        264 KLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGID  343 (1153)
T ss_pred             hHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCC
Confidence             0    011111                5678999999999999999998877666778899999999999876      


Q ss_pred             ----hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhcccCC
Q 038724          118 ----VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQF  193 (483)
Q Consensus       118 ----l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~~~~  193 (483)
                          ++.+++++|+++|..+++... .+..+..+.+++|+++|+|+|||++++|+.|+. ++.++|+.+++++.....  
T Consensus       344 ~~~~v~~l~~~ea~~LF~~~Af~~~-~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l~~L~~~~~--  419 (1153)
T PLN03210        344 HIYEVCLPSNELALEMFCRSAFKKN-SPPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDMLPRLRNGLD--  419 (1153)
T ss_pred             eEEEecCCCHHHHHHHHHHHhcCCC-CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHHHHHHhCcc--
Confidence                788999999999999998765 334567788999999999999999999999998 578999999998876432  


Q ss_pred             CChHHHHHhhhcccCCCCchhhhHHHhhhcCCCCCCccccccceehhhhhcCCccCCccchHHHHHHHHHHhhHHHHhhh
Q 038724          194 PGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDLIRASL  273 (483)
Q Consensus       194 ~~~~~~~~~l~~s~~~L~~~~~~~~~~~~a~fp~~~~i~~~~l~i~~w~~eg~~~~~~~~~~~~~~~~~~~l~~L~~~sl  273 (483)
                         ..+..++++||+.|+++..|.||+++|+|+.+..+.   . +..|++.+......            .++.|+++++
T Consensus       420 ---~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~-v~~~l~~~~~~~~~------------~l~~L~~ksL  480 (1153)
T PLN03210        420 ---GKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---D-IKLLLANSDLDVNI------------GLKNLVDKSL  480 (1153)
T ss_pred             ---HHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---H-HHHHHHhcCCCchh------------ChHHHHhcCC
Confidence               279999999999998735899999999998876542   3 45555543321110            1333344433


Q ss_pred             hhhhhhhhhhhcccCccccc--------------------------------------------------------cc--
Q 038724          274 LEEEEDILEKLRDVVPSDAL--------------------------------------------------------KW--  295 (483)
Q Consensus       274 l~~~~~~~~~l~~~~~~~~~--------------------------------------------------------~~--  295 (483)
                      +.... ..+.||++++++.+                                                        .+  
T Consensus       481 i~~~~-~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~  559 (1153)
T PLN03210        481 IHVRE-DIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRN  559 (1153)
T ss_pred             EEEcC-CeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCcc
Confidence            33211 11222222221111                                                        11  


Q ss_pred             -----------------------------cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccE
Q 038724          296 -----------------------------LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV  346 (483)
Q Consensus       296 -----------------------------~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~  346 (483)
                                                   .+++.|.+.++.++.+|....+.+|+.|++++|.+..++.+ +..+++|++
T Consensus       560 L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~-~~~l~~Lk~  638 (1153)
T PLN03210        560 LLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDG-VHSLTGLRN  638 (1153)
T ss_pred             ccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCccccccccc-cccCCCCCE
Confidence                                         23555555555566665555567888888888888777665 577888888


Q ss_pred             EEccCCccCccCCcccccCcCCCEEeccCCC-CCccCccccCCcCCCEEecCCCCCcCC
Q 038724          347 LNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       347 L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~-i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      |+|++|..+..+| .++.+++|++|++++|. +..+|..++++++|+.|++++|.....
T Consensus       639 L~Ls~~~~l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~  696 (1153)
T PLN03210        639 IDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEI  696 (1153)
T ss_pred             EECCCCCCcCcCC-ccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCc
Confidence            8888877677777 47888888899888876 888888888888899999988765443

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=100.00  E-value=2e-42  Score=326.65  Aligned_cols=246  Identities=33%  Similarity=0.627  Sum_probs=198.3

Q ss_pred             ChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------
Q 038724            3 NPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------   71 (483)
Q Consensus         3 r~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------   71 (483)
                      ||.++++|.++|.+  .+.++|+|+||||+||||||.+++++. ..+.+|++++|+.+++..+...+...+         
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            89999999999998  788999999999999999999999985 358899999999999887766666655         


Q ss_pred             -----------------hhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh-----------hccCCh
Q 038724           72 -----------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC-----------VDCFTP  123 (483)
Q Consensus        72 -----------------~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~-----------l~~L~~  123 (483)
                                       .++++++|+||||||+...|+.+...++....|++||||||+..++           +++|++
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             ccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence                             5678899999999999999988888887777799999999998775           889999


Q ss_pred             HHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhcccCCC-ChHHHHHh
Q 038724          124 QESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFP-GINKVYYR  202 (483)
Q Consensus       124 ~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~~~~~-~~~~~~~~  202 (483)
                      ++|+++|.+.++...........+.+++|+++|+|+|||++++|++++.+.+..+|+.+++.+........ ....+..+
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  239 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSA  239 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999998765433446667889999999999999999999999665567899999988887764433 34589999


Q ss_pred             hhcccCCCCchhhhHHHhhhcCCCCCCccccccceehhhhhcCCccCCc
Q 038724          203 LKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDE  251 (483)
Q Consensus       203 l~~s~~~L~~~~~~~~~~~~a~fp~~~~i~~~~l~i~~w~~eg~~~~~~  251 (483)
                      +..||+.||+ +.|.||.+||+||+++.|+.+.+ +.+|+++|++..+.
T Consensus       240 l~~s~~~L~~-~~~~~f~~L~~f~~~~~i~~~~l-i~lW~~e~~i~~~~  286 (287)
T PF00931_consen  240 LELSYDSLPD-ELRRCFLYLSIFPEGVPIPRERL-IRLWVAEGFISSKH  286 (287)
T ss_dssp             HHHHHHSSHT-CCHHHHHHGGGSGTTS-EEHHHH-HHHHTT-HHTC---
T ss_pred             ceechhcCCc-cHHHHHhhCcCCCCCceECHHHH-HHHHHHCCCCcccC
Confidence            9999999999 89999999999999999999999 99999999987653

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=99.58  E-value=4.2e-17  Score=132.36  Aligned_cols=143  Identities=24%  Similarity=0.370  Sum_probs=85.7

Q ss_pred             ccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          295 WLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      ++.+++|.+++|+++.+++. ..+++|+.|++++|+++++|.+ ++.++.|+.|+++-|+ +..+|.+|+.++.|+.||+
T Consensus        32 ~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~-issl~klr~lnvgmnr-l~~lprgfgs~p~levldl  109 (264)
T KOG0617|consen   32 MSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTS-ISSLPKLRILNVGMNR-LNILPRGFGSFPALEVLDL  109 (264)
T ss_pred             hhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChh-hhhchhhhheecchhh-hhcCccccCCCchhhhhhc
Confidence            34556666666666666554 5566666666666666666655 5666666666666664 5566666666666666666


Q ss_pred             cCCCC--CccCccccCCcCCCEEecCCCCCcCCC-CCCCCc----------cchhhHhhhccccccccceeeccCcccc
Q 038724          374 SFTST--LELPEELKALEKLKYLDMDDHQQVMEE-GNCQSD----------DAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       374 ~~~~i--~~lp~~~~~l~~L~~L~l~~n~~~~~p-~~~~l~----------~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      +.|++  ..+|..|..++.|+.|+++.|.+..+| +++.++          .....|++++.|++|+.|++.+|.+..+
T Consensus       110 tynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl~vl  188 (264)
T KOG0617|consen  110 TYNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRLTVL  188 (264)
T ss_pred             cccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhcccceeeec
Confidence            66653  335555555556666666665544332 222221          1345666777777777777777776544

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

Probab=99.54  E-value=1.5e-14  Score=159.26  Aligned_cols=163  Identities=24%  Similarity=0.261  Sum_probs=95.1

Q ss_pred             cccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .+.+|++|++++|.+++..+...+++|++|+|++|.+....+..++.+++|++|++++|.+.+.+|..++++++|++|++
T Consensus       116 ~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L  195 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTL  195 (968)
T ss_pred             cCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeec
Confidence            56667777777776665544455666677777766666544444666666777777666655666666666666666666


Q ss_pred             cCCCC-CccCccccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccccccceeeccCcc--
Q 038724          374 SFTST-LELPEELKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCSLC--  437 (483)
Q Consensus       374 ~~~~i-~~lp~~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~l~--  437 (483)
                      ++|.+ ..+|..++++++|++|++++|.+... |. ++.+.           .....|..+..+++|+.|++++|.+.  
T Consensus       196 ~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~  275 (968)
T PLN00113        196 ASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGP  275 (968)
T ss_pred             cCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeecc
Confidence            66663 34566666666666666666665543 43 22221           11234445555556666666555542  


Q ss_pred             ---ccCCCCCcccccceeeeee
Q 038724          438 ---SLCGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       438 ---~l~~l~~l~~l~l~~~~~~  456 (483)
                         .+..+++|+.|++++|++.
T Consensus       276 ~p~~l~~l~~L~~L~Ls~n~l~  297 (968)
T PLN00113        276 IPPSIFSLQKLISLDLSDNSLS  297 (968)
T ss_pred             CchhHhhccCcCEEECcCCeec
Confidence               2344555555555555443

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

Probab=99.50  E-value=8.5e-16  Score=124.80  Aligned_cols=115  Identities=28%  Similarity=0.395  Sum_probs=64.0

Q ss_pred             ccccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc-cCCcccccCcCC
Q 038724          291 DALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT-KLPSGISKLVSL  368 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~-~~p~~~~~l~~L  368 (483)
                      .+..+.+++.|++.+|+++.+|.. +.++.|+.|+++.|.+..+|.+ |+.++.|++|||++|++.. .+|..|..++.|
T Consensus        51 nia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprg-fgs~p~levldltynnl~e~~lpgnff~m~tl  129 (264)
T KOG0617|consen   51 NIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRG-FGSFPALEVLDLTYNNLNENSLPGNFFYMTTL  129 (264)
T ss_pred             cHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccc-cCCCchhhhhhccccccccccCCcchhHHHHH
Confidence            334555666666666666666554 4566666666666666555555 5666666666666654332 345555555555


Q ss_pred             CEEeccCCCCCccCccccCCcCCCEEecCCCCCcCCCC
Q 038724          369 QHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEG  406 (483)
Q Consensus       369 ~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~  406 (483)
                      +.|.+++|...-+|+.++++++|+.|.++.|.+...|.
T Consensus       130 ralyl~dndfe~lp~dvg~lt~lqil~lrdndll~lpk  167 (264)
T KOG0617|consen  130 RALYLGDNDFEILPPDVGKLTNLQILSLRDNDLLSLPK  167 (264)
T ss_pred             HHHHhcCCCcccCChhhhhhcceeEEeeccCchhhCcH
Confidence            55555555555555555555555555555555444443

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

Probab=99.49  E-value=2.2e-15  Score=145.33  Aligned_cols=176  Identities=23%  Similarity=0.319  Sum_probs=126.9

Q ss_pred             CccccccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCc
Q 038724          288 VPSDALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLV  366 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~  366 (483)
                      +|+.+-.+..|+.+++++|+++..|.. ...+++-+|+||+|++..+|.+.|-++..|-+||||+|+ +..+|+.+..|.
T Consensus        95 iP~diF~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~Nr-Le~LPPQ~RRL~  173 (1255)
T KOG0444|consen   95 IPTDIFRLKDLTILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNR-LEMLPPQIRRLS  173 (1255)
T ss_pred             CCchhcccccceeeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccch-hhhcCHHHHHHh
Confidence            344444678899999999999998865 567899999999999999999989999999999999996 888999999999


Q ss_pred             CCCEEeccCCCCCccC-ccccCCcCCCEEecCCCCCcCC--CC-CCCCc----------cchhhHhhhccccccccceee
Q 038724          367 SLQHLDISFTSTLELP-EELKALEKLKYLDMDDHQQVME--EG-NCQSD----------DAESLLKEMLCLEQLNIIRLT  432 (483)
Q Consensus       367 ~L~~L~l~~~~i~~lp-~~~~~l~~L~~L~l~~n~~~~~--p~-~~~l~----------~~~~~~~~l~~l~~L~~L~l~  432 (483)
                      +|++|+|++|++...- ..+..+++|+.|.+++.+.+-.  |. +..+.          .....|+.+-.+++|+.|++|
T Consensus       174 ~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS  253 (1255)
T KOG0444|consen  174 MLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLS  253 (1255)
T ss_pred             hhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccC
Confidence            9999999988743211 1123456666777776553322  33 32221          344566677778888888888


Q ss_pred             ccCcccc----CCCCCcccccceeeeeeeeeccccc
Q 038724          433 SCSLCSL----CGLPTVQCLTSRRLNLEVEDWHKCT  464 (483)
Q Consensus       433 ~~~l~~l----~~l~~l~~l~l~~~~~~~~~~~~~~  464 (483)
                      +|.++.+    ....++.+|++++|++...+-.-|.
T Consensus       254 ~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcK  289 (1255)
T KOG0444|consen  254 GNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCK  289 (1255)
T ss_pred             cCceeeeeccHHHHhhhhhhccccchhccchHHHhh
Confidence            8877544    3345677777777777665544444

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

Probab=99.48  E-value=1.5e-14  Score=138.70  Aligned_cols=195  Identities=23%  Similarity=0.255  Sum_probs=141.1

Q ss_pred             CccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccC
Q 038724          288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKL  365 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l  365 (483)
                      +|.......++..|+|.+|.|+.+...  ..++.|++||||.|.++.++...|..-.++++|+|++|++...--..|..+
T Consensus       117 IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~l  196 (873)
T KOG4194|consen  117 IPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSL  196 (873)
T ss_pred             cccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecccccccccccccccc
Confidence            334444455677788888877766543  467788888888888888877777776778888888887665555677788


Q ss_pred             cCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCC--CCCC---c--------cchhhHhhhcccccccccee
Q 038724          366 VSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEG--NCQS---D--------DAESLLKEMLCLEQLNIIRL  431 (483)
Q Consensus       366 ~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~--~~~l---~--------~~~~~~~~l~~l~~L~~L~l  431 (483)
                      .+|.+|.|+.|.++.+|.. |.+|++|+.|+|..|++...-.  +..+   +        +..-.-..|-.|.++++|++
T Consensus       197 nsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L  276 (873)
T KOG4194|consen  197 NSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNL  276 (873)
T ss_pred             chheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeec
Confidence            8888888888888888875 5668888888888887654311  2222   1        11111224567889999999


Q ss_pred             eccCccc-----cCCCCCcccccceeeeee---eeecccccCccceeecCCcccccccC
Q 038724          432 TSCSLCS-----LCGLPTVQCLTSRRLNLE---VEDWHKCTGEVHKVLQSGGSEIFTPL  482 (483)
Q Consensus       432 ~~~~l~~-----l~~l~~l~~l~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (483)
                      ..|++..     +.+|..|+.|++++|.|+   ...|++|+.+....|+.....-+++.
T Consensus       277 ~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~  335 (873)
T KOG4194|consen  277 ETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEG  335 (873)
T ss_pred             ccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChh
Confidence            9998754     577899999999988765   67999999999988887776666654

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

Probab=99.48  E-value=6.6e-15  Score=141.00  Aligned_cols=155  Identities=25%  Similarity=0.250  Sum_probs=80.5

Q ss_pred             cccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      .+.++..|+|..|++..+...  ..+..|+.|+||+|.++.+..+.++..+.|++|+|++|++..--|+++..|..|++|
T Consensus       267 ~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~L  346 (873)
T KOG4194|consen  267 GLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEEL  346 (873)
T ss_pred             eecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhh
Confidence            344445555555555444332  244555555555555555555445555555555555554333333445555555555


Q ss_pred             eccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCc
Q 038724          372 DISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTV  445 (483)
Q Consensus       372 ~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l  445 (483)
                      +|++|.+..+-++ |..+++|+.|||++|.+.-.        .......+..|++|++|++.||++.+     +++++.|
T Consensus       347 nLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~--------IEDaa~~f~gl~~LrkL~l~gNqlk~I~krAfsgl~~L  418 (873)
T KOG4194|consen  347 NLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWC--------IEDAAVAFNGLPSLRKLRLTGNQLKSIPKRAFSGLEAL  418 (873)
T ss_pred             cccccchHHHHhhHHHHhhhhhhhcCcCCeEEEE--------EecchhhhccchhhhheeecCceeeecchhhhccCccc
Confidence            5555555555443 45555555555555553321        11122335556677777777776633     4566666


Q ss_pred             ccccceeeeee
Q 038724          446 QCLTSRRLNLE  456 (483)
Q Consensus       446 ~~l~l~~~~~~  456 (483)
                      +.|++.+|-|-
T Consensus       419 E~LdL~~Naia  429 (873)
T KOG4194|consen  419 EHLDLGDNAIA  429 (873)
T ss_pred             ceecCCCCcce
Confidence            66666665443

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

Probab=99.47  E-value=8e-14  Score=153.64  Aligned_cols=174  Identities=22%  Similarity=0.219  Sum_probs=99.9

Q ss_pred             hcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc
Q 038724          284 LRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG  361 (483)
Q Consensus       284 l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~  361 (483)
                      +....+..+..+++|+.|++++|.+....+.  ..+++|+.|++++|.+....+..+..+++|++|++++|.+.+.+|..
T Consensus       176 l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~  255 (968)
T PLN00113        176 LVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSS  255 (968)
T ss_pred             ccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChh
Confidence            3334444455556666666666665543322  45566666666666665544444666666666666666655666666


Q ss_pred             cccCcCCCEEeccCCCC-CccCccccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccccc
Q 038724          362 ISKLVSLQHLDISFTST-LELPEELKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQLN  427 (483)
Q Consensus       362 ~~~l~~L~~L~l~~~~i-~~lp~~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~L~  427 (483)
                      ++.+++|++|++++|.+ ..+|..+.++++|++|++++|.+... |. +..++           .....+..+..+++|+
T Consensus       256 l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~  335 (968)
T PLN00113        256 LGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQ  335 (968)
T ss_pred             HhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCC
Confidence            66666666666666663 34566666666666666666665544 33 22221           1223344556666666


Q ss_pred             cceeeccCcc-----ccCCCCCcccccceeeeeee
Q 038724          428 IIRLTSCSLC-----SLCGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       428 ~L~l~~~~l~-----~l~~l~~l~~l~l~~~~~~~  457 (483)
                      .|++++|.+.     .+..+++|+.|+++.|++..
T Consensus       336 ~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~  370 (968)
T PLN00113        336 VLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTG  370 (968)
T ss_pred             EEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEe
Confidence            6666666553     24455666666666666553

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

Probab=99.40  E-value=3.2e-14  Score=137.39  Aligned_cols=165  Identities=21%  Similarity=0.271  Sum_probs=135.4

Q ss_pred             ccccccceEEEEcccccccc--ccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc-cccCc
Q 038724          291 DALKWLGLRRMSLMNNQIKT--LLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG-ISKLV  366 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~--~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~-~~~l~  366 (483)
                      ....++.|+.+.+..|+++.  +|+. ..++.|..||||.|++.+.|.. +...+++-+|+||+|+ +..+|.. +-+|+
T Consensus        73 ELs~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt~lDLShNqL~EvP~~-LE~AKn~iVLNLS~N~-IetIPn~lfinLt  150 (1255)
T KOG0444|consen   73 ELSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLTILDLSHNQLREVPTN-LEYAKNSIVLNLSYNN-IETIPNSLFINLT  150 (1255)
T ss_pred             hhccchhhHHHhhhccccccCCCCchhcccccceeeecchhhhhhcchh-hhhhcCcEEEEcccCc-cccCCchHHHhhH
Confidence            34467889999999998864  4433 5789999999999999999887 8888999999999996 7777755 55899


Q ss_pred             CCCEEeccCCCCCccCccccCCcCCCEEecCCCCCc-----CCCCCCCCc---------cchhhHhhhccccccccceee
Q 038724          367 SLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV-----MEEGNCQSD---------DAESLLKEMLCLEQLNIIRLT  432 (483)
Q Consensus       367 ~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~-----~~p~~~~l~---------~~~~~~~~l~~l~~L~~L~l~  432 (483)
                      .|-+|||++|.+..+|+.+..|..|++|.|++|.+.     ..|+...+.         ....+|..+..|.+|+.+++|
T Consensus       151 DLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS  230 (1255)
T KOG0444|consen  151 DLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLS  230 (1255)
T ss_pred             hHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhcccc
Confidence            999999999999999999999999999999999753     226543332         345567778888899999999


Q ss_pred             ccCc----cccCCCCCcccccceeeeeee
Q 038724          433 SCSL----CSLCGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       433 ~~~l----~~l~~l~~l~~l~l~~~~~~~  457 (483)
                      .|++    .++..+++|+.|+++.|.++.
T Consensus       231 ~N~Lp~vPecly~l~~LrrLNLS~N~ite  259 (1255)
T KOG0444|consen  231 ENNLPIVPECLYKLRNLRRLNLSGNKITE  259 (1255)
T ss_pred             ccCCCcchHHHhhhhhhheeccCcCceee
Confidence            9987    457888999999999888764

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

Probab=99.31  E-value=5.8e-13  Score=113.08  Aligned_cols=134  Identities=28%  Similarity=0.406  Sum_probs=44.0

Q ss_pred             cccccccccCCCCCCcccEEEecCCccccccchhhh-cCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccC
Q 038724          304 MNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQ-FMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELP  382 (483)
Q Consensus       304 ~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~-~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp  382 (483)
                      ..+.|+..+....+.+++.|+|++|.++.+..  +. .+.+|+.|++++|. +..++ .+..+++|++|++++|.|++++
T Consensus         5 t~~~i~~~~~~~n~~~~~~L~L~~n~I~~Ie~--L~~~l~~L~~L~Ls~N~-I~~l~-~l~~L~~L~~L~L~~N~I~~i~   80 (175)
T PF14580_consen    5 TANMIEQIAQYNNPVKLRELNLRGNQISTIEN--LGATLDKLEVLDLSNNQ-ITKLE-GLPGLPRLKTLDLSNNRISSIS   80 (175)
T ss_dssp             -------------------------------S----TT-TT--EEE-TTS---S--T-T----TT--EEE--SS---S-C
T ss_pred             cccccccccccccccccccccccccccccccc--hhhhhcCCCEEECCCCC-Ccccc-CccChhhhhhcccCCCCCCccc
Confidence            34445555544455567777788777776643  33 46677788888875 45554 5777777888888888877776


Q ss_pred             ccc-cCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc--------cCCCCCcccccce
Q 038724          383 EEL-KALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS--------LCGLPTVQCLTSR  451 (483)
Q Consensus       383 ~~~-~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~--------l~~l~~l~~l~l~  451 (483)
                      ..+ ..+++|+.|++++|++...          .....+..+++|+.|++.+|+++.        +..+|+|+.|+-.
T Consensus        81 ~~l~~~lp~L~~L~L~~N~I~~l----------~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   81 EGLDKNLPNLQELYLSNNKISDL----------NELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             HHHHHH-TT--EEE-TTS---SC----------CCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             cchHHhCCcCCEEECcCCcCCCh----------HHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            554 3577888888888776532          233556677788888888887643        3456777777754

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

Probab=99.23  E-value=9.4e-12  Score=113.65  Aligned_cols=160  Identities=21%  Similarity=0.256  Sum_probs=91.4

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc------------------
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL------------------   62 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~------------------   62 (483)
                      +||++++++|.+++..+..+.+.|+|+.|+|||+|++++.+.. ... .+ .++|+...+..                  
T Consensus         2 ~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~-~~~-~~-~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    2 FGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL-KEK-GY-KVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             -S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC-T---EE-CCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh-hhc-CC-cEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            6999999999999998767899999999999999999999876 211 11 12222211111                  


Q ss_pred             --------------------------CccchhHHhhhcCCcEEEEEcCCCCcc-ccc---c----c---cCCCCCCCCCC
Q 038724           63 --------------------------KLETSQDDMILSTKKFLLLLDDLWETI-DLS---K----I---GVPLPSQKIVS  105 (483)
Q Consensus        63 --------------------------~~~~~~~~i~l~~~~~LlvlDdv~~~~-~~~---~----l---~~~~~~~~~gs  105 (483)
                                                ....+...+...+++++||+||+.... ...   .    +   ........+.+
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  158 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS  158 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce
Confidence                                      011122222444566999999997665 111   1    1   11222233344


Q ss_pred             EEEEecCChhhh-----------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          106 KVVFTTHSEEVC-----------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       106 ~ilvTtR~~~~~-----------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      .|+++|......                 +++|+.+++++++........ .. +...+..++|...+||+|..|..
T Consensus       159 ~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~-~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  159 IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELI-KL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC--------HHHHHHHHHHHTT-HHHHHH
T ss_pred             EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhh-cc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            454444422111                 899999999999998764331 11 23456689999999999988764

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

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

Probab=99.19  E-value=2.1e-11  Score=103.64  Aligned_cols=129  Identities=28%  Similarity=0.376  Sum_probs=56.5

Q ss_pred             ccceEEEEccccccccccCCC-CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCccc-ccCcCCCEEe
Q 038724          295 WLGLRRMSLMNNQIKTLLNTP-SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLD  372 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~-~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~-~~l~~L~~L~  372 (483)
                      ..+++.|++.+|.|+.+.... .+.+|+.|++++|.++.+..  +..++.|++|++++|+ +..+++.+ ..+++|+.|+
T Consensus        18 ~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~~--l~~L~~L~~L~L~~N~-I~~i~~~l~~~lp~L~~L~   94 (175)
T PF14580_consen   18 PVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEG--LPGLPRLKTLDLSNNR-ISSISEGLDKNLPNLQELY   94 (175)
T ss_dssp             ------------------S--TT-TT--EEE-TTS--S--TT------TT--EEE--SS----S-CHHHHHH-TT--EEE
T ss_pred             ccccccccccccccccccchhhhhcCCCEEECCCCCCccccC--ccChhhhhhcccCCCC-CCccccchHHhCCcCCEEE
Confidence            446789999999999887765 58899999999999998875  7889999999999997 55665555 3689999999


Q ss_pred             ccCCCCCccCc--cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeecc
Q 038724          373 ISFTSTLELPE--ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSC  434 (483)
Q Consensus       373 l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~  434 (483)
                      +++|.|.++..  .+..+++|+.|++.+|.+...+.        ....-+..+|+|+.|+-...
T Consensus        95 L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~--------YR~~vi~~lP~Lk~LD~~~V  150 (175)
T PF14580_consen   95 LSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKN--------YRLFVIYKLPSLKVLDGQDV  150 (175)
T ss_dssp             -TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTT--------HHHHHHHH-TT-SEETTEET
T ss_pred             CcCCcCCChHHhHHHHcCCCcceeeccCCcccchhh--------HHHHHHHHcChhheeCCEEc
Confidence            99999877643  37789999999999999664322        23334677889998885543

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

Probab=99.19  E-value=4.6e-13  Score=123.05  Aligned_cols=178  Identities=23%  Similarity=0.291  Sum_probs=108.8

Q ss_pred             cccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ...++..++.+.|.+..+++. ..+..+..++..+|+++..|++ +..+.+|..+++.+|+ ...+|+..-.++.|+.||
T Consensus       112 s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~-~~~~~~l~~l~~~~n~-l~~l~~~~i~m~~L~~ld  189 (565)
T KOG0472|consen  112 SLISLVKLDCSSNELKELPDSIGRLLDLEDLDATNNQISSLPED-MVNLSKLSKLDLEGNK-LKALPENHIAMKRLKHLD  189 (565)
T ss_pred             hhhhhhhhhccccceeecCchHHHHhhhhhhhccccccccCchH-HHHHHHHHHhhccccc-hhhCCHHHHHHHHHHhcc
Confidence            344555566666666655543 4555666666666666666655 3445556666666664 444444444466666666


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCc----------cchhhHhhh-ccccccccceeeccCccc---
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSD----------DAESLLKEM-LCLEQLNIIRLTSCSLCS---  438 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~----------~~~~~~~~l-~~l~~L~~L~l~~~~l~~---  438 (483)
                      ...|-++.+|+.++.+.+|..|++..|++...|.+..-.          .....|.+. ++|++|-.|++..|++.+   
T Consensus       190 ~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pd  269 (565)
T KOG0472|consen  190 CNSNLLETLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPD  269 (565)
T ss_pred             cchhhhhcCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccccccccCch
Confidence            666666666666666666666666666665555532211          123344444 488999999999998855   


Q ss_pred             -cCCCCCcccccceeeeeeeeecccccCccc-eeecCCc
Q 038724          439 -LCGLPTVQCLTSRRLNLEVEDWHKCTGEVH-KVLQSGG  475 (483)
Q Consensus       439 -l~~l~~l~~l~l~~~~~~~~~~~~~~~~~~-~~~~~~~  475 (483)
                       ++.+.+|..|++++|.++..+.  -.|.+| +++.+.+
T Consensus       270 e~clLrsL~rLDlSNN~is~Lp~--sLgnlhL~~L~leG  306 (565)
T KOG0472|consen  270 EICLLRSLERLDLSNNDISSLPY--SLGNLHLKFLALEG  306 (565)
T ss_pred             HHHHhhhhhhhcccCCccccCCc--ccccceeeehhhcC
Confidence             5667888899999888875544  345555 5555544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.19  E-value=1.7e-10  Score=126.58  Aligned_cols=202  Identities=16%  Similarity=0.192  Sum_probs=124.9

Q ss_pred             CChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-CccchhHHh---------
Q 038724            2 ENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-KLETSQDDM---------   71 (483)
Q Consensus         2 gr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-~~~~~~~~i---------   71 (483)
                      -|++.++.+.+.   ...+++.|+|++|.||||++.+..++.     .  .+.|+++.... +...+...+         
T Consensus        18 ~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~-----~--~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~   87 (903)
T PRK04841         18 VRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGK-----N--NLGWYSLDESDNQPERFASYLIAALQQATN   87 (903)
T ss_pred             cchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhC-----C--CeEEEecCcccCCHHHHHHHHHHHHHHhcC
Confidence            355555544321   356899999999999999999987643     2  48899875332 211111111         


Q ss_pred             ---------------------------hh--cCCcEEEEEcCCCCccc--cc-cccCCCCCCCCCCEEEEecCChhhh--
Q 038724           72 ---------------------------IL--STKKFLLLLDDLWETID--LS-KIGVPLPSQKIVSKVVFTTHSEEVC--  117 (483)
Q Consensus        72 ---------------------------~l--~~~~~LlvlDdv~~~~~--~~-~l~~~~~~~~~gs~ilvTtR~~~~~--  117 (483)
                                                 .+  .+++++|||||+...+.  .. .+...+.....+.+++||||.....  
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~  167 (903)
T PRK04841         88 GHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGI  167 (903)
T ss_pred             cccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCch
Confidence                                       11  27899999999976532  12 2222222233457888999984211  


Q ss_pred             -----------hc----cCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHH
Q 038724          118 -----------VD----CFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDA  182 (483)
Q Consensus       118 -----------l~----~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~  182 (483)
                                 ++    +|+.+|+.++|....+..      -..+.++.+.+.|+|+|+++..++..++.....  ....
T Consensus       168 ~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~------~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~--~~~~  239 (903)
T PRK04841        168 ANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP------IEAAESSRLCDDVEGWATALQLIALSARQNNSS--LHDS  239 (903)
T ss_pred             HhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC------CCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc--hhhh
Confidence                       33    899999999998765432      134568899999999999999998777542110  0011


Q ss_pred             HHHHHhcccCCCChHHHHHhhhc-ccCCCCchhhhHHHhhhcCCCC
Q 038724          183 IEILMRSALQFPGINKVYYRLKF-SFDRLPSDQIRSCFLFCSPFPG  227 (483)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~-s~~~L~~~~~~~~~~~~a~fp~  227 (483)
                      ...+.    ..+ ...+...+.- -++.||+ ..+..+...|+++.
T Consensus       240 ~~~~~----~~~-~~~~~~~l~~~v~~~l~~-~~~~~l~~~a~~~~  279 (903)
T PRK04841        240 ARRLA----GIN-ASHLSDYLVEEVLDNVDL-ETRHFLLRCSVLRS  279 (903)
T ss_pred             hHhhc----CCC-chhHHHHHHHHHHhcCCH-HHHHHHHHhccccc
Confidence            11110    000 1134443333 3679999 89999999999873

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

Probab=99.12  E-value=5.4e-13  Score=122.63  Aligned_cols=125  Identities=24%  Similarity=0.329  Sum_probs=60.1

Q ss_pred             eEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCC
Q 038724          298 LRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT  376 (483)
Q Consensus       298 l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~  376 (483)
                      +..++.++|+++.+|+. ..+.+++.++.++|.+..++++ ++.+..|..++..+|+ +..+|+.++.+..|..|++.+|
T Consensus        93 l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~~~el~~~-i~~~~~l~dl~~~~N~-i~slp~~~~~~~~l~~l~~~~n  170 (565)
T KOG0472|consen   93 LKSLNVSHNKLSELPEQIGSLISLVKLDCSSNELKELPDS-IGRLLDLEDLDATNNQ-ISSLPEDMVNLSKLSKLDLEGN  170 (565)
T ss_pred             HHHhhcccchHhhccHHHhhhhhhhhhhccccceeecCch-HHHHhhhhhhhccccc-cccCchHHHHHHHHHHhhcccc
Confidence            33344444444444332 3344445555555555554444 3444445555555543 4444555555555555555555


Q ss_pred             CCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc
Q 038724          377 STLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       377 ~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                      .++.+|+..-+++.|++||...|.+..+            |.+++.|.+|..|++..|++
T Consensus       171 ~l~~l~~~~i~m~~L~~ld~~~N~L~tl------------P~~lg~l~~L~~LyL~~Nki  218 (565)
T KOG0472|consen  171 KLKALPENHIAMKRLKHLDCNSNLLETL------------PPELGGLESLELLYLRRNKI  218 (565)
T ss_pred             chhhCCHHHHHHHHHHhcccchhhhhcC------------ChhhcchhhhHHHHhhhccc
Confidence            5555555544455555555555554444            44444444444444444443

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

Probab=99.11  E-value=1.1e-11  Score=109.90  Aligned_cols=132  Identities=26%  Similarity=0.331  Sum_probs=112.8

Q ss_pred             cccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      .|..++.+++++|.|+.+... .-.+.++.|++|+|.+..+..  +..+++|..||||+|. +..+-..-.++-|.++|.
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n--La~L~~L~~LDLS~N~-Ls~~~Gwh~KLGNIKtL~  358 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN--LAELPQLQLLDLSGNL-LAECVGWHLKLGNIKTLK  358 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh--hhhcccceEeecccch-hHhhhhhHhhhcCEeeee
Confidence            678899999999999988776 457899999999999988876  7889999999999995 666666667889999999


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      |++|.|.++. ++++|.+|..||+++|++..          ......+++||.|+++.+.+|++..+
T Consensus       359 La~N~iE~LS-GL~KLYSLvnLDl~~N~Ie~----------ldeV~~IG~LPCLE~l~L~~NPl~~~  414 (490)
T KOG1259|consen  359 LAQNKIETLS-GLRKLYSLVNLDLSSNQIEE----------LDEVNHIGNLPCLETLRLTGNPLAGS  414 (490)
T ss_pred             hhhhhHhhhh-hhHhhhhheeccccccchhh----------HHHhcccccccHHHHHhhcCCCcccc
Confidence            9999999984 68999999999999999652          34556789999999999999997443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.10  E-value=3.3e-10  Score=117.49  Aligned_cols=148  Identities=24%  Similarity=0.203  Sum_probs=89.6

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccC
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISF  375 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~  375 (483)
                      .+++.|++.+|+++.+|.  ..++|++|++++|.++.+|..    .++|+.|++++|. +..+|...   .+|+.|++++
T Consensus       222 ~~L~~L~L~~N~Lt~LP~--lp~~Lk~LdLs~N~LtsLP~l----p~sL~~L~Ls~N~-L~~Lp~lp---~~L~~L~Ls~  291 (788)
T PRK15387        222 AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPVL----PPGLLELSIFSNP-LTHLPALP---SGLCKLWIFG  291 (788)
T ss_pred             cCCCEEEccCCcCCCCCC--CCCCCcEEEecCCccCcccCc----ccccceeeccCCc-hhhhhhch---hhcCEEECcC
Confidence            367888888888888775  357888899988888877642    3567788888875 45555422   4566777777


Q ss_pred             CCCCccCccccCCcCCCEEecCCCCCcCCCC----CCCCccchhhHhhhcccc-ccccceeeccCccccCCCC-Cccccc
Q 038724          376 TSTLELPEELKALEKLKYLDMDDHQQVMEEG----NCQSDDAESLLKEMLCLE-QLNIIRLTSCSLCSLCGLP-TVQCLT  449 (483)
Q Consensus       376 ~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~----~~~l~~~~~~~~~l~~l~-~L~~L~l~~~~l~~l~~l~-~l~~l~  449 (483)
                      |.+..+|..   +++|+.|++++|.+..+|.    +..+.........+..++ +|+.|++++|++..+..++ +|+.|+
T Consensus       292 N~Lt~LP~~---p~~L~~LdLS~N~L~~Lp~lp~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS~N~Ls~LP~lp~~L~~L~  368 (788)
T PRK15387        292 NQLTSLPVL---PPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVSDNQLASLPTLPSELYKLW  368 (788)
T ss_pred             Ccccccccc---ccccceeECCCCccccCCCCcccccccccccCccccccccccccceEecCCCccCCCCCCCcccceeh
Confidence            777777652   3567777777777666543    112211111122222232 5677777777665544332 444444


Q ss_pred             ceeeeee
Q 038724          450 SRRLNLE  456 (483)
Q Consensus       450 l~~~~~~  456 (483)
                      +++|.+.
T Consensus       369 Ls~N~L~  375 (788)
T PRK15387        369 AYNNRLT  375 (788)
T ss_pred             hhccccc
Confidence            4444443

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

Probab=99.09  E-value=2.5e-09  Score=99.49  Aligned_cols=196  Identities=16%  Similarity=0.170  Sum_probs=118.7

Q ss_pred             HHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---hhcCCcEEEEEcCC
Q 038724            9 QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---ILSTKKFLLLLDDL   85 (483)
Q Consensus         9 ~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---~l~~~~~LlvlDdv   85 (483)
                      -|.+.+..+.+..+.+||++|+||||||+.++...   ...|...- ...+.-.+++.+.++-   ...|++.+|++|.|
T Consensus        38 ~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f~~~s-Av~~gvkdlr~i~e~a~~~~~~gr~tiLflDEI  113 (436)
T COG2256          38 PLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAFEALS-AVTSGVKDLREIIEEARKNRLLGRRTILFLDEI  113 (436)
T ss_pred             hHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCceEEec-cccccHHHHHHHHHHHHHHHhcCCceEEEEehh
Confidence            45677777888999999999999999999999876   44553221 1223333444444433   55589999999999


Q ss_pred             CC--ccccccccCCCCCCCCCCEEEE--ecCChhhh-------------hccCChHHHHHHHHHHhcCCc-ccC--CC-C
Q 038724           86 WE--TIDLSKIGVPLPSQKIVSKVVF--TTHSEEVC-------------VDCFTPQESWQVFQMKVGNET-LVS--HP-A  144 (483)
Q Consensus        86 ~~--~~~~~~l~~~~~~~~~gs~ilv--TtR~~~~~-------------l~~L~~~~a~~l~~~~~~~~~-~~~--~~-~  144 (483)
                      +.  ..+.+.+   +|.-.+|.-|+|  ||.++...             +++|+.++..+++.+...... ...  .. -
T Consensus       114 HRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i  190 (436)
T COG2256         114 HRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVL  190 (436)
T ss_pred             hhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccC
Confidence            63  3444444   344456777777  67666554             999999999999988442221 011  11 2


Q ss_pred             chhHHHHHHhHcCCchHHH----HHHHHHhcCCCCHHHHHHHHHHHHhcccCCC--Ch--HHHHHhhhcccCCCCc
Q 038724          145 IHKPAKMVAKDCGGLPLAL----TIVGRAMAYKKTPEEWKDAIEILMRSALQFP--GI--NKVYYRLKFSFDRLPS  212 (483)
Q Consensus       145 ~~~~~~~i~~~c~g~Plal----~~~~~~l~~~~~~~~w~~~~~~l~~~~~~~~--~~--~~~~~~l~~s~~~L~~  212 (483)
                      .++..+.+++.++|--.+.    ++++..-+. ......+.+-+.++.....++  +.  -.+.+++..|...=++
T Consensus       191 ~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~-~~~~~~~~l~~~l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~  265 (436)
T COG2256         191 DEEALDYLVRLSNGDARRALNLLELAALSAEP-DEVLILELLEEILQRRSARFDKDGDAHYDLISALHKSVRGSDP  265 (436)
T ss_pred             CHHHHHHHHHhcCchHHHHHHHHHHHHHhcCC-CcccCHHHHHHHHhhhhhccCCCcchHHHHHHHHHHhhccCCc
Confidence            2346677888888866443    222222222 111112222223333222221  11  1788888888887776

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

Probab=99.08  E-value=9.1e-09  Score=96.05  Aligned_cols=149  Identities=15%  Similarity=0.215  Sum_probs=90.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhH--------------------Hh------
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQD--------------------DM------   71 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~--------------------~i------   71 (483)
                      +.++++|+|++|+||||+++.+++.. .. ... ..+|+... ..+..++..                    .+      
T Consensus        42 ~~~~~~l~G~~G~GKTtl~~~l~~~l-~~-~~~-~~~~~~~~-~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~  117 (269)
T TIGR03015        42 REGFILITGEVGAGKTTLIRNLLKRL-DQ-ERV-VAAKLVNT-RVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIE  117 (269)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHhc-CC-CCe-EEeeeeCC-CCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHH
Confidence            34689999999999999999999876 21 111 12233211 111111111                    11      


Q ss_pred             -hhcCCcEEEEEcCCCCcc--ccccccC---CCCCCCCCCEEEEecCChhh-------------------hhccCChHHH
Q 038724           72 -ILSTKKFLLLLDDLWETI--DLSKIGV---PLPSQKIVSKVVFTTHSEEV-------------------CVDCFTPQES  126 (483)
Q Consensus        72 -~l~~~~~LlvlDdv~~~~--~~~~l~~---~~~~~~~gs~ilvTtR~~~~-------------------~l~~L~~~~a  126 (483)
                       ...++++++|+||++...  .++.+..   .-.+......|++|......                   .+++++.++.
T Consensus       118 ~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~  197 (269)
T TIGR03015       118 QFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREET  197 (269)
T ss_pred             HHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHHH
Confidence             236788999999998763  2333321   11111222344555442211                   0889999999


Q ss_pred             HHHHHHHhcCCccc-CCCCchhHHHHHHhHcCCchHHHHHHHHHh
Q 038724          127 WQVFQMKVGNETLV-SHPAIHKPAKMVAKDCGGLPLALTIVGRAM  170 (483)
Q Consensus       127 ~~l~~~~~~~~~~~-~~~~~~~~~~~i~~~c~g~Plal~~~~~~l  170 (483)
                      .+++...+...... ...-..+..+.|++.++|.|..+..++..+
T Consensus       198 ~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       198 REYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            99988776432211 112335788999999999999999888765

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.07  E-value=1.8e-09  Score=103.34  Aligned_cols=209  Identities=14%  Similarity=0.082  Sum_probs=118.0

Q ss_pred             CCChhHHHHHHHHHhc-----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            1 IENPKQFYQVWRFLVK-----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      |||++.++.+..++..     ...+.+.|+|++|+|||++|+++++..   ...+   .++..+.......+..-+..-+
T Consensus        28 vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l---~~~~---~~~~~~~~~~~~~l~~~l~~l~  101 (328)
T PRK00080         28 IGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM---GVNI---RITSGPALEKPGDLAAILTNLE  101 (328)
T ss_pred             cCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh---CCCe---EEEecccccChHHHHHHHHhcc
Confidence            6999999999888763     345688999999999999999999987   2222   1222111111112222222224


Q ss_pred             CcEEEEEcCCCCccc--cccccCC---------CC----------CCCCCCEEEEecCChhhh------------hccCC
Q 038724           76 KKFLLLLDDLWETID--LSKIGVP---------LP----------SQKIVSKVVFTTHSEEVC------------VDCFT  122 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~--~~~l~~~---------~~----------~~~~gs~ilvTtR~~~~~------------l~~L~  122 (483)
                      ...+++||+++....  .+.+...         +.          ...+.+-|.+|++...+.            +++++
T Consensus       102 ~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~  181 (328)
T PRK00080        102 EGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYT  181 (328)
T ss_pred             cCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecCCCC
Confidence            566888999864421  1111000         00          001234455666633221            78999


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhcccCCCChHHHHHh
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVYYR  202 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~  202 (483)
                      .++..+++...+.....   .-.++.++.|++.|+|.|..+..+...+.      .|....   ................
T Consensus       182 ~~e~~~il~~~~~~~~~---~~~~~~~~~ia~~~~G~pR~a~~~l~~~~------~~a~~~---~~~~I~~~~v~~~l~~  249 (328)
T PRK00080        182 VEELEKIVKRSARILGV---EIDEEGALEIARRSRGTPRIANRLLRRVR------DFAQVK---GDGVITKEIADKALDM  249 (328)
T ss_pred             HHHHHHHHHHHHHHcCC---CcCHHHHHHHHHHcCCCchHHHHHHHHHH------HHHHHc---CCCCCCHHHHHHHHHH
Confidence            99999999988765442   23356789999999999976554443321      111100   0000000111133444


Q ss_pred             hhcccCCCCchhhhHHHh-hhcCCCCC
Q 038724          203 LKFSFDRLPSDQIRSCFL-FCSPFPGD  228 (483)
Q Consensus       203 l~~s~~~L~~~~~~~~~~-~~a~fp~~  228 (483)
                      +...+..|++ ..+..+. ....|+.+
T Consensus       250 ~~~~~~~l~~-~~~~~l~~~~~~~~~~  275 (328)
T PRK00080        250 LGVDELGLDE-MDRKYLRTIIEKFGGG  275 (328)
T ss_pred             hCCCcCCCCH-HHHHHHHHHHHHcCCC
Confidence            5677788887 5556554 44556544

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.03  E-value=5.4e-10  Score=116.51  Aligned_cols=153  Identities=26%  Similarity=0.321  Sum_probs=112.0

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccC
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISF  375 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~  375 (483)
                      ..++.|++++|.++.+|.. .+++|+.|++++|.++.+|...   .++|+.|+|++|. +..+|..+.  .+|++|++++
T Consensus       199 ~~L~~L~Ls~N~LtsLP~~-l~~nL~~L~Ls~N~LtsLP~~l---~~~L~~L~Ls~N~-L~~LP~~l~--s~L~~L~Ls~  271 (754)
T PRK15370        199 EQITTLILDNNELKSLPEN-LQGNIKTLYANSNQLTSIPATL---PDTIQEMELSINR-ITELPERLP--SALQSLDLFH  271 (754)
T ss_pred             cCCcEEEecCCCCCcCChh-hccCCCEEECCCCccccCChhh---hccccEEECcCCc-cCcCChhHh--CCCCEEECcC
Confidence            4688899999999988754 3468999999999998887653   3479999999996 557887764  5899999999


Q ss_pred             CCCCccCccccCCcCCCEEecCCCCCcCCCC-CC-CCc---c----chhhHhhhccccccccceeeccCccccCC--CCC
Q 038724          376 TSTLELPEELKALEKLKYLDMDDHQQVMEEG-NC-QSD---D----AESLLKEMLCLEQLNIIRLTSCSLCSLCG--LPT  444 (483)
Q Consensus       376 ~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~-~~-~l~---~----~~~~~~~l~~l~~L~~L~l~~~~l~~l~~--l~~  444 (483)
                      |++..+|..+.  ++|+.|++++|++..+|. +. .+.   .    ....|..+  .++|+.|++++|++..+..  .++
T Consensus       272 N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp~sL~~L~Ls~N~Lt~LP~~l--~~sL~~L~Ls~N~Lt~LP~~l~~s  347 (754)
T PRK15370        272 NKISCLPENLP--EELRYLSVYDNSIRTLPAHLPSGITHLNVQSNSLTALPETL--PPGLKTLEAGENALTSLPASLPPE  347 (754)
T ss_pred             CccCccccccC--CCCcEEECCCCccccCcccchhhHHHHHhcCCccccCCccc--cccceeccccCCccccCChhhcCc
Confidence            99999998764  589999999998887654 21 111   0    01111111  2578888999988766542  257


Q ss_pred             cccccceeeeeeeee
Q 038724          445 VQCLTSRRLNLEVED  459 (483)
Q Consensus       445 l~~l~l~~~~~~~~~  459 (483)
                      |+.|++++|++...+
T Consensus       348 L~~L~Ls~N~L~~LP  362 (754)
T PRK15370        348 LQVLDVSKNQITVLP  362 (754)
T ss_pred             ccEEECCCCCCCcCC
Confidence            888888888877443

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

Probab=99.02  E-value=1.6e-11  Score=112.94  Aligned_cols=103  Identities=26%  Similarity=0.293  Sum_probs=52.9

Q ss_pred             ceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccC-CccCccCC-cccccCcCCCEEe
Q 038724          297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSY-NRFLTKLP-SGISKLVSLQHLD  372 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~-n~~~~~~p-~~~~~l~~L~~L~  372 (483)
                      ....+.|..|.|+.+|+.  ..+++|+.||||+|.|+.+.|..|++++.|..|-+-+ |+ +..+| ..|+.|..|+-|.
T Consensus        68 ~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~Nk-I~~l~k~~F~gL~slqrLl  146 (498)
T KOG4237|consen   68 ETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNK-ITDLPKGAFGGLSSLQRLL  146 (498)
T ss_pred             cceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCc-hhhhhhhHhhhHHHHHHHh
Confidence            344566666666666654  3566666666666666666666666666654444433 43 34444 2344444444444


Q ss_pred             ccCCCCCccCcc-ccCCcCCCEEecCCCC
Q 038724          373 ISFTSTLELPEE-LKALEKLKYLDMDDHQ  400 (483)
Q Consensus       373 l~~~~i~~lp~~-~~~l~~L~~L~l~~n~  400 (483)
                      +.-|++.-++.. +..|++|..|.+..|.
T Consensus       147 lNan~i~Cir~~al~dL~~l~lLslyDn~  175 (498)
T KOG4237|consen  147 LNANHINCIRQDALRDLPSLSLLSLYDNK  175 (498)
T ss_pred             cChhhhcchhHHHHHHhhhcchhcccchh
Confidence            444444333332 4444444444444443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.01  E-value=3.7e-09  Score=100.58  Aligned_cols=159  Identities=17%  Similarity=0.117  Sum_probs=99.6

Q ss_pred             CCChhHHHHHHHHHhc-----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            1 IENPKQFYQVWRFLVK-----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      ||+++.+++|..++..     ...+.+.++|++|+|||+||+++++..   ...+   ..+..+.......+...+..-+
T Consensus         7 iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~l~~~l~~~~   80 (305)
T TIGR00635         7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM---GVNL---KITSGPALEKPGDLAAILTNLE   80 (305)
T ss_pred             cCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCCE---EEeccchhcCchhHHHHHHhcc
Confidence            7999999999998872     345678999999999999999999977   2222   1222221122223333333334


Q ss_pred             CcEEEEEcCCCCccc--cccccCCC-------------------CCCCCCCEEEEecCChhhh------------hccCC
Q 038724           76 KKFLLLLDDLWETID--LSKIGVPL-------------------PSQKIVSKVVFTTHSEEVC------------VDCFT  122 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~--~~~l~~~~-------------------~~~~~gs~ilvTtR~~~~~------------l~~L~  122 (483)
                      ...++++|+++....  .+.+...+                   ....+.+-|.+||+...+.            +++++
T Consensus        81 ~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~  160 (305)
T TIGR00635        81 EGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYT  160 (305)
T ss_pred             cCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCCCC
Confidence            567889999864311  11111000                   0011234555566643221            88999


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHH
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGR  168 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~  168 (483)
                      .++..+++.+.+....   ..-.++..+.|++.|+|.|..+..++.
T Consensus       161 ~~e~~~il~~~~~~~~---~~~~~~al~~ia~~~~G~pR~~~~ll~  203 (305)
T TIGR00635       161 VEELAEIVSRSAGLLN---VEIEPEAALEIARRSRGTPRIANRLLR  203 (305)
T ss_pred             HHHHHHHHHHHHHHhC---CCcCHHHHHHHHHHhCCCcchHHHHHH
Confidence            9999999998876433   123356678999999999977655554

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.

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.01  E-value=1.1e-09  Score=113.58  Aligned_cols=76  Identities=25%  Similarity=0.238  Sum_probs=35.3

Q ss_pred             cccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCC
Q 038724          319 HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD  398 (483)
Q Consensus       319 ~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~  398 (483)
                      +|..|++++|.++.+|.    .+++|+.|++++|++ ..+|...   .+|+.|++++|.+..+|..   ..+|+.|+|++
T Consensus       283 ~L~~L~Ls~N~Lt~LP~----~p~~L~~LdLS~N~L-~~Lp~lp---~~L~~L~Ls~N~L~~LP~l---p~~Lq~LdLS~  351 (788)
T PRK15387        283 GLCKLWIFGNQLTSLPV----LPPGLQELSVSDNQL-ASLPALP---SELCKLWAYNNQLTSLPTL---PSGLQELSVSD  351 (788)
T ss_pred             hcCEEECcCCccccccc----cccccceeECCCCcc-ccCCCCc---ccccccccccCcccccccc---ccccceEecCC
Confidence            34444444444444433    135577777777653 3344321   2233344444444444321   13455666666


Q ss_pred             CCCcCCC
Q 038724          399 HQQVMEE  405 (483)
Q Consensus       399 n~~~~~p  405 (483)
                      |++..+|
T Consensus       352 N~Ls~LP  358 (788)
T PRK15387        352 NQLASLP  358 (788)
T ss_pred             CccCCCC
Confidence            6555543

>PLN03210 Resistant to P

Probab=99.00  E-value=2.1e-09  Score=119.47  Aligned_cols=107  Identities=24%  Similarity=0.316  Sum_probs=86.0

Q ss_pred             ccceEEEEccccccccccCC-CCCCcccEEEecCCc-cccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          295 WLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNY-LQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~-~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..+|+.|++.+|.+..++.. ..+++|+.|+|+++. +..+|.  ++.+++|+.|++++|..+..+|..++.+++|++|+
T Consensus       610 ~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~  687 (1153)
T PLN03210        610 PENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLD  687 (1153)
T ss_pred             ccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCCCccccchhhhccCCCCEEe
Confidence            46788999999998887654 568899999998764 555553  77888999999999887888999999999999999


Q ss_pred             ccCCC-CCccCccccCCcCCCEEecCCCCCcCC
Q 038724          373 ISFTS-TLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       373 l~~~~-i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      +++|. +..+|..+ ++++|+.|++++|.....
T Consensus       688 L~~c~~L~~Lp~~i-~l~sL~~L~Lsgc~~L~~  719 (1153)
T PLN03210        688 MSRCENLEILPTGI-NLKSLYRLNLSGCSRLKS  719 (1153)
T ss_pred             CCCCCCcCccCCcC-CCCCCCEEeCCCCCCccc
Confidence            99876 88888766 678888888887764443

syringae 6; Provisional

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

Probab=99.00  E-value=2.4e-11  Score=122.95  Aligned_cols=126  Identities=28%  Similarity=0.357  Sum_probs=86.8

Q ss_pred             ceEEEEcccccccc--ccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          297 GLRRMSLMNNQIKT--LLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       297 ~l~~l~l~~~~~~~--~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      .|+.|.+.+|.++.  +|....+++|+.|+|++|.+..+|...+.++..|+.|+||||+ +..+|..+..+..|++|...
T Consensus       360 ~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNk-L~~Lp~tva~~~~L~tL~ah  438 (1081)
T KOG0618|consen  360 ALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNK-LTTLPDTVANLGRLHTLRAH  438 (1081)
T ss_pred             HHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccch-hhhhhHHHHhhhhhHHHhhc
Confidence            34455556665543  2333566777778888777777777777777777777888875 67777777777777777777


Q ss_pred             CCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccC
Q 038724          375 FTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS  435 (483)
Q Consensus       375 ~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~  435 (483)
                      +|.+..+| .+..++.|+.+|++.|.+..          ...++.+.. ++|++|+++||.
T Consensus       439 sN~l~~fP-e~~~l~qL~~lDlS~N~L~~----------~~l~~~~p~-p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  439 SNQLLSFP-ELAQLPQLKVLDLSCNNLSE----------VTLPEALPS-PNLKYLDLSGNT  487 (1081)
T ss_pred             CCceeech-hhhhcCcceEEecccchhhh----------hhhhhhCCC-cccceeeccCCc
Confidence            77777777 67777777888887777542          222233332 678888888876

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

Probab=99.00  E-value=3.8e-11  Score=121.57  Aligned_cols=154  Identities=29%  Similarity=0.402  Sum_probs=117.1

Q ss_pred             CccccccccceEEEEccccccccccCC---------------------------CCCCcccEEEecCCccccccchhhhc
Q 038724          288 VPSDALKWLGLRRMSLMNNQIKTLLNT---------------------------PSCPHLLTLFLNDNYLQDIKNGFFQF  340 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~~~~~~~~~~---------------------------~~~~~L~~L~l~~n~~~~~~~~~~~~  340 (483)
                      +++.....+.++.|++..|++..+|..                           ..++.|+.|.+.+|.+.+-.-..+..
T Consensus       302 ip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~  381 (1081)
T KOG0618|consen  302 IPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVN  381 (1081)
T ss_pred             CCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhcc
Confidence            344555678899999999988877642                           12345677777788776543333778


Q ss_pred             CCCccEEEccCCccCccCC-cccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhh
Q 038724          341 MPCLKVLNLSYNRFLTKLP-SGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKE  419 (483)
Q Consensus       341 l~~L~~L~l~~n~~~~~~p-~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~  419 (483)
                      +++|++|+|++|+ ++.+| ..+.++..|+.|+|+||.++.+|.++..++.|++|...+|++.            ..| +
T Consensus       382 ~~hLKVLhLsyNr-L~~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~------------~fP-e  447 (1081)
T KOG0618|consen  382 FKHLKVLHLSYNR-LNSFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLL------------SFP-E  447 (1081)
T ss_pred             ccceeeeeecccc-cccCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCcee------------ech-h
Confidence            8999999999996 66666 4577888999999999999999988999999999999999854            344 6


Q ss_pred             hccccccccceeeccCcccc---CCC--CCcccccceeeee
Q 038724          420 MLCLEQLNIIRLTSCSLCSL---CGL--PTVQCLTSRRLNL  455 (483)
Q Consensus       420 l~~l~~L~~L~l~~~~l~~l---~~l--~~l~~l~l~~~~~  455 (483)
                      +..+++|+.++++.|.++.+   ..+  ++|+.|+++.|..
T Consensus       448 ~~~l~qL~~lDlS~N~L~~~~l~~~~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  448 LAQLPQLKVLDLSCNNLSEVTLPEALPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             hhhcCcceEEecccchhhhhhhhhhCCCcccceeeccCCcc
Confidence            88899999999999998543   222  5778887776653

>PF05729 NACHT: NACHT domain

Probab=99.00  E-value=1.5e-09  Score=93.32  Aligned_cols=114  Identities=19%  Similarity=0.286  Sum_probs=77.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCC----CCEEEEEEeCCCcCcc---chhHHh------------------hhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPG----FDVVIWVVVSKELKLE---TSQDDM------------------ILS   74 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~----f~~~~~v~~~~~~~~~---~~~~~i------------------~l~   74 (483)
                      |++.|+|.+|+||||++++++.+.. ....    +...+|+.........   .+...+                  ..+
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~   79 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLA-EEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEK   79 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHH-hcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHc
Confidence            5899999999999999999998772 2222    3456666554433222   222222                  346


Q ss_pred             CCcEEEEEcCCCCccccc---------ccc-CCCCC-CCCCCEEEEecCChhhh-------------hccCChHHHHHHH
Q 038724           75 TKKFLLLLDDLWETIDLS---------KIG-VPLPS-QKIVSKVVFTTHSEEVC-------------VDCFTPQESWQVF  130 (483)
Q Consensus        75 ~~~~LlvlDdv~~~~~~~---------~l~-~~~~~-~~~gs~ilvTtR~~~~~-------------l~~L~~~~a~~l~  130 (483)
                      .+++++|+|++++...-.         .+. ..++. ..++++++||+|.....             +++|++++..+++
T Consensus        80 ~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  159 (166)
T PF05729_consen   80 NKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYL  159 (166)
T ss_pred             CCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHH
Confidence            899999999997664311         111 12222 24579999999988772             8899999999888


Q ss_pred             HHHh
Q 038724          131 QMKV  134 (483)
Q Consensus       131 ~~~~  134 (483)
                      .++.
T Consensus       160 ~~~f  163 (166)
T PF05729_consen  160 RKYF  163 (166)
T ss_pred             HHHh
Confidence            7765

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

Probab=99.00  E-value=9.7e-12  Score=119.39  Aligned_cols=135  Identities=26%  Similarity=0.365  Sum_probs=94.8

Q ss_pred             CccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcC
Q 038724          288 VPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVS  367 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~  367 (483)
                      +++....+..++.++++.|+++.+|.....--|+.|.+++|+++.+|+. ++....|..||.+.|. +..+|..++.+..
T Consensus       113 ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lpLkvli~sNNkl~~lp~~-ig~~~tl~~ld~s~ne-i~slpsql~~l~s  190 (722)
T KOG0532|consen  113 IPEAICNLEALTFLDLSSNQLSHLPDGLCDLPLKVLIVSNNKLTSLPEE-IGLLPTLAHLDVSKNE-IQSLPSQLGYLTS  190 (722)
T ss_pred             cchhhhhhhHHHHhhhccchhhcCChhhhcCcceeEEEecCccccCCcc-cccchhHHHhhhhhhh-hhhchHHhhhHHH
Confidence            4455556667777777777777776654455577777777777777766 4566777777777774 6667777777777


Q ss_pred             CCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcc
Q 038724          368 LQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC  437 (483)
Q Consensus       368 L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~  437 (483)
                      |+.|+++.|++..+|+.+..| .|..||++.|++.            .+|-.|.+|..|+.|-|.+|++.
T Consensus       191 lr~l~vrRn~l~~lp~El~~L-pLi~lDfScNkis------------~iPv~fr~m~~Lq~l~LenNPLq  247 (722)
T KOG0532|consen  191 LRDLNVRRNHLEDLPEELCSL-PLIRLDFSCNKIS------------YLPVDFRKMRHLQVLQLENNPLQ  247 (722)
T ss_pred             HHHHHHhhhhhhhCCHHHhCC-ceeeeecccCcee------------ecchhhhhhhhheeeeeccCCCC
Confidence            777777777777777776644 5777777777754            34456777777777777777764

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.99  E-value=7.3e-10  Score=115.56  Aligned_cols=152  Identities=18%  Similarity=0.211  Sum_probs=103.0

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccC
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISF  375 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~  375 (483)
                      .+|+.|++++|.++.+|.. ...+|+.|+|++|.+..+|...   .++|+.|++++|+ +..+|..+.  .+|++|++++
T Consensus       220 ~nL~~L~Ls~N~LtsLP~~-l~~~L~~L~Ls~N~L~~LP~~l---~s~L~~L~Ls~N~-L~~LP~~l~--~sL~~L~Ls~  292 (754)
T PRK15370        220 GNIKTLYANSNQLTSIPAT-LPDTIQEMELSINRITELPERL---PSALQSLDLFHNK-ISCLPENLP--EELRYLSVYD  292 (754)
T ss_pred             cCCCEEECCCCccccCChh-hhccccEEECcCCccCcCChhH---hCCCCEEECcCCc-cCccccccC--CCCcEEECCC
Confidence            4678888888888877642 2357888888888888776653   2468888888886 456776654  4788888888


Q ss_pred             CCCCccCccccCCcCCCEEecCCCCCcCCCC-C-CCCc-------cchhhHhhhccccccccceeeccCccccCC--CCC
Q 038724          376 TSTLELPEELKALEKLKYLDMDDHQQVMEEG-N-CQSD-------DAESLLKEMLCLEQLNIIRLTSCSLCSLCG--LPT  444 (483)
Q Consensus       376 ~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~-~-~~l~-------~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~--l~~  444 (483)
                      |++..+|..+.  ++|+.|++++|.+..+|. + ..+.       ....+|..+  .++|+.|++++|++..+..  .+.
T Consensus       293 N~Lt~LP~~lp--~sL~~L~Ls~N~Lt~LP~~l~~sL~~L~Ls~N~Lt~LP~~l--~~sL~~L~Ls~N~L~~LP~~lp~~  368 (754)
T PRK15370        293 NSIRTLPAHLP--SGITHLNVQSNSLTALPETLPPGLKTLEAGENALTSLPASL--PPELQVLDVSKNQITVLPETLPPT  368 (754)
T ss_pred             CccccCcccch--hhHHHHHhcCCccccCCccccccceeccccCCccccCChhh--cCcccEEECCCCCCCcCChhhcCC
Confidence            88888876543  467777777777665543 1 1121       011122222  2589999999999875532  357


Q ss_pred             cccccceeeeeeee
Q 038724          445 VQCLTSRRLNLEVE  458 (483)
Q Consensus       445 l~~l~l~~~~~~~~  458 (483)
                      |+.|++++|++...
T Consensus       369 L~~LdLs~N~Lt~L  382 (754)
T PRK15370        369 ITTLDVSRNALTNL  382 (754)
T ss_pred             cCEEECCCCcCCCC
Confidence            88999998887643

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.90  E-value=1.5e-08  Score=100.23  Aligned_cols=165  Identities=15%  Similarity=0.123  Sum_probs=95.1

Q ss_pred             CCChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccc----------
Q 038724            1 IENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLET----------   66 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~----------   66 (483)
                      +||++++++|...+.+    ...+.+.|+|++|+|||++++.++++. ......-..+++......+...          
T Consensus        33 ~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l-~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~  111 (394)
T PRK00411         33 PHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEEL-EEIAVKVVYVYINCQIDRTRYAIFSEIARQLF  111 (394)
T ss_pred             CCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHhcCCcEEEEEECCcCCCHHHHHHHHHHHhc
Confidence            6899999999999843    244678999999999999999999987 2222122345565433222111          


Q ss_pred             -------------hhHHh----hhcCCcEEEEEcCCCCcc------ccccccCCCCCCCCCCE--EEEecCChhhh----
Q 038724           67 -------------SQDDM----ILSTKKFLLLLDDLWETI------DLSKIGVPLPSQKIVSK--VVFTTHSEEVC----  117 (483)
Q Consensus        67 -------------~~~~i----~l~~~~~LlvlDdv~~~~------~~~~l~~~~~~~~~gs~--ilvTtR~~~~~----  117 (483)
                                   +...+    .-.+++.+||||+++...      .+..+...+.. ..+++  +|.++......    
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~~~~l~  190 (394)
T PRK00411        112 GHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTFLYILD  190 (394)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcchhhhcC
Confidence                         11111    224567899999997642      12222222211 12222  44444433211    


Q ss_pred             -------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHc----CCchHHHHHHHH
Q 038724          118 -------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDC----GGLPLALTIVGR  168 (483)
Q Consensus       118 -------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c----~g~Plal~~~~~  168 (483)
                                   +.+++.++..+++...+.... ....-..+..+.+++.+    |..+.|+.++-.
T Consensus       191 ~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~-~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~  257 (394)
T PRK00411        191 PRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGF-YPGVVDDEVLDLIADLTAREHGDARVAIDLLRR  257 (394)
T ss_pred             HHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhc-ccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence                         778999999999887663211 01111233445555444    556777766643

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.89  E-value=2.4e-08  Score=101.53  Aligned_cols=163  Identities=13%  Similarity=0.144  Sum_probs=109.1

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~   61 (483)
                      ||.+..++.|.+++..++. ..+.++|+.|+||||+|+.+++......                  +.|.-.++++.+..
T Consensus        19 IGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDAas~   98 (830)
T PRK07003         19 VGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDAASN   98 (830)
T ss_pred             cCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEeccccc
Confidence            6889999999999998764 4568999999999999999988662110                  11222455554444


Q ss_pred             cCccch---hHHh---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccC
Q 038724           62 LKLETS---QDDM---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCF  121 (483)
Q Consensus        62 ~~~~~~---~~~i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L  121 (483)
                      ....++   ++..   ...++.-++|||+++....  +..++..+.......++|++|++....            ++++
T Consensus        99 rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~L  178 (830)
T PRK07003         99 RGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQM  178 (830)
T ss_pred             ccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCc
Confidence            433333   3322   2345667899999987643  555555554444467777766655433            8899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALTIV  166 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~~~  166 (483)
                      +.++..+.+.+....+..   .-..+..+.|++.++|... ++..+
T Consensus       179 s~eeIv~~L~~Il~~EgI---~id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        179 PAGHIVSHLERILGEERI---AFEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             CHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999999888765542   2235667889999988654 55443

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.89  E-value=5.2e-09  Score=111.29  Aligned_cols=221  Identities=12%  Similarity=0.137  Sum_probs=140.1

Q ss_pred             CCChhHHHHHHHHHhc---CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh------
Q 038724            1 IENPKQFYQVWRFLVK---KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM------   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~---~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i------   71 (483)
                      +||+.+++.|...+.+   +...++.+.|.+|||||+++++|.+...+.++.|-...+-....+.....+.+.+      
T Consensus         3 ~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~~   82 (849)
T COG3899           3 YGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMGQ   82 (849)
T ss_pred             CchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHHH
Confidence            6999999999999985   4567999999999999999999999874332332111111222222221111111      


Q ss_pred             -------------------------------------------------------------------hhcCCcEEEEEcC
Q 038724           72 -------------------------------------------------------------------ILSTKKFLLLLDD   84 (483)
Q Consensus        72 -------------------------------------------------------------------~l~~~~~LlvlDd   84 (483)
                                                                                         ..+.++.++|+||
T Consensus        83 ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~leD  162 (849)
T COG3899          83 LLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVLED  162 (849)
T ss_pred             HhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEEec
Confidence                                                                               4557799999999


Q ss_pred             CCCcc-ccccccCCCCCCCC-----CCEEE--EecCChhhh------------hccCChHHHHHHHHHHhcCCcccCCCC
Q 038724           85 LWETI-DLSKIGVPLPSQKI-----VSKVV--FTTHSEEVC------------VDCFTPQESWQVFQMKVGNETLVSHPA  144 (483)
Q Consensus        85 v~~~~-~~~~l~~~~~~~~~-----gs~il--vTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~~~~~~~~  144 (483)
                      +.-.+ ....+...+.....     -..+.  .|.+...-.            +.||+..+...+.....+...    ..
T Consensus       163 lhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~----~~  238 (849)
T COG3899         163 LHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK----LL  238 (849)
T ss_pred             ccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc----cc
Confidence            94332 21111111110000     01122  222222111            999999999999998886633    34


Q ss_pred             chhHHHHHHhHcCCchHHHHHHHHHhcCC------CCHHHHHHHHHHHHhcccCCCChHHHHHhhhcccCCCCchhhhHH
Q 038724          145 IHKPAKMVAKDCGGLPLALTIVGRAMAYK------KTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSC  218 (483)
Q Consensus       145 ~~~~~~~i~~~c~g~Plal~~~~~~l~~~------~~~~~w~~~~~~l~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~  218 (483)
                      ..+..+.|+++..|+|+-+..+-..+...      .+...|..-...    .......+.+...+..-.+.||. ..|+.
T Consensus       239 ~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~----i~~~~~~~~vv~~l~~rl~kL~~-~t~~V  313 (849)
T COG3899         239 PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIAS----LGILATTDAVVEFLAARLQKLPG-TTREV  313 (849)
T ss_pred             cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHh----cCCchhhHHHHHHHHHHHhcCCH-HHHHH
Confidence            45678999999999999999888887653      344555542211    12222333566678889999999 79999


Q ss_pred             HhhhcCCCCCCc
Q 038724          219 FLFCSPFPGDYR  230 (483)
Q Consensus       219 ~~~~a~fp~~~~  230 (483)
                      +...|++...+.
T Consensus       314 l~~AA~iG~~F~  325 (849)
T COG3899         314 LKAAACIGNRFD  325 (849)
T ss_pred             HHHHHHhCccCC
Confidence            999998876554

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.88  E-value=1.1e-08  Score=100.94  Aligned_cols=158  Identities=11%  Similarity=0.107  Sum_probs=100.4

Q ss_pred             CCChhHHHH---HHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC--CcCccchhHHh---h
Q 038724            1 IENPKQFYQ---VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK--ELKLETSQDDM---I   72 (483)
Q Consensus         1 vgr~~~~~~---l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~--~~~~~~~~~~i---~   72 (483)
                      ||++..+.+   +.+++.....+.+.|+|++|+||||+|+.+++..   ...|.   .+..+.  ..+++.+....   .
T Consensus        15 vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~~---~l~a~~~~~~~ir~ii~~~~~~~   88 (413)
T PRK13342         15 VGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT---DAPFE---ALSAVTSGVKDLREVIEEARQRR   88 (413)
T ss_pred             cCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh---CCCEE---EEecccccHHHHHHHHHHHHHhh
Confidence            678888776   8888888877889999999999999999999876   33331   122111  11222333332   2


Q ss_pred             hcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEE--ecCChhhh-------------hccCChHHHHHHHHHHhc
Q 038724           73 LSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVF--TTHSEEVC-------------VDCFTPQESWQVFQMKVG  135 (483)
Q Consensus        73 l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilv--TtR~~~~~-------------l~~L~~~~a~~l~~~~~~  135 (483)
                      ..+++.+|+||+++...  +.+.+...+.   .+..+++  ||.+....             +.+++.++..+++.....
T Consensus        89 ~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~  165 (413)
T PRK13342         89 SAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALE  165 (413)
T ss_pred             hcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHHH
Confidence            34578899999998652  3344433332   2444444  44443322             789999999999988664


Q ss_pred             CCcccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          136 NETLVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       136 ~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      ........-..+..+.+++.|+|.+..+.-+.
T Consensus       166 ~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~L  197 (413)
T PRK13342        166 DKERGLVELDDEALDALARLANGDARRALNLL  197 (413)
T ss_pred             HhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence            32100012335667889999999997765443

>PRK04195 replication factor C large subunit; Provisional

Probab=98.86  E-value=8.8e-08  Score=96.54  Aligned_cols=154  Identities=18%  Similarity=0.216  Sum_probs=98.6

Q ss_pred             CCChhHHHHHHHHHhcC----CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-----
Q 038724            1 IENPKQFYQVWRFLVKK----DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-----   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~----~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-----   71 (483)
                      ||+++.++++.+|+..-    ..+.+.|+|++|+||||+|+++++..     .++ .+-++.++......+...+     
T Consensus        17 vg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el-----~~~-~ielnasd~r~~~~i~~~i~~~~~   90 (482)
T PRK04195         17 VGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY-----GWE-VIELNASDQRTADVIERVAGEAAT   90 (482)
T ss_pred             cCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCC-EEEEcccccccHHHHHHHHHHhhc
Confidence            68899999999998742    26789999999999999999999977     233 2334444433322222222     


Q ss_pred             --hhcC-CcEEEEEcCCCCccc------cccccCCCCCCCCCCEEEEecCChh------hh-------hccCChHHHHHH
Q 038724           72 --ILST-KKFLLLLDDLWETID------LSKIGVPLPSQKIVSKVVFTTHSEE------VC-------VDCFTPQESWQV  129 (483)
Q Consensus        72 --~l~~-~~~LlvlDdv~~~~~------~~~l~~~~~~~~~gs~ilvTtR~~~------~~-------l~~L~~~~a~~l  129 (483)
                        .+.+ ++.+||||+++....      +..+...+..  ....+|+++.+..      +.       +.+++.++....
T Consensus        91 ~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~~~  168 (482)
T PRK04195         91 SGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPV  168 (482)
T ss_pred             cCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhHhccceEEEecCCCHHHHHHH
Confidence              2233 678999999976532      3333333321  2244555553221      11       778888888888


Q ss_pred             HHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          130 FQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      +.........   .-..+..+.|++.++|....+..
T Consensus       169 L~~i~~~egi---~i~~eaL~~Ia~~s~GDlR~ain  201 (482)
T PRK04195        169 LKRICRKEGI---ECDDEALKEIAERSGGDLRSAIN  201 (482)
T ss_pred             HHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence            8877754442   22356788999999987765543

>PLN03025 replication factor C subunit; Provisional

Probab=98.85  E-value=3.1e-08  Score=94.46  Aligned_cols=158  Identities=12%  Similarity=0.161  Sum_probs=100.1

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCC-EEEEEEeCCCcCccchhHHh---h----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFD-VVIWVVVSKELKLETSQDDM---I----   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~~v~~~~~~~~~~~~~~i---~----   72 (483)
                      ||.++.++.|.+++..+..+.+.++|++|+||||+|.++++...  ...|. .++-+..++......+...+   .    
T Consensus        16 ~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~eln~sd~~~~~~vr~~i~~~~~~~~   93 (319)
T PLN03025         16 VGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL--GPNYKEAVLELNASDDRGIDVVRNKIKMFAQKKV   93 (319)
T ss_pred             cCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh--cccCccceeeecccccccHHHHHHHHHHHHhccc
Confidence            57788889999888887777788999999999999999998761  11222 22223334333333333222   1    


Q ss_pred             --hcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcC
Q 038724           73 --LSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGN  136 (483)
Q Consensus        73 --l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~  136 (483)
                        ..++.-++|||+++....  ...+...+......+++++++......            ++++++++....+...+..
T Consensus        94 ~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~~~L~~i~~~  173 (319)
T PLN03025         94 TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEA  173 (319)
T ss_pred             cCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHHHHHHHHHHH
Confidence              124577999999986632  233333332233456666665332111            8889999988888887755


Q ss_pred             CcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          137 ETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       137 ~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ++.   .-.++..+.|++.++|....+
T Consensus       174 egi---~i~~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        174 EKV---PYVPEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             cCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            442   223456788999998876443

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

Probab=98.85  E-value=1.2e-10  Score=112.09  Aligned_cols=169  Identities=30%  Similarity=0.411  Sum_probs=128.1

Q ss_pred             cccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      +..+..|..+.+..|.+..++.. ..+..|.+|+|+.|+++.+|.. ++.++ |++|-+++|+ ++.+|..++.+..|..
T Consensus        94 ~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~-lC~lp-Lkvli~sNNk-l~~lp~~ig~~~tl~~  170 (722)
T KOG0532|consen   94 ACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDG-LCDLP-LKVLIVSNNK-LTSLPEEIGLLPTLAH  170 (722)
T ss_pred             HHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhccchhhcCChh-hhcCc-ceeEEEecCc-cccCCcccccchhHHH
Confidence            33455566677777777766654 5677788888888888877776 56666 7888888885 7778888887788888


Q ss_pred             EeccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcc----ccCCCCCcc
Q 038724          371 LDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC----SLCGLPTVQ  446 (483)
Q Consensus       371 L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~----~l~~l~~l~  446 (483)
                      ||.+.|.+..+|..++++.+|+.|+++.|++            ...|+++..| .|..|+++.|++.    ++.+|..|+
T Consensus       171 ld~s~nei~slpsql~~l~slr~l~vrRn~l------------~~lp~El~~L-pLi~lDfScNkis~iPv~fr~m~~Lq  237 (722)
T KOG0532|consen  171 LDVSKNEIQSLPSQLGYLTSLRDLNVRRNHL------------EDLPEELCSL-PLIRLDFSCNKISYLPVDFRKMRHLQ  237 (722)
T ss_pred             hhhhhhhhhhchHHhhhHHHHHHHHHhhhhh------------hhCCHHHhCC-ceeeeecccCceeecchhhhhhhhhe
Confidence            8888888888888888888888888888874            4566677755 6899999999984    578999999


Q ss_pred             cccceeeeeeeeecccc-cCccc--eeecCCcc
Q 038724          447 CLTSRRLNLEVEDWHKC-TGEVH--KVLQSGGS  476 (483)
Q Consensus       447 ~l~l~~~~~~~~~~~~~-~~~~~--~~~~~~~~  476 (483)
                      .|.+.+|-+...+..-| .|.+|  ++|+..-+
T Consensus       238 ~l~LenNPLqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  238 VLQLENNPLQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             eeeeccCCCCCChHHHHhccceeeeeeecchhc
Confidence            99999999988776655 45677  66665433

>PRK06893 DNA replication initiation factor; Validated

Probab=98.82  E-value=1.3e-08  Score=91.90  Aligned_cols=142  Identities=15%  Similarity=0.147  Sum_probs=86.2

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-ccchhHHhhhcCCcEEEEEcCCCCc---cccc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-LETSQDDMILSTKKFLLLLDDLWET---IDLS   92 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-~~~~~~~i~l~~~~~LlvlDdv~~~---~~~~   92 (483)
                      ...+.+.|+|++|+|||.|+.++++...   .....+.|+++..... ..++...  + .+.-+|||||+|..   ..|.
T Consensus        37 ~~~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~y~~~~~~~~~~~~~~~~--~-~~~dlLilDDi~~~~~~~~~~  110 (229)
T PRK06893         37 LQQPFFYIWGGKSSGKSHLLKAVSNHYL---LNQRTAIYIPLSKSQYFSPAVLEN--L-EQQDLVCLDDLQAVIGNEEWE  110 (229)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEeeHHHhhhhhHHHHhh--c-ccCCEEEEeChhhhcCChHHH
Confidence            3446789999999999999999999862   2233467777642111 1111111  1 23458999999864   2232


Q ss_pred             -cccCCCCCC-CCCCEEEE-ecCCh---------hhh----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHH
Q 038724           93 -KIGVPLPSQ-KIVSKVVF-TTHSE---------EVC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAK  150 (483)
Q Consensus        93 -~l~~~~~~~-~~gs~ilv-TtR~~---------~~~----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~  150 (483)
                       .+...+... ..|+.+++ |++..         .+.          ++++++++.++++.+.+....   ..-.++..+
T Consensus       111 ~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~---l~l~~~v~~  187 (229)
T PRK06893        111 LAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRG---IELSDEVAN  187 (229)
T ss_pred             HHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcC---CCCCHHHHH
Confidence             122222211 23555554 44431         111          889999999999998876443   233456678


Q ss_pred             HHHhHcCCchHHHHHHH
Q 038724          151 MVAKDCGGLPLALTIVG  167 (483)
Q Consensus       151 ~i~~~c~g~Plal~~~~  167 (483)
                      -|++.+.|....+..+-
T Consensus       188 ~L~~~~~~d~r~l~~~l  204 (229)
T PRK06893        188 FLLKRLDRDMHTLFDAL  204 (229)
T ss_pred             HHHHhccCCHHHHHHHH
Confidence            88888887776665443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.82  E-value=8.6e-08  Score=96.24  Aligned_cols=163  Identities=13%  Similarity=0.144  Sum_probs=107.2

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccC-----C------------------CCCCEEEEE
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSE-----R------------------PGFDVVIWV   56 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~-----~------------------~~f~~~~~v   56 (483)
                      ||-+..++.|.+++..++.. .+.++|+.|+||||+|+.+++.....     .                  +.|.-.+.+
T Consensus        19 IGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpDviEI   98 (700)
T PRK12323         19 VGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVDYIEM   98 (700)
T ss_pred             cCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCcceEe
Confidence            68888999999999987654 56899999999999999998876210     0                  011123444


Q ss_pred             EeCCCcCccch---hHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEE-ecCChhhh----------
Q 038724           57 VVSKELKLETS---QDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVF-TTHSEEVC----------  117 (483)
Q Consensus        57 ~~~~~~~~~~~---~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilv-TtR~~~~~----------  117 (483)
                      ..+....+.++   .+.+   ...++.-++|||+++...  ....++..+.....++++|+ ||....+.          
T Consensus        99 dAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f  178 (700)
T PRK12323         99 DAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQF  178 (700)
T ss_pred             cccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhc
Confidence            44433333333   3332   245677899999998663  45566666654444555555 44444333          


Q ss_pred             -hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          118 -VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       118 -l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                       +..++.++..+.+.+....+..   ....+..+.|++.++|.|.....+
T Consensus       179 ~f~~ls~eei~~~L~~Il~~Egi---~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        179 NLKQMPPGHIVSHLDAILGEEGI---AHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             ccCCCChHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence             8899999999988877654431   222455688999999999655433

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.82  E-value=8.1e-08  Score=96.63  Aligned_cols=161  Identities=17%  Similarity=0.129  Sum_probs=106.7

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccC------------------CCCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSE------------------RPGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~------------------~~~f~~~~~v~~~~~   61 (483)
                      ||.+..+..|..++..++. ..+.++|+.|+||||+|+.+++.....                  .+.+.-++.+..+..
T Consensus        18 IGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEIDAAs~   97 (702)
T PRK14960         18 VGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEIDAASR   97 (702)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEeccccc
Confidence            6899999999999998764 577999999999999999998876210                  011212344444433


Q ss_pred             cCccch---hHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccC
Q 038724           62 LKLETS---QDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCF  121 (483)
Q Consensus        62 ~~~~~~---~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L  121 (483)
                      ....++   ...+   ...++.-++|||+|+...  ....+...+.....+.++|++|.+....            +.++
T Consensus        98 ~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpL  177 (702)
T PRK14960         98 TKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPL  177 (702)
T ss_pred             CCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCC
Confidence            333333   2222   334677899999998653  3445555554444456777766553222            8899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      +.++..+.+...+..+.   ..-..+....|++.++|.+..+.
T Consensus       178 s~eEI~k~L~~Il~kEg---I~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        178 AVDEITKHLGAILEKEQ---IAADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             CHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHH
Confidence            99999988888775543   12334567889999999775543

>PLN03150 hypothetical protein; Provisional

Probab=98.81  E-value=1.1e-08  Score=105.99  Aligned_cols=107  Identities=21%  Similarity=0.238  Sum_probs=88.0

Q ss_pred             cccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC-CccCccccCCcCCCEEecC
Q 038724          319 HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST-LELPEELKALEKLKYLDMD  397 (483)
Q Consensus       319 ~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i-~~lp~~~~~l~~L~~L~l~  397 (483)
                      .+..|+|++|.+.+..+..++.+++|+.|+|++|.+.+.+|..++.+++|++|++++|++ +.+|..++++++|++|+|+
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            478899999999877777789999999999999988889999999999999999999995 4788889999999999999


Q ss_pred             CCCCcCCCCCCCCccchhhHhhhccc-cccccceeeccCc
Q 038724          398 DHQQVMEEGNCQSDDAESLLKEMLCL-EQLNIIRLTSCSL  436 (483)
Q Consensus       398 ~n~~~~~p~~~~l~~~~~~~~~l~~l-~~L~~L~l~~~~l  436 (483)
                      +|.+...           .|..++.+ .++..+++.+|+.
T Consensus       499 ~N~l~g~-----------iP~~l~~~~~~~~~l~~~~N~~  527 (623)
T PLN03150        499 GNSLSGR-----------VPAALGGRLLHRASFNFTDNAG  527 (623)
T ss_pred             CCccccc-----------CChHHhhccccCceEEecCCcc
Confidence            9987643           33344432 4667788888863

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.81  E-value=2.8e-08  Score=90.19  Aligned_cols=155  Identities=11%  Similarity=0.078  Sum_probs=92.6

Q ss_pred             hhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc-cchhHHhhhcCCcEEEEE
Q 038724            4 PKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL-ETSQDDMILSTKKFLLLL   82 (483)
Q Consensus         4 ~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~-~~~~~~i~l~~~~~Llvl   82 (483)
                      +..++++.+++.....+.+.|+|++|+|||++|+++++...   ......+|++++.-... .++..  .+ .+.-+|||
T Consensus        23 ~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~---~~~~~~~~i~~~~~~~~~~~~~~--~~-~~~~lLvI   96 (226)
T TIGR03420        23 AELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE---ERGKSAIYLPLAELAQADPEVLE--GL-EQADLVCL   96 (226)
T ss_pred             HHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH---hcCCcEEEEeHHHHHHhHHHHHh--hc-ccCCEEEE
Confidence            45677888887666677999999999999999999998762   22334566665433211 11111  12 23348999


Q ss_pred             cCCCCccc----cccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCc
Q 038724           83 DDLWETID----LSKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        83 Ddv~~~~~----~~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      ||++....    ...+...+.. ...+.++|+|++.....                   +.++++++...++........
T Consensus        97 Ddi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~  176 (226)
T TIGR03420        97 DDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRG  176 (226)
T ss_pred             eChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC
Confidence            99975432    2222222211 12235788887743210                   677788777777766543222


Q ss_pred             ccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                         ..-..+..+.+++.+.|+|..+.-+.
T Consensus       177 ---~~~~~~~l~~L~~~~~gn~r~L~~~l  202 (226)
T TIGR03420       177 ---LQLPDEVADYLLRHGSRDMGSLMALL  202 (226)
T ss_pred             ---CCCCHHHHHHHHHhccCCHHHHHHHH
Confidence               12234556777777888877665554

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.

>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=98.80  E-value=1.6e-07  Score=81.77  Aligned_cols=162  Identities=14%  Similarity=0.107  Sum_probs=87.8

Q ss_pred             CCChhHHHHHHHHHh-----cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            1 IENPKQFYQVWRFLV-----KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         1 vgr~~~~~~l~~~l~-----~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      ||-+..++.+.-.+.     .+....+.+||++|+||||||..+++..   ...|.   +.+...-....++..-+..-+
T Consensus        27 iGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~~---~~sg~~i~k~~dl~~il~~l~  100 (233)
T PF05496_consen   27 IGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNFK---ITSGPAIEKAGDLAAILTNLK  100 (233)
T ss_dssp             -S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--EE---EEECCC--SCHHHHHHHHT--
T ss_pred             cCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCeE---eccchhhhhHHHHHHHHHhcC
Confidence            566777776655443     2356789999999999999999999988   44442   232221112233333332234


Q ss_pred             CcEEEEEcCCCCcc--ccccc------------cCCCCC-------CCCCCEEEEecCChhhh------------hccCC
Q 038724           76 KKFLLLLDDLWETI--DLSKI------------GVPLPS-------QKIVSKVVFTTHSEEVC------------VDCFT  122 (483)
Q Consensus        76 ~~~LlvlDdv~~~~--~~~~l------------~~~~~~-------~~~gs~ilvTtR~~~~~------------l~~L~  122 (483)
                      ++-+|++|+++.-.  +-+.+            ...-+.       -.+-+-|=.|||.-.+.            ++..+
T Consensus       101 ~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~  180 (233)
T PF05496_consen  101 EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYS  180 (233)
T ss_dssp             TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE----T
T ss_pred             CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecchhcCC
Confidence            56688899997541  11111            111110       01234566788876554            77788


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhc
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMA  171 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~  171 (483)
                      .+|-.+++.+.+..-.   ..-..+.+.+|+.+|.|-|.-..-+-+.++
T Consensus       181 ~~el~~Iv~r~a~~l~---i~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  181 EEELAKIVKRSARILN---IEIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             HHHHHHHHHHCCHCTT----EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhC---CCcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            8888888876664333   233457789999999999976655444443

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.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.79  E-value=7.4e-08  Score=93.13  Aligned_cols=159  Identities=13%  Similarity=0.088  Sum_probs=99.6

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCC-EEEEEEeCCCc-----------C-----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFD-VVIWVVVSKEL-----------K-----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~~v~~~~~~-----------~-----   63 (483)
                      +|+++.++.+.+++..+..+.+.++|++|+||||+|+++++... . ..+. ..+++++++-.           .     
T Consensus        18 ~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~-~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~   95 (337)
T PRK12402         18 LGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY-G-DPWENNFTEFNVADFFDQGKKYLVEDPRFAHFL   95 (337)
T ss_pred             cCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc-C-cccccceEEechhhhhhcchhhhhcCcchhhhh
Confidence            68999999999999888767889999999999999999988762 1 1111 23444443210           0     


Q ss_pred             ---------ccchhHHh--------hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh-------
Q 038724           64 ---------LETSQDDM--------ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        64 ---------~~~~~~~i--------~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~-------  117 (483)
                               ..+..+.+        ...+.+-+||+||++....  ...+...+......+++|+|+......       
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr  175 (337)
T PRK12402         96 GTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSR  175 (337)
T ss_pred             hhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCC
Confidence                     01111111        1224456899999975532  223333332233346777776443211       


Q ss_pred             -----hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          118 -----VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       118 -----l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                           +.+++.++..+.+...+.....   .-..+..+.+++.++|.+..+.
T Consensus       176 ~~~v~~~~~~~~~~~~~l~~~~~~~~~---~~~~~al~~l~~~~~gdlr~l~  224 (337)
T PRK12402        176 CLPLFFRAPTDDELVDVLESIAEAEGV---DYDDDGLELIAYYAGGDLRKAI  224 (337)
T ss_pred             ceEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHH
Confidence                 7788998988888877654431   2335668889999988765553

>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=98.79  E-value=2.1e-08  Score=84.21  Aligned_cols=111  Identities=17%  Similarity=0.148  Sum_probs=73.7

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchh-----------H
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ-----------D   69 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~-----------~   69 (483)
                      +||++.+.++...+.....+.+.|+|++|+|||++++++++...   ..-..++++............           .
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF---RPGAPFLYLNASDLLEGLVVAELFGHFLVRLLF   77 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh---cCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHH
Confidence            58999999999999886667899999999999999999999872   222345666655433322111           1


Q ss_pred             HhhhcCCcEEEEEcCCCCc-----cccccccCCCCCC---CCCCEEEEecCCh
Q 038724           70 DMILSTKKFLLLLDDLWET-----IDLSKIGVPLPSQ---KIVSKVVFTTHSE  114 (483)
Q Consensus        70 ~i~l~~~~~LlvlDdv~~~-----~~~~~l~~~~~~~---~~gs~ilvTtR~~  114 (483)
                      ......++.++|+||++..     ..+..........   ..+..+++||...
T Consensus        78 ~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          78 ELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             HhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence            1244567889999999853     1122222222211   3567888887765

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=1.2e-07  Score=91.91  Aligned_cols=160  Identities=16%  Similarity=0.126  Sum_probs=101.7

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~   61 (483)
                      ||-+..++.+...+..++. ..+.++|+.|+||||+|+.+++......                  +.+....++..+..
T Consensus        19 iGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~~~~~   98 (363)
T PRK14961         19 IGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEIDAASR   98 (363)
T ss_pred             cChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEeccccc
Confidence            6888889999999987654 4578999999999999999998762100                  00111233333222


Q ss_pred             cCccc---hhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccC
Q 038724           62 LKLET---SQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCF  121 (483)
Q Consensus        62 ~~~~~---~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L  121 (483)
                      ....+   +...+   ...+++-++|+|+++...  .+..+...+.......++|++|.+..-.            +.++
T Consensus        99 ~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l  178 (363)
T PRK14961         99 TKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKII  178 (363)
T ss_pred             CCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCC
Confidence            22222   22222   223566799999998664  2445555554444456677666543222            8899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      +.++..+.+...+...+   ..-.++.++.|++.++|.|..+
T Consensus       179 ~~~el~~~L~~~~~~~g---~~i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        179 SEEKIFNFLKYILIKES---IDTDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             CHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHH
Confidence            99999888887664433   1223456788999999988644

>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=98.79  E-value=5.6e-09  Score=72.90  Aligned_cols=59  Identities=34%  Similarity=0.456  Sum_probs=31.1

Q ss_pred             cccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          319 HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       319 ~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      +|++|++++|.++.+++..|..+++|++|++++|.+....|..|..+++|++|++++|+
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45555555555555555555555555555555554433334445555555555555543

...

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.78  E-value=1.3e-07  Score=89.91  Aligned_cols=157  Identities=11%  Similarity=0.139  Sum_probs=107.9

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcc---cCCCCCCEEEEEE-eCCCcCccchhHHh----
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFC---SERPGFDVVIWVV-VSKELKLETSQDDM----   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~---~~~~~f~~~~~v~-~~~~~~~~~~~~~i----   71 (483)
                      ||-+..++.+.+++..+.. +.+.++|+.|+||||+|+.+++..-   ....|+|...|.. -+......++.+-+    
T Consensus         7 ~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~~~~~~   86 (313)
T PRK05564          7 IGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNIIEEVN   86 (313)
T ss_pred             cCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHHHHHHh
Confidence            5788889999999987755 4668999999999999999998641   1235667666655 33444444433322    


Q ss_pred             --hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhc
Q 038724           72 --ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVG  135 (483)
Q Consensus        72 --~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~  135 (483)
                        ...+++-++|+|+++..  ..+..+...+.+...++.+|++|.+....            +.++++++....+.....
T Consensus        87 ~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~~  166 (313)
T PRK05564         87 KKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYKYN  166 (313)
T ss_pred             cCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHHhc
Confidence              34456677778887544  44667777777667788888887665433            778888988877765432


Q ss_pred             CCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          136 NETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       136 ~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      .       ...+.++.++..++|.|.-+.
T Consensus       167 ~-------~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        167 D-------IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             C-------CCHHHHHHHHHHcCCCHHHHH
Confidence            1       113447788999999886554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.77  E-value=1.8e-07  Score=89.75  Aligned_cols=158  Identities=9%  Similarity=0.105  Sum_probs=99.1

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCE-EEEEEeCCCcCccchhHHh---h----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDV-VIWVVVSKELKLETSQDDM---I----   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~-~~~v~~~~~~~~~~~~~~i---~----   72 (483)
                      +|+++.++.+..++..+..+.+.|+|++|+||||+|+.+++... ... +.. .+-+..+.......+...+   .    
T Consensus        20 ~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~-~~~-~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~   97 (319)
T PRK00440         20 VGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY-GED-WRENFLELNASDERGIDVIRNKIKEFARTAP   97 (319)
T ss_pred             cCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc-CCc-cccceEEeccccccchHHHHHHHHHHHhcCC
Confidence            58999999999999887777789999999999999999998762 111 211 1222222222222222222   1    


Q ss_pred             hc-CCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCC
Q 038724           73 LS-TKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        73 l~-~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~  137 (483)
                      .. ..+-++++|+++....  ...+...+......+++|+++....-.            +.++++++....+...+...
T Consensus        98 ~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~~~~~~  177 (319)
T PRK00440         98 VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENE  177 (319)
T ss_pred             CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHHHHHHc
Confidence            11 3466899999865422  233333333333446677665332111            77899999888888777544


Q ss_pred             cccCCCCchhHHHHHHhHcCCchHHH
Q 038724          138 TLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       138 ~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ..   .-..+..+.+++.++|.+.-+
T Consensus       178 ~~---~i~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        178 GI---EITDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             CC---CCCHHHHHHHHHHcCCCHHHH
Confidence            31   223556888999999987654

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.75  E-value=1.4e-07  Score=97.86  Aligned_cols=163  Identities=16%  Similarity=0.149  Sum_probs=106.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEE-EEEEcCCCCcHHHHHHHHHhhcccCCC------------------CCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVGI-IGLFGTGGVGKTTILKQINNRFCSERP------------------GFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~-v~i~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~~v~~~~~   61 (483)
                      ||-+..+..|.+++..++... +.++|+.|+||||+|+.+++.......                  .|.-++++.....
T Consensus        19 IGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEidAas~   98 (944)
T PRK14949         19 VGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVDAASR   98 (944)
T ss_pred             cCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEeccccc
Confidence            688889999999998876655 589999999999999999987722110                  1111233433222


Q ss_pred             cC---ccchhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCCh-hhh-----------hccC
Q 038724           62 LK---LETSQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VDCF  121 (483)
Q Consensus        62 ~~---~~~~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~~L  121 (483)
                      ..   ++++...+   ...+++-++|||+++..  .....++..+-......++|++|.+. .+.           +.++
T Consensus        99 ~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~f~fkpL  178 (944)
T PRK14949         99 TKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSL  178 (944)
T ss_pred             cCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheEEeCCCC
Confidence            22   33333333   34577889999999765  34555555554444456666555443 222           8899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      +.++..+.+.+....+.   ..-..+..+.|++.++|.|.-+..+
T Consensus       179 s~eEI~~~L~~il~~Eg---I~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        179 TQDEIGTQLNHILTQEQ---LPFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             CHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            99999998888764433   1233456888999999988654433

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

Probab=98.75  E-value=1.6e-09  Score=103.82  Aligned_cols=152  Identities=22%  Similarity=0.213  Sum_probs=88.7

Q ss_pred             ceEEEEccccccccccC------CCCC-CcccEEEecCCccccc----cchhhhcCCCccEEEccCCccCc----cCCcc
Q 038724          297 GLRRMSLMNNQIKTLLN------TPSC-PHLLTLFLNDNYLQDI----KNGFFQFMPCLKVLNLSYNRFLT----KLPSG  361 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~------~~~~-~~L~~L~l~~n~~~~~----~~~~~~~l~~L~~L~l~~n~~~~----~~p~~  361 (483)
                      .++.|++++|.++....      ...+ ++|+.|++++|.++..    ....+..+++|++|++++|.+.+    .++..
T Consensus       109 ~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~  188 (319)
T cd00116         109 SLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEG  188 (319)
T ss_pred             cccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHH
Confidence            37777777776652110      1234 6777777777776621    12234555677777777776442    23334


Q ss_pred             cccCcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhc-----ccccccccee
Q 038724          362 ISKLVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEML-----CLEQLNIIRL  431 (483)
Q Consensus       362 ~~~l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~-----~l~~L~~L~l  431 (483)
                      +..+++|++|++++|.+..     ++..+..+++|++|++++|.+..           ..+..+.     ..++|+.|++
T Consensus       189 l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~-----------~~~~~l~~~~~~~~~~L~~L~l  257 (319)
T cd00116         189 LKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTD-----------AGAAALASALLSPNISLLTLSL  257 (319)
T ss_pred             HHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCch-----------HHHHHHHHHHhccCCCceEEEc
Confidence            4455677777777776542     33345566777777777776432           1111111     2367788888


Q ss_pred             eccCcc---------ccCCCCCcccccceeeeeeeee
Q 038724          432 TSCSLC---------SLCGLPTVQCLTSRRLNLEVED  459 (483)
Q Consensus       432 ~~~~l~---------~l~~l~~l~~l~l~~~~~~~~~  459 (483)
                      ++|.+.         .+..++.|+.+++++|+++..+
T Consensus       258 ~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~~~  294 (319)
T cd00116         258 SCNDITDDGAKDLAEVLAEKESLLELDLRGNKFGEEG  294 (319)
T ss_pred             cCCCCCcHHHHHHHHHHhcCCCccEEECCCCCCcHHH
Confidence            877763         3455567777777777766543

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

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

Probab=98.75  E-value=2.1e-09  Score=95.74  Aligned_cols=124  Identities=26%  Similarity=0.268  Sum_probs=93.2

Q ss_pred             CCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEec
Q 038724          317 CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDM  396 (483)
Q Consensus       317 ~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l  396 (483)
                      ...|..+|||+|.++.+..+ ..-.|.+|+|++|+|++.. + +++..+.+|+.|||++|.+.++...-.+|-+.+.|.|
T Consensus       283 Wq~LtelDLS~N~I~~iDES-vKL~Pkir~L~lS~N~i~~-v-~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~L  359 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDES-VKLAPKLRRLILSQNRIRT-V-QNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKL  359 (490)
T ss_pred             Hhhhhhccccccchhhhhhh-hhhccceeEEeccccceee-e-hhhhhcccceEeecccchhHhhhhhHhhhcCEeeeeh
Confidence            46788888888888887766 6677888888888886433 3 3478888888888888887777544456677888888


Q ss_pred             CCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc------cccCCCCCcccccceeeeee
Q 038724          397 DDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL------CSLCGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       397 ~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l------~~l~~l~~l~~l~l~~~~~~  456 (483)
                      ++|.             ......++.|-+|..|++++|++      ..+.++|-|..+.+.+|-+.
T Consensus       360 a~N~-------------iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl~  412 (490)
T KOG1259|consen  360 AQNK-------------IETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPLA  412 (490)
T ss_pred             hhhh-------------HhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCcc
Confidence            8887             34556788888999999999986      34667777777777666544

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.74  E-value=2.2e-07  Score=94.43  Aligned_cols=162  Identities=13%  Similarity=0.129  Sum_probs=103.7

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~   61 (483)
                      ||.+..+..|..++..++. +.+.++|+.|+||||+|+.+++......                  +.|.-++.+..+..
T Consensus        19 IGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEidaAs~   98 (709)
T PRK08691         19 VGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEIDAASN   98 (709)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEEecccc
Confidence            6899999999999998764 4689999999999999999988641100                  01111233443333


Q ss_pred             cCcc---chhHHh---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccC
Q 038724           62 LKLE---TSQDDM---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCF  121 (483)
Q Consensus        62 ~~~~---~~~~~i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L  121 (483)
                      ....   ++....   ...+++-++|||+++....  ...+...+......+++|++|.+..-.            +.++
T Consensus        99 ~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~f~~L  178 (709)
T PRK08691         99 TGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNM  178 (709)
T ss_pred             CCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhhcCCC
Confidence            3333   333222   2346778999999976532  334444443333345666655443221            7789


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      +.++....+.+.+..+..   .-..+..+.|++.++|.+.-+..
T Consensus       179 s~eeI~~~L~~Il~kEgi---~id~eAL~~Ia~~A~GslRdAln  219 (709)
T PRK08691        179 TAQQVADHLAHVLDSEKI---AYEPPALQLLGRAAAGSMRDALS  219 (709)
T ss_pred             CHHHHHHHHHHHHHHcCC---CcCHHHHHHHHHHhCCCHHHHHH
Confidence            999999888887755441   22345678999999998855543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.73  E-value=1.6e-07  Score=91.91  Aligned_cols=163  Identities=12%  Similarity=0.111  Sum_probs=92.3

Q ss_pred             CCChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCC---CEEEEEEeCCCcCccchh-----
Q 038724            1 IENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGF---DVVIWVVVSKELKLETSQ-----   68 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f---~~~~~v~~~~~~~~~~~~-----   68 (483)
                      +||++++++|..++.+    ...+.+.|+|++|+|||+++++++++........   -..+|+......+...++     
T Consensus        18 ~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~   97 (365)
T TIGR02928        18 VHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELAN   97 (365)
T ss_pred             CCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHH
Confidence            6999999999999874    3446899999999999999999998752111111   134566544322211111     


Q ss_pred             --------------------HHh----hhcCCcEEEEEcCCCCcc-c----cccccCC--CCCCC-CCCEEEEecCChhh
Q 038724           69 --------------------DDM----ILSTKKFLLLLDDLWETI-D----LSKIGVP--LPSQK-IVSKVVFTTHSEEV  116 (483)
Q Consensus        69 --------------------~~i----~l~~~~~LlvlDdv~~~~-~----~~~l~~~--~~~~~-~gs~ilvTtR~~~~  116 (483)
                                          ..+    .-.+++++||||+++... .    +..+...  ..... ....+|+++.....
T Consensus        98 ~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~  177 (365)
T TIGR02928        98 QLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKF  177 (365)
T ss_pred             HHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcch
Confidence                                111    224668899999997662 1    1222211  11111 12233444432221


Q ss_pred             -----------------hhccCChHHHHHHHHHHhcCC--cccCCCCchhHHHHHHhHcCCchHHH
Q 038724          117 -----------------CVDCFTPQESWQVFQMKVGNE--TLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       117 -----------------~l~~L~~~~a~~l~~~~~~~~--~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                                       .+.+.+.++..+++...+...  .....++..+.+..++..+.|.|..+
T Consensus       178 ~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~a  243 (365)
T TIGR02928       178 RENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKA  243 (365)
T ss_pred             HhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHH
Confidence                             177889999999998776311  10111222234445666667887544

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.

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

Probab=98.72  E-value=6.8e-09  Score=99.55  Aligned_cols=160  Identities=24%  Similarity=0.244  Sum_probs=114.0

Q ss_pred             ccccccceEEEEccccccccccCC--CCC---CcccEEEecCCcccccc----chhhhcC-CCccEEEccCCccCc----
Q 038724          291 DALKWLGLRRMSLMNNQIKTLLNT--PSC---PHLLTLFLNDNYLQDIK----NGFFQFM-PCLKVLNLSYNRFLT----  356 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~~~~~--~~~---~~L~~L~l~~n~~~~~~----~~~~~~l-~~L~~L~l~~n~~~~----  356 (483)
                      .+...++++.|++++|.+......  ..+   ++|++|++++|.+....    ...+..+ ++|+.|++++|.+.+    
T Consensus        76 ~l~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~  155 (319)
T cd00116          76 GLTKGCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCE  155 (319)
T ss_pred             HHHhcCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHH
Confidence            334577999999999988643221  112   56999999999876321    2224556 889999999997653    


Q ss_pred             cCCcccccCcCCCEEeccCCCCC-----ccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhcccccccccee
Q 038724          357 KLPSGISKLVSLQHLDISFTSTL-----ELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRL  431 (483)
Q Consensus       357 ~~p~~~~~l~~L~~L~l~~~~i~-----~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l  431 (483)
                      .++..+..+.+|++|++++|.+.     .++..+..+++|++|++++|.+....       .......+..+++|+.|++
T Consensus       156 ~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~-------~~~l~~~~~~~~~L~~L~l  228 (319)
T cd00116         156 ALAKALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEG-------ASALAETLASLKSLEVLNL  228 (319)
T ss_pred             HHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHH-------HHHHHHHhcccCCCCEEec
Confidence            34445677789999999999876     34555666789999999999854220       1233455677899999999


Q ss_pred             eccCccc-----c-C----CCCCcccccceeeeeee
Q 038724          432 TSCSLCS-----L-C----GLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       432 ~~~~l~~-----l-~----~l~~l~~l~l~~~~~~~  457 (483)
                      ++|++..     + .    ..+.|+.|+++++.++.
T Consensus       229 s~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~  264 (319)
T cd00116         229 GDNNLTDAGAAALASALLSPNISLLTLSLSCNDITD  264 (319)
T ss_pred             CCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCc
Confidence            9998752     1 1    23789999999888863

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).

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=2.6e-07  Score=92.60  Aligned_cols=160  Identities=15%  Similarity=0.091  Sum_probs=103.0

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCCCCC------------------CEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSERPGF------------------DVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f------------------~~~~~v~~~~~   61 (483)
                      ||-+..++.|..++..+... .+.++|++|+||||+|+.+++.... .+.+                  ..+.++..+..
T Consensus        17 vGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c-~~~~~~~cg~C~sc~~i~~~~h~dv~el~~~~~   95 (504)
T PRK14963         17 VGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNC-SGEDPKPCGECESCLAVRRGAHPDVLEIDAASN   95 (504)
T ss_pred             cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhc-cCCCCCCCCcChhhHHHhcCCCCceEEeccccc
Confidence            57788888898998887654 5699999999999999999887721 1111                  11334443333


Q ss_pred             cCc---cchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecC-Chhhh-----------hccC
Q 038724           62 LKL---ETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTH-SEEVC-----------VDCF  121 (483)
Q Consensus        62 ~~~---~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR-~~~~~-----------l~~L  121 (483)
                      ...   +++...+   ...+++-++|||+++...  .+..+...+........+|++|. ...+.           +.++
T Consensus        96 ~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f~~l  175 (504)
T PRK14963         96 NSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRL  175 (504)
T ss_pred             CCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEecCC
Confidence            222   2222222   234677799999997553  35555555544434455555443 33221           8899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      +.++....+...+...+.   .-..+..+.|++.++|.+.-+.
T Consensus       176 s~~el~~~L~~i~~~egi---~i~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        176 TEEEIAGKLRRLLEAEGR---EAEPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             CHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHH
Confidence            999999999887754441   2235668899999999886553

>PF13173 AAA_14: AAA domain

Probab=98.70  E-value=1.8e-08  Score=82.33  Aligned_cols=94  Identities=21%  Similarity=0.243  Sum_probs=67.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccc----hhHHh--hhcCCcEEEEEcCCCCcccccc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLET----SQDDM--ILSTKKFLLLLDDLWETIDLSK   93 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~----~~~~i--~l~~~~~LlvlDdv~~~~~~~~   93 (483)
                      +++.|.|+.|+||||++++++++.   . ....++|++..+......    +.+.+  ....+..+++||++.....|..
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq~~~~~~~   78 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQYLPDWED   78 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh---c-ccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhhhhccHHH
Confidence            589999999999999999999877   2 335577887765544221    11222  1234788999999998888877


Q ss_pred             ccCCCCCCCCCCEEEEecCChhhh
Q 038724           94 IGVPLPSQKIVSKVVFTTHSEEVC  117 (483)
Q Consensus        94 l~~~~~~~~~gs~ilvTtR~~~~~  117 (483)
                      ....+-+..+..+|++|+.+....
T Consensus        79 ~lk~l~d~~~~~~ii~tgS~~~~l  102 (128)
T PF13173_consen   79 ALKFLVDNGPNIKIILTGSSSSLL  102 (128)
T ss_pred             HHHHHHHhccCceEEEEccchHHH
Confidence            666665555568999998876553

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.70  E-value=3.3e-07  Score=90.67  Aligned_cols=161  Identities=14%  Similarity=0.129  Sum_probs=106.2

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccC------------------CCCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSE------------------RPGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~------------------~~~f~~~~~v~~~~~   61 (483)
                      ||-+..++.+..++..++.. .+.++|+.|+||||+|+.+++..-..                  .+.+.-++.++.+..
T Consensus        16 iGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~   95 (491)
T PRK14964         16 VGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASN   95 (491)
T ss_pred             cCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccC
Confidence            68888888898888877665 79999999999999999998743000                  011122455565544


Q ss_pred             cCccchhHHh------hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCC-hhhh-----------hccC
Q 038724           62 LKLETSQDDM------ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHS-EEVC-----------VDCF  121 (483)
Q Consensus        62 ~~~~~~~~~i------~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~-~~~~-----------l~~L  121 (483)
                      ....++..-+      ...++.-++|+|+++...  ....+...+.+..+.+++|++|.+ ..+.           +.++
T Consensus        96 ~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~~~f~~l  175 (491)
T PRK14964         96 TSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKI  175 (491)
T ss_pred             CCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhheeeecccc
Confidence            4444433322      344677799999997553  355565555544455666665533 3332           7889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      +.++..+.+...+..+..   .-.++..+.|++.++|.+..+.
T Consensus       176 ~~~el~~~L~~ia~~Egi---~i~~eAL~lIa~~s~GslR~al  215 (491)
T PRK14964        176 PTDKLVEHLVDIAKKENI---EHDEESLKLIAENSSGSMRNAL  215 (491)
T ss_pred             cHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHH
Confidence            999988888887765441   2234567889999999886443

>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=98.69  E-value=1.4e-08  Score=70.83  Aligned_cols=59  Identities=32%  Similarity=0.586  Sum_probs=45.9

Q ss_pred             CCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCC
Q 038724          342 PCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQ  400 (483)
Q Consensus       342 ~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~  400 (483)
                      ++|++|++++|++....+..+..+++|++|++++|.+..+|+. +..+++|++|++++|+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            4688888888865444446778888888888888888888764 7888888888888886

...

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.68  E-value=4.5e-07  Score=90.50  Aligned_cols=160  Identities=14%  Similarity=0.130  Sum_probs=103.8

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCCC---------CC-------------CEEEEEE
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSERP---------GF-------------DVVIWVV   57 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~~---------~f-------------~~~~~v~   57 (483)
                      ||-+..+..|..++..+.. +.+.++|+.|+||||+|+.+++.......         .+             .-+..+.
T Consensus        24 iGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv~eid  103 (507)
T PRK06645         24 QGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEID  103 (507)
T ss_pred             cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcEEEee
Confidence            5778888888887877654 57899999999999999999987621100         00             1122333


Q ss_pred             eCCCcCccchhHHh------hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEE-ecCChhhh-----------
Q 038724           58 VSKELKLETSQDDM------ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------  117 (483)
Q Consensus        58 ~~~~~~~~~~~~~i------~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------  117 (483)
                      ........++..-+      ...+++-++|+|+++..  ..+..+...+......+.+|+ ||+...+.           
T Consensus       104 aas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~e  183 (507)
T PRK06645        104 AASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYD  183 (507)
T ss_pred             ccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEE
Confidence            33333333333322      34567889999999865  335666655554444555554 54444332           


Q ss_pred             hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          118 VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       118 l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      +.+++.++....+...+..+..   .-..+..+.|++.++|.+..+
T Consensus       184 f~~ls~~el~~~L~~i~~~egi---~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        184 LRRLSFEEIFKLLEYITKQENL---KTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             ccCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            7889999999999888765441   223456788999999987554

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.68  E-value=2.4e-07  Score=94.18  Aligned_cols=198  Identities=19%  Similarity=0.202  Sum_probs=126.8

Q ss_pred             HHHHHHhcC-CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-ccchhHHh---------------
Q 038724            9 QVWRFLVKK-DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-LETSQDDM---------------   71 (483)
Q Consensus         9 ~l~~~l~~~-~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-~~~~~~~i---------------   71 (483)
                      ++...|.+. +.|++.|..|+|.||||++.+.+...    ..-..+.|.+.+++.+ ...+.+-+               
T Consensus        26 rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a  101 (894)
T COG2909          26 RLLDRLRRANDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEA  101 (894)
T ss_pred             HHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHH
Confidence            344445444 67899999999999999999998743    2334589998775543 22222211               


Q ss_pred             -----------------------hhcCCcEEEEEcCCCCccc---cccccCCCCCCCCCCEEEEecCChhhh--------
Q 038724           72 -----------------------ILSTKKFLLLLDDLWETID---LSKIGVPLPSQKIVSKVVFTTHSEEVC--------  117 (483)
Q Consensus        72 -----------------------~l~~~~~LlvlDdv~~~~~---~~~l~~~~~~~~~gs~ilvTtR~~~~~--------  117 (483)
                                             .--.+++.+||||..-..+   -..+...+.....+-.++||||+..-.        
T Consensus       102 ~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr  181 (894)
T COG2909         102 QTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLR  181 (894)
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeeh
Confidence                                   3346789999999864422   122222222333468899999998655        


Q ss_pred             ---------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Q 038724          118 ---------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMR  188 (483)
Q Consensus       118 ---------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~  188 (483)
                               .=.++.+|+.++|....+..      -....++.+.+...|.+-|+..++=.++...+.+.--..+.    
T Consensus       182 ~~llEi~~~~Lrf~~eE~~~fl~~~~~l~------Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~Ls----  251 (894)
T COG2909         182 DELLEIGSEELRFDTEEAAAFLNDRGSLP------LDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLS----  251 (894)
T ss_pred             hhHHhcChHhhcCChHHHHHHHHHcCCCC------CChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhcc----
Confidence                     22478999999998766432      23455889999999999999999877773333322111110    


Q ss_pred             cccCCCChH-HHH-HhhhcccCCCCchhhhHHHhhhcCCCC
Q 038724          189 SALQFPGIN-KVY-YRLKFSFDRLPSDQIRSCFLFCSPFPG  227 (483)
Q Consensus       189 ~~~~~~~~~-~~~-~~l~~s~~~L~~~~~~~~~~~~a~fp~  227 (483)
                            +.+ -+. -...--++.||+ +.|..++.+|+++.
T Consensus       252 ------G~~~~l~dYL~eeVld~Lp~-~l~~FLl~~svl~~  285 (894)
T COG2909         252 ------GAASHLSDYLVEEVLDRLPP-ELRDFLLQTSVLSR  285 (894)
T ss_pred             ------chHHHHHHHHHHHHHhcCCH-HHHHHHHHHHhHHH
Confidence                  000 011 112234678999 79999999999865

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=3.7e-07  Score=89.35  Aligned_cols=161  Identities=17%  Similarity=0.159  Sum_probs=102.4

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCCC-CC-----------------CEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSERP-GF-----------------DVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~~-~f-----------------~~~~~v~~~~~   61 (483)
                      ||-+..+..|..++..+..+ .+.++|+.|+||||+|+.+++....... .+                 ..++.+.....
T Consensus        21 VGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviEIdaas~  100 (484)
T PRK14956         21 IHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLEIDAASN  100 (484)
T ss_pred             hChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccceeechhhc
Confidence            57788888999999888754 5899999999999999999987621110 00                 01122222222


Q ss_pred             cC---ccchhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEE-ecCChhhh-----------hccC
Q 038724           62 LK---LETSQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------VDCF  121 (483)
Q Consensus        62 ~~---~~~~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------l~~L  121 (483)
                      ..   ++++...+   ...++.-++|||+++..  ..+..++..+........+|. ||....+.           +.++
T Consensus       101 ~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~~f~~l  180 (484)
T PRK14956        101 RGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKV  180 (484)
T ss_pred             ccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhheeeecCC
Confidence            22   23333333   34567779999999855  346666555544333455444 44433332           8889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      +.++..+.+.+....++.   .-..+..+.|++.++|.+.-..
T Consensus       181 s~~~i~~~L~~i~~~Egi---~~e~eAL~~Ia~~S~Gd~RdAL  220 (484)
T PRK14956        181 PLSVLQDYSEKLCKIENV---QYDQEGLFWIAKKGDGSVRDML  220 (484)
T ss_pred             CHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCChHHHHH
Confidence            999888888877654431   2235668889999999885443

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

Probab=98.68  E-value=1.6e-07  Score=86.09  Aligned_cols=145  Identities=14%  Similarity=0.179  Sum_probs=95.3

Q ss_pred             HHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC----CcCccchhHHh----hhcCCcEEE
Q 038724            9 QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK----ELKLETSQDDM----ILSTKKFLL   80 (483)
Q Consensus         9 ~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~----~~~~~~~~~~i----~l~~~~~Ll   80 (483)
                      -|+.+++.+.++.+.+||++|+||||||+.++...   +.+  ...||+.|-    ..+.+.+.++-    .+.++|..|
T Consensus       152 llrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~--SyrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTil  226 (554)
T KOG2028|consen  152 LLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKH--SYRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTIL  226 (554)
T ss_pred             HHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCC--ceEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEE
Confidence            35667777889999999999999999999999876   222  144565543    33444444433    778999999


Q ss_pred             EEcCCCC--ccccccccCCCCCCCCCCEEEE--ecCChhhh-------------hccCChHHHHHHHHHHhc---CCcc-
Q 038724           81 LLDDLWE--TIDLSKIGVPLPSQKIVSKVVF--TTHSEEVC-------------VDCFTPQESWQVFQMKVG---NETL-  139 (483)
Q Consensus        81 vlDdv~~--~~~~~~l~~~~~~~~~gs~ilv--TtR~~~~~-------------l~~L~~~~a~~l~~~~~~---~~~~-  139 (483)
                      ++|.|..  ..+.+.   .+|...+|..++|  ||.++...             ++.|..++...++.+...   +... 
T Consensus       227 FiDEiHRFNksQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~  303 (554)
T KOG2028|consen  227 FIDEIHRFNKSQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERP  303 (554)
T ss_pred             EeHHhhhhhhhhhhc---ccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhhcccccc
Confidence            9999963  334443   3455566787776  77766543             899999998888877432   1110 


Q ss_pred             -cCCCC-----chhHHHHHHhHcCCchH
Q 038724          140 -VSHPA-----IHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       140 -~~~~~-----~~~~~~~i~~~c~g~Pl  161 (483)
                       ...+.     ...+.+-++..|+|-..
T Consensus       304 ~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  304 TDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             CCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence             01111     12345667777877653

>PLN03150 hypothetical protein; Provisional

Probab=98.67  E-value=6.4e-08  Score=100.45  Aligned_cols=107  Identities=21%  Similarity=0.323  Sum_probs=92.2

Q ss_pred             ceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      .++.|+|++|.+++..+.  ..+++|+.|+|++|.+.+..|..+..+++|++|+|++|++.+.+|..++.+++|++|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            378899999999865543  678999999999999987766669999999999999999999999999999999999999


Q ss_pred             CCC-CCccCccccCC-cCCCEEecCCCCCcC
Q 038724          375 FTS-TLELPEELKAL-EKLKYLDMDDHQQVM  403 (483)
Q Consensus       375 ~~~-i~~lp~~~~~l-~~L~~L~l~~n~~~~  403 (483)
                      +|. ...+|..++.+ .++..+++.+|....
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc  529 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNAGLC  529 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCcccc
Confidence            999 45899887654 577889999987543

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

Probab=98.66  E-value=3.5e-09  Score=97.80  Aligned_cols=140  Identities=20%  Similarity=0.257  Sum_probs=109.5

Q ss_pred             EEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccC-CCCC
Q 038724          301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISF-TSTL  379 (483)
Q Consensus       301 l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~-~~i~  379 (483)
                      ++-++-.++.+|.. --++...+.|..|+|+.+|+..|+.+++||.||||+|.+...-|+.|..+.+|..|-+-+ |.|+
T Consensus        51 VdCr~~GL~eVP~~-LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~  129 (498)
T KOG4237|consen   51 VDCRGKGLTEVPAN-LPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKIT  129 (498)
T ss_pred             EEccCCCcccCccc-CCCcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchh
Confidence            34444455555542 124678899999999999999999999999999999998888899999999998887777 6799


Q ss_pred             ccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc-----CCCCCccccccee
Q 038724          380 ELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL-----CGLPTVQCLTSRR  452 (483)
Q Consensus       380 ~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l-----~~l~~l~~l~l~~  452 (483)
                      ++|.. |++|.+|+-|.+.-|++.           -...+.|..|++|+.|.+..|.+..+     ..+..++.+.+..
T Consensus       130 ~l~k~~F~gL~slqrLllNan~i~-----------Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~  197 (498)
T KOG4237|consen  130 DLPKGAFGGLSSLQRLLLNANHIN-----------CIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQ  197 (498)
T ss_pred             hhhhhHhhhHHHHHHHhcChhhhc-----------chhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhc
Confidence            99987 899999999999988854           33445678888888888888876443     4455556655543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=5e-07  Score=90.77  Aligned_cols=163  Identities=15%  Similarity=0.166  Sum_probs=103.0

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~   61 (483)
                      ||-+..+..+..++..++. +.+.++|+.|+||||+|+.+++......                  +.|...+++.....
T Consensus        19 iGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieidaas~   98 (546)
T PRK14957         19 AGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDAASR   98 (546)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeecccc
Confidence            6888889999999987655 4578999999999999999988652100                  11222344443333


Q ss_pred             cCc---cchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEE-ecCChhhh-----------hccC
Q 038724           62 LKL---ETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------VDCF  121 (483)
Q Consensus        62 ~~~---~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------l~~L  121 (483)
                      ...   +++...+   ...+++-++|+|+++...  ..+.+...+......+.+|+ ||....+.           +.++
T Consensus        99 ~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~f~~L  178 (546)
T PRK14957         99 TGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHI  178 (546)
T ss_pred             cCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEEeCCC
Confidence            332   2333333   345677899999997553  35555555544444555554 44332222           8889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALTIV  166 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~~~  166 (483)
                      +.++....+...+..++   ..-.....+.|++.++|.+. |+..+
T Consensus       179 s~~eI~~~L~~il~~eg---i~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        179 SQADIKDQLKIILAKEN---INSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             CHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            99998888877664433   12334567889999999664 44444

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.65  E-value=4.9e-07  Score=90.85  Aligned_cols=162  Identities=17%  Similarity=0.156  Sum_probs=104.5

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~   61 (483)
                      ||-+..++.|..++..+..+ .+.++|+.|+||||+|+.+++..-...                  +.+.-++.+..+..
T Consensus        19 vGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eidaas~   98 (509)
T PRK14958         19 IGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVDAASR   98 (509)
T ss_pred             cCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEccccc
Confidence            68888999999999887665 478999999999999999988762110                  11222444554444


Q ss_pred             cCccch---hHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCCh-hhh-----------hccC
Q 038724           62 LKLETS---QDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VDCF  121 (483)
Q Consensus        62 ~~~~~~---~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~~L  121 (483)
                      ..+.++   ...+   ...++.-++|+|+|+..  .....+...+......+++|++|.+. .+.           +.++
T Consensus        99 ~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f~~l  178 (509)
T PRK14958         99 TKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQL  178 (509)
T ss_pred             CCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhcCCC
Confidence            444333   3322   34467789999999865  33555555554444456666554443 222           7888


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      +.++..+.+......++.   .-..+..+.|++.++|.+..+..
T Consensus       179 ~~~~i~~~l~~il~~egi---~~~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        179 PPLQIAAHCQHLLKEENV---EFENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             CHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHHH
Confidence            988888777766644431   22345577899999998865543

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

Probab=98.64  E-value=6.9e-09  Score=97.12  Aligned_cols=156  Identities=19%  Similarity=0.226  Sum_probs=110.5

Q ss_pred             ccccccceEEEEccccccccccCC---CCCCcccEEEecCCccccc-cchhhhcCCCccEEEccCCccCccCCcccccCc
Q 038724          291 DALKWLGLRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDI-KNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLV  366 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~~~~~---~~~~~L~~L~l~~n~~~~~-~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~  366 (483)
                      .+..+++|+.|+++.|.+......   ..+++|..|.|+.|+++.- .......+|+|.+|+|.+|.....--....-+.
T Consensus       167 i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~  246 (505)
T KOG3207|consen  167 IAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQ  246 (505)
T ss_pred             HHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhh
Confidence            344677888899999887654432   3678899999999988743 233456789999999999854443333445577


Q ss_pred             CCCEEeccCCCCCccCc--cccCCcCCCEEecCCCCCcCC--CCCCCCccchhhHhhhccccccccceeeccCccc----
Q 038724          367 SLQHLDISFTSTLELPE--ELKALEKLKYLDMDDHQQVME--EGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS----  438 (483)
Q Consensus       367 ~L~~L~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~--p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~----  438 (483)
                      .|+.|||++|++...+.  ..+.++.|..|+++.|.+..+  |+       ....+....+++|+.|+++.|++..    
T Consensus       247 ~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d-------~~s~~kt~~f~kL~~L~i~~N~I~~w~sl  319 (505)
T KOG3207|consen  247 TLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPD-------VESLDKTHTFPKLEYLNISENNIRDWRSL  319 (505)
T ss_pred             HHhhccccCCcccccccccccccccchhhhhccccCcchhcCCC-------ccchhhhcccccceeeecccCcccccccc
Confidence            89999999999888874  478899999999999987766  44       2222335678899999999998733    


Q ss_pred             --cCCCCCcccccceee
Q 038724          439 --LCGLPTVQCLTSRRL  453 (483)
Q Consensus       439 --l~~l~~l~~l~l~~~  453 (483)
                        +..+++|++|.+..+
T Consensus       320 ~~l~~l~nlk~l~~~~n  336 (505)
T KOG3207|consen  320 NHLRTLENLKHLRITLN  336 (505)
T ss_pred             chhhccchhhhhhcccc
Confidence              333455555554333

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.64  E-value=7.8e-07  Score=86.64  Aligned_cols=163  Identities=12%  Similarity=0.108  Sum_probs=103.8

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~~   60 (483)
                      ||.++.++.+.+++..+.. +.+.++|++|+|||++|+.+++......                   .+++ ..++..+.
T Consensus        17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~-~~~~~~~~   95 (355)
T TIGR02397        17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLD-VIEIDAAS   95 (355)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEeeccc
Confidence            6899999999999987754 4678999999999999999987752110                   1233 23443332


Q ss_pred             CcC---ccchhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCChhh-h-----------hcc
Q 038724           61 ELK---LETSQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSEEV-C-----------VDC  120 (483)
Q Consensus        61 ~~~---~~~~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~~~-~-----------l~~  120 (483)
                      ...   .+++...+   ...+++-++|+|+++..  .....+...+......+.+|++|.+..- .           +.+
T Consensus        96 ~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~  175 (355)
T TIGR02397        96 NNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKR  175 (355)
T ss_pred             cCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEEcCC
Confidence            222   23344433   33456668999998655  3344454455443445666666654432 1           677


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      +++++..+.+...+.....   .-..+.+..+++.++|.|..+....
T Consensus       176 ~~~~~l~~~l~~~~~~~g~---~i~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       176 IPLEDIVERLKKILDKEGI---KIEDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             CCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCChHHHHHHH
Confidence            8888888888776644331   1224667888999999886654443

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

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

Probab=98.64  E-value=1.5e-08  Score=100.16  Aligned_cols=159  Identities=26%  Similarity=0.353  Sum_probs=111.9

Q ss_pred             cceEEEEccccccccccCCCCCC--cccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCP--HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~--~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      +.+..+++.+|.++.+++.....  +|+.|++++|.+..++.. +..+++|+.|++++|+ +..+|...+.+++|+.|++
T Consensus       116 ~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~-~~~l~~L~~L~l~~N~-l~~l~~~~~~~~~L~~L~l  193 (394)
T COG4886         116 TNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSP-LRNLPNLKNLDLSFND-LSDLPKLLSNLSNLNNLDL  193 (394)
T ss_pred             cceeEEecCCcccccCccccccchhhcccccccccchhhhhhh-hhccccccccccCCch-hhhhhhhhhhhhhhhheec
Confidence            56788888888888888765443  899999999988887533 6788889999999986 6777766668888899999


Q ss_pred             cCCCCCccCccccCCcCCCEEecCCCCCcCCCC-CCCCc----------cchhhHhhhccccccccceeeccCcccc---
Q 038724          374 SFTSTLELPEELKALEKLKYLDMDDHQQVMEEG-NCQSD----------DAESLLKEMLCLEQLNIIRLTSCSLCSL---  439 (483)
Q Consensus       374 ~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~-~~~l~----------~~~~~~~~l~~l~~L~~L~l~~~~l~~l---  439 (483)
                      ++|.+..+|..+..+..|+.|.+++|.....+. +..+.          .....+..++.+++|+.|++++|.+..+   
T Consensus       194 s~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~~~~~~~~~l~~l~~L~~s~n~i~~i~~~  273 (394)
T COG4886         194 SGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNNQISSISSL  273 (394)
T ss_pred             cCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceeeeccchhccccccceeccccccccccccc
Confidence            999998888877666778889888886444422 22111          0111135566677777777777776544   


Q ss_pred             CCCCCcccccceeeeee
Q 038724          440 CGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       440 ~~l~~l~~l~l~~~~~~  456 (483)
                      ..+.+++.|+++.+.+.
T Consensus       274 ~~~~~l~~L~~s~n~~~  290 (394)
T COG4886         274 GSLTNLRELDLSGNSLS  290 (394)
T ss_pred             cccCccCEEeccCcccc
Confidence            34555666666555443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.64  E-value=5.3e-07  Score=79.07  Aligned_cols=143  Identities=16%  Similarity=0.156  Sum_probs=90.0

Q ss_pred             HHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeC-CCcCccch
Q 038724            9 QVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVS-KELKLETS   67 (483)
Q Consensus         9 ~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~-~~~~~~~~   67 (483)
                      .+.+.+..+.. ..+.++|+.|+|||++|+.+++......                   .+.+. .++... .......+
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~~~i   81 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKVDQV   81 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCHHHH
Confidence            46667766655 5789999999999999999988762110                   22232 233222 22333333


Q ss_pred             ---hHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHH
Q 038724           68 ---QDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESW  127 (483)
Q Consensus        68 ---~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~  127 (483)
                         ...+   ...+.+-++|+||++...  ..+.+...+....+.+.+|++|++..-.            +.+++.++..
T Consensus        82 ~~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~  161 (188)
T TIGR00678        82 RELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALL  161 (188)
T ss_pred             HHHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHH
Confidence               2222   234677789999997653  3445555554444456666666544221            8889999988


Q ss_pred             HHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH
Q 038724          128 QVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       128 ~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  161 (483)
                      +.+.+. +        -..+.++.+++.++|.|.
T Consensus       162 ~~l~~~-g--------i~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       162 QWLIRQ-G--------ISEEAAELLLALAGGSPG  186 (188)
T ss_pred             HHHHHc-C--------CCHHHHHHHHHHcCCCcc
Confidence            888776 1        114568899999999885

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

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.63  E-value=7.5e-07  Score=87.44  Aligned_cols=161  Identities=12%  Similarity=0.093  Sum_probs=101.7

Q ss_pred             CCChhHHHHHHHHHhcCCeEE-EEEEcCCCCcHHHHHHHHHhhcccCC---------------------------CCCCE
Q 038724            1 IENPKQFYQVWRFLVKKDVGI-IGLFGTGGVGKTTILKQINNRFCSER---------------------------PGFDV   52 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~-v~i~G~~GiGKTtLa~~~~~~~~~~~---------------------------~~f~~   52 (483)
                      ||.+..++.|.+++.++..+. +.++|+.|+||||+|..+++......                           .+++.
T Consensus        19 iGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~~~n~   98 (397)
T PRK14955         19 TAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAGTSLNI   98 (397)
T ss_pred             cChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcCCCCCe
Confidence            588888999999999877654 88999999999999999988762110                           01221


Q ss_pred             EEEEEeCCCcC---ccchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEec-CChhhh------
Q 038724           53 VIWVVVSKELK---LETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTT-HSEEVC------  117 (483)
Q Consensus        53 ~~~v~~~~~~~---~~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTt-R~~~~~------  117 (483)
                       ..+..+....   ++++.+.+   ...+.+-++|+|+++...  .+..+...+.+....+.+|++| +...+.      
T Consensus        99 -~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~sR  177 (397)
T PRK14955         99 -SEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASR  177 (397)
T ss_pred             -EeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHHHH
Confidence             1222222222   22333333   334566788999997653  3555555555444456665554 333222      


Q ss_pred             -----hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          118 -----VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       118 -----l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                           +.++++++..+.+...+....   ..-..+.++.+++.++|.+.-+..
T Consensus       178 ~~~v~f~~l~~~ei~~~l~~~~~~~g---~~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        178 CQRFNFKRIPLEEIQQQLQGICEAEG---ISVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHhhcCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHH
Confidence                 778999888888877664332   123356688999999998754433

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.61  E-value=6.5e-07  Score=90.10  Aligned_cols=163  Identities=13%  Similarity=0.120  Sum_probs=100.7

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~~   60 (483)
                      ||++..++.+.+++..+.. +.+.++|+.|+||||+|+.+++......                   .+.+ ..++..+.
T Consensus        19 IGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~D-iieIdaas   97 (605)
T PRK05896         19 IGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVD-IVELDAAS   97 (605)
T ss_pred             cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCc-eEEecccc
Confidence            6999999999999987654 4688999999999999999988762100                   0112 23444332


Q ss_pred             CcCcc---chhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCCh-hhh-----------hcc
Q 038724           61 ELKLE---TSQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VDC  120 (483)
Q Consensus        61 ~~~~~---~~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~~  120 (483)
                      .....   ++...+   ...+++-++|+|+++..  .....+...+........+|++|... .+.           +.+
T Consensus        98 ~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~ieF~~  177 (605)
T PRK05896         98 NNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKK  177 (605)
T ss_pred             ccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhcccCC
Confidence            23322   333222   23345557999999764  33445555444333345555444332 221           788


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHHHHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALTIVG  167 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~~~~  167 (483)
                      +++++....+...+...+.   .-..+.++.+++.++|.+. |+..+-
T Consensus       178 Ls~~eL~~~L~~il~kegi---~Is~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        178 LNNSELQELLKSIAKKEKI---KIEDNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             CCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            9999988888877644331   2224567889999999765 444333

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=9.3e-07  Score=89.47  Aligned_cols=160  Identities=15%  Similarity=0.166  Sum_probs=101.6

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~   61 (483)
                      ||-+..+..+..++..+..+ .+.++|+.|+||||+|+.+++......                  +.|.-.+++..+..
T Consensus        19 vGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~~~~   98 (527)
T PRK14969         19 VGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDAASN   98 (527)
T ss_pred             cCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeecccc
Confidence            68888899999999887654 568999999999999999987762110                  11222344443333


Q ss_pred             cCccc---hhHHh---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCCh-hhh-----------hccC
Q 038724           62 LKLET---SQDDM---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VDCF  121 (483)
Q Consensus        62 ~~~~~---~~~~i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~~L  121 (483)
                      ....+   +....   ...+++-++|+|+++....  ...+...+......+.+|++|.+. .+.           +.++
T Consensus        99 ~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l  178 (527)
T PRK14969         99 TQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQM  178 (527)
T ss_pred             CCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHHhcCCC
Confidence            33332   22222   3356778999999986643  444555554433445555544333 221           8889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      +.++..+.+.+....++.   .-..+..+.|++.++|.+.-+
T Consensus       179 ~~~~i~~~L~~il~~egi---~~~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        179 PPPLIVSHLQHILEQENI---PFDATALQLLARAAAGSMRDA  217 (527)
T ss_pred             CHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            999988888776644331   223455788999999987533

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.61  E-value=2.4e-07  Score=83.27  Aligned_cols=156  Identities=11%  Similarity=0.098  Sum_probs=105.1

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEE-EEEEeCCCcCccchhHHh----hh--
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVV-IWVVVSKELKLETSQDDM----IL--   73 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~-~~v~~~~~~~~~~~~~~i----~l--   73 (483)
                      +|-+..+..|...+.....++..++||+|.|||+.|.++++.. .-..-|.++ +-.++|......-+...+    .+  
T Consensus        39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSderGisvvr~Kik~fakl~~  117 (346)
T KOG0989|consen   39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASDERGISVVREKIKNFAKLTV  117 (346)
T ss_pred             cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhcccccccccchhhhhcCHHHHhh
Confidence            3567778888888888778899999999999999999999887 334456553 334566555444333333    11  


Q ss_pred             ---------cCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCCh------------hhhhccCChHHHHHHH
Q 038724           74 ---------STKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSE------------EVCVDCFTPQESWQVF  130 (483)
Q Consensus        74 ---------~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~------------~~~l~~L~~~~a~~l~  130 (483)
                               ...--.+|||+++..  +.|.++..........++.++-+...            ....++|.+++...-+
T Consensus       118 ~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~d~~iv~rL  197 (346)
T KOG0989|consen  118 LLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDEDIVDRL  197 (346)
T ss_pred             ccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcchHHHHHHH
Confidence                     112258899999876  34776665555444445444333222            2228899999999999


Q ss_pred             HHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          131 QMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      ...+..+..   .-..+..+.|++.++|-=
T Consensus       198 ~~Ia~~E~v---~~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  198 EKIASKEGV---DIDDDALKLIAKISDGDL  224 (346)
T ss_pred             HHHHHHhCC---CCCHHHHHHHHHHcCCcH
Confidence            888876652   333566888999998743

>PRK08727 hypothetical protein; Validated

Probab=98.60  E-value=3.2e-07  Score=83.14  Aligned_cols=150  Identities=10%  Similarity=0.003  Sum_probs=86.4

Q ss_pred             HHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEcCC
Q 038724            6 QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDL   85 (483)
Q Consensus         6 ~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDdv   85 (483)
                      .++.+...........+.|+|++|+|||.|+.++++...   .....+.|+++.+...  .+...+..-.+.-+|||||+
T Consensus        28 ~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~~~~y~~~~~~~~--~~~~~~~~l~~~dlLiIDDi  102 (233)
T PRK08727         28 LLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAE---QAGRSSAYLPLQAAAG--RLRDALEALEGRSLVALDGL  102 (233)
T ss_pred             HHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEeHHHhhh--hHHHHHHHHhcCCEEEEeCc
Confidence            344444444333445799999999999999999988762   2233466776544221  11112211234458999999


Q ss_pred             CCccc---cc-cccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccC
Q 038724           86 WETID---LS-KIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVS  141 (483)
Q Consensus        86 ~~~~~---~~-~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~  141 (483)
                      .....   +. .+...+.. ..+|..+|+|++...-.                   +++++.++-.+++.+.+....   
T Consensus       103 ~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~---  179 (233)
T PRK08727        103 ESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQRRG---  179 (233)
T ss_pred             ccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHHHcC---
Confidence            74421   11 12221111 12356799998854332                   677788888888877554332   


Q ss_pred             CCCchhHHHHHHhHcCCchHHH
Q 038724          142 HPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       142 ~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ..-..+....|++.+.|-...+
T Consensus       180 l~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        180 LALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             CCCCHHHHHHHHHhCCCCHHHH
Confidence            1233455677777776554433

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.58  E-value=6.8e-07  Score=91.23  Aligned_cols=163  Identities=15%  Similarity=0.145  Sum_probs=104.0

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~   61 (483)
                      ||-+..+..|...+..+... .+.++|+.|+||||+|+.+++......                  +.|.-.+.+.....
T Consensus        19 vGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ieidaas~   98 (647)
T PRK07994         19 VGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEIDAASR   98 (647)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceeeccccc
Confidence            68888899999999887654 468999999999999999988762111                  01111233433322


Q ss_pred             cC---ccchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCC-hhhh-----------hccC
Q 038724           62 LK---LETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHS-EEVC-----------VDCF  121 (483)
Q Consensus        62 ~~---~~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~-~~~~-----------l~~L  121 (483)
                      ..   ++++...+   ...+++-++|||+++...  ....++..+-......++|++|.+ ..+.           +.++
T Consensus        99 ~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~f~~L  178 (647)
T PRK07994         99 TKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKAL  178 (647)
T ss_pred             CCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEeeCCCC
Confidence            22   33333333   345788899999998653  355555555443334555544433 3332           8899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      +.++..+.+......+.   ........+.|++.++|.+..+..+
T Consensus       179 s~~ei~~~L~~il~~e~---i~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        179 DVEQIRQQLEHILQAEQ---IPFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             CHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            99999988887764333   1223456778999999988644433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.57  E-value=1.1e-06  Score=85.24  Aligned_cols=155  Identities=9%  Similarity=-0.004  Sum_probs=97.1

Q ss_pred             CCChhHHHHHHHHHhcCC----------eEEEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCE
Q 038724            1 IENPKQFYQVWRFLVKKD----------VGIIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDV   52 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~----------~~~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~   52 (483)
                      ||-+..++.|.+++..+.          .+-+.++|++|+|||++|..+++..-...                  .|.| 
T Consensus         8 iGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hpD-   86 (394)
T PRK07940          8 VGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHPD-   86 (394)
T ss_pred             cChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-
Confidence            577888999999998753          45688999999999999999987541110                  1222 


Q ss_pred             EEEEEeC-CCcCc---cchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhh-h-----
Q 038724           53 VIWVVVS-KELKL---ETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEV-C-----  117 (483)
Q Consensus        53 ~~~v~~~-~~~~~---~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~-~-----  117 (483)
                      +.++... .....   +++.+.+   ...+++-++|+|+++...  ....+...+.....+..+|++|.+..- .     
T Consensus        87 ~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrS  166 (394)
T PRK07940         87 VRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRS  166 (394)
T ss_pred             EEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHh
Confidence            2233222 22222   2333333   234666788999998653  234454444444445656665555422 2     


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                            +.+++.++..+.+....+        -..+.++.++..++|.|....
T Consensus       167 Rc~~i~f~~~~~~~i~~~L~~~~~--------~~~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        167 RCRHVALRTPSVEAVAEVLVRRDG--------VDPETARRAARASQGHIGRAR  211 (394)
T ss_pred             hCeEEECCCCCHHHHHHHHHHhcC--------CCHHHHHHHHHHcCCCHHHHH
Confidence                  888999998888864321        113557789999999996543

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=9.5e-07  Score=90.00  Aligned_cols=163  Identities=13%  Similarity=0.167  Sum_probs=104.5

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-----------------------CCCCEEEEE
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-----------------------PGFDVVIWV   56 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-----------------------~~f~~~~~v   56 (483)
                      ||-+..+..|.+++..++. ..+.++|+.|+||||+|+.+++..-...                       +.+.-.+++
T Consensus        19 iGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D~~el   98 (618)
T PRK14951         19 VGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVDYTEL   98 (618)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCceeec
Confidence            6888889999999988765 4568999999999999999977651100                       011113344


Q ss_pred             EeCCCcCccch---hHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCC-hhhh----------
Q 038724           57 VVSKELKLETS---QDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHS-EEVC----------  117 (483)
Q Consensus        57 ~~~~~~~~~~~---~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~-~~~~----------  117 (483)
                      ..+....+.++   ....   ...++.-++|||+|+...  .+..+...+.+.....++|++|.+ ..+.          
T Consensus        99 daas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSRc~~~  178 (618)
T PRK14951         99 DAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQF  178 (618)
T ss_pred             CcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHhceee
Confidence            43333333333   3222   234667799999998653  355566555544445556655433 2222          


Q ss_pred             -hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          118 -VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       118 -l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                       +++++.++..+.+...+..++.   .-..+..+.|++.++|.+..+..+
T Consensus       179 ~f~~Ls~eei~~~L~~i~~~egi---~ie~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        179 NLRPMAPETVLEHLTQVLAAENV---PAEPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence             8899999999888887755441   223456788999999977555433

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

Probab=98.57  E-value=1.5e-09  Score=107.32  Aligned_cols=131  Identities=26%  Similarity=0.337  Sum_probs=105.9

Q ss_pred             cccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      .|..|...+.+.|.+..+... .-++.|++|+|+.|+++...  .+..++.|+.|||++|. +..+|.--..-..|+.|.
T Consensus       162 ~Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN~-L~~vp~l~~~gc~L~~L~  238 (1096)
T KOG1859|consen  162 VWNKLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYNC-LRHVPQLSMVGCKLQLLN  238 (1096)
T ss_pred             hhhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccch-hccccccchhhhhheeee
Confidence            466777888888888766543 45688999999999998887  38899999999999996 777774322223499999


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      +++|.++++ .++.+|++|+.||++.|-+.          .......+..|.+|+.|+|.||++.+
T Consensus       239 lrnN~l~tL-~gie~LksL~~LDlsyNll~----------~hseL~pLwsLs~L~~L~LeGNPl~c  293 (1096)
T KOG1859|consen  239 LRNNALTTL-RGIENLKSLYGLDLSYNLLS----------EHSELEPLWSLSSLIVLWLEGNPLCC  293 (1096)
T ss_pred             ecccHHHhh-hhHHhhhhhhccchhHhhhh----------cchhhhHHHHHHHHHHHhhcCCcccc
Confidence            999999998 46999999999999999865          34455667889999999999999854

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=1.3e-06  Score=86.98  Aligned_cols=167  Identities=17%  Similarity=0.174  Sum_probs=102.0

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCCC------------------CCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSERP------------------GFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~~v~~~~~   61 (483)
                      ||.+..+..|...+..+.. +.+.++|++|+||||+|+.+++.......                  .+.....+..+..
T Consensus        17 vGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~aa~~   96 (472)
T PRK14962         17 VGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELDAASN   96 (472)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEeCccc
Confidence            6888888888888888766 45899999999999999999887621110                  0112333444333


Q ss_pred             cCccchh---HHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCC-hhhh-----------hccC
Q 038724           62 LKLETSQ---DDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHS-EEVC-----------VDCF  121 (483)
Q Consensus        62 ~~~~~~~---~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~-~~~~-----------l~~L  121 (483)
                      ....++.   ...   ...+++-++|+|+++..  ...+.+...+........++++|.+ ..+.           +.++
T Consensus        97 ~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv~f~~l  176 (472)
T PRK14962         97 RGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNI  176 (472)
T ss_pred             CCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEEEECCc
Confidence            3333222   222   23456779999999754  2344455555433333444444433 2221           7889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCC-chHHHHHHHHHh
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGG-LPLALTIVGRAM  170 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plal~~~~~~l  170 (483)
                      +.++....+...+.....   .-.++..+.|++.++| .+.++..+....
T Consensus       177 ~~~el~~~L~~i~~~egi---~i~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        177 SDELIIKRLQEVAEAEGI---EIDREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             cHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            999988888877644331   2234567788887764 566666665433

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=98.55  E-value=5.3e-07  Score=77.69  Aligned_cols=89  Identities=13%  Similarity=0.174  Sum_probs=74.1

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------   71 (483)
                      ||-++.++++.-...+++.+-+.|.||+|+||||-+..+++.. -...+-++++=..+|++...+-+.+.|         
T Consensus        30 VGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~L-LG~~~ke~vLELNASdeRGIDvVRn~IK~FAQ~kv~  108 (333)
T KOG0991|consen   30 VGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLAREL-LGDSYKEAVLELNASDERGIDVVRNKIKMFAQKKVT  108 (333)
T ss_pred             hCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHH-hChhhhhHhhhccCccccccHHHHHHHHHHHHhhcc
Confidence            7899999999999999999999999999999999999999887 333355777788899998888888887         


Q ss_pred             hhcCCcEEEEEcCCCCccc
Q 038724           72 ILSTKKFLLLLDDLWETID   90 (483)
Q Consensus        72 ~l~~~~~LlvlDdv~~~~~   90 (483)
                      .-.++--.+|||.+++...
T Consensus       109 lp~grhKIiILDEADSMT~  127 (333)
T KOG0991|consen  109 LPPGRHKIIILDEADSMTA  127 (333)
T ss_pred             CCCCceeEEEeeccchhhh
Confidence            2346777899999988743

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.54  E-value=1.4e-06  Score=88.97  Aligned_cols=164  Identities=13%  Similarity=0.106  Sum_probs=105.2

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC--C--C-------------------CCEEEEE
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER--P--G-------------------FDVVIWV   56 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~--~--~-------------------f~~~~~v   56 (483)
                      ||.+..++.|..++..++.. .+.++|+.|+||||+|+.+++..-...  .  .                   ..-++++
T Consensus        27 iGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~Dv~e~  106 (598)
T PRK09111         27 IGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHVDVLEM  106 (598)
T ss_pred             cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCCceEEe
Confidence            68899999999999887654 689999999999999999988662110  0  0                   0012344


Q ss_pred             EeCCCcCccc---hhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEec-CChhhh----------
Q 038724           57 VVSKELKLET---SQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTT-HSEEVC----------  117 (483)
Q Consensus        57 ~~~~~~~~~~---~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTt-R~~~~~----------  117 (483)
                      .......+.+   +...+   ...+++-++|+|+++...  ....+...+.+....+++|++| ....+.          
T Consensus       107 ~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~SRcq~~  186 (598)
T PRK09111        107 DAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRF  186 (598)
T ss_pred             cccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHhheeEE
Confidence            3333333333   33222   344567789999997653  3555555554444456665544 333322          


Q ss_pred             -hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          118 -VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       118 -l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                       +..++.++....+...+..+..   .-..+..+.|++.++|.+..+...-
T Consensus       187 ~f~~l~~~el~~~L~~i~~kegi---~i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        187 DLRRIEADVLAAHLSRIAAKEGV---EVEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             EecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence             7789999988888887754431   2234667889999999886654433

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.54  E-value=7e-07  Score=93.01  Aligned_cols=154  Identities=17%  Similarity=0.182  Sum_probs=93.7

Q ss_pred             CCChhHHH---HHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC--CCcCccchhHHh----
Q 038724            1 IENPKQFY---QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS--KELKLETSQDDM----   71 (483)
Q Consensus         1 vgr~~~~~---~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~--~~~~~~~~~~~i----   71 (483)
                      ||.+..+.   .+.+.+..+..+.+.|+|++|+||||+|+.+++..   ...|..   +...  ...+.++.....    
T Consensus        31 vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~---~~~f~~---lna~~~~i~dir~~i~~a~~~l  104 (725)
T PRK13341         31 VGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT---RAHFSS---LNAVLAGVKDLRAEVDRAKERL  104 (725)
T ss_pred             cCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh---cCccee---ehhhhhhhHHHHHHHHHHHHHh
Confidence            57777664   57777777777788999999999999999999876   344421   1111  111122222222    


Q ss_pred             hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEE--ecCChhh-------------hhccCChHHHHHHHHHHh
Q 038724           72 ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVF--TTHSEEV-------------CVDCFTPQESWQVFQMKV  134 (483)
Q Consensus        72 ~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilv--TtR~~~~-------------~l~~L~~~~a~~l~~~~~  134 (483)
                      ...+++.++||||++.-  .+.+.+...+.   .|+.+++  ||.+...             .+++++.++...++....
T Consensus       105 ~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l  181 (725)
T PRK13341        105 ERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKRAL  181 (725)
T ss_pred             hhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHHHHHH
Confidence            23356789999999744  33444443332   3455555  3444321             188999999999998766


Q ss_pred             cCCc----ccCCCCchhHHHHHHhHcCCchHHH
Q 038724          135 GNET----LVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       135 ~~~~----~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ....    .....-.++..+.|++.+.|.-..+
T Consensus       182 ~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~l  214 (725)
T PRK13341        182 QDKERGYGDRKVDLEPEAEKHLVDVANGDARSL  214 (725)
T ss_pred             HHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHH
Confidence            4110    0111223456788888888865443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.53  E-value=1.2e-06  Score=84.26  Aligned_cols=159  Identities=11%  Similarity=0.065  Sum_probs=98.6

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC-CC---------------------------CC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER-PG---------------------------FD   51 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~-~~---------------------------f~   51 (483)
                      ||.++..+.+.+.+..++.+ .+.++|+.|+||+++|.++++..-... ..                           ..
T Consensus        22 iGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~i~~~~HP  101 (365)
T PRK07471         22 FGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARRIAAGAHG  101 (365)
T ss_pred             cChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHHHHccCCC
Confidence            58888889999999988655 588999999999999999887652110 00                           01


Q ss_pred             EEEEEEeC--CC-------cCccch---hHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCCh
Q 038724           52 VVIWVVVS--KE-------LKLETS---QDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSE  114 (483)
Q Consensus        52 ~~~~v~~~--~~-------~~~~~~---~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~  114 (483)
                      -..|+.-.  +.       ..+.++   ...+   ...+++.++|||+++...  ....+...+.....++.+|++|.+.
T Consensus       102 Dl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~  181 (365)
T PRK07471        102 GLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAP  181 (365)
T ss_pred             CeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCc
Confidence            12333221  11       111221   1111   334677899999997553  3444444444433456566666554


Q ss_pred             hhh------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          115 EVC------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       115 ~~~------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      ...            +.+++.++..+.+.......       .....+.++..++|.|+....+
T Consensus       182 ~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~-------~~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        182 ARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL-------PDDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             hhchHHhhccceEEECCCCCHHHHHHHHHHhcccC-------CHHHHHHHHHHcCCCHHHHHHH
Confidence            322            88999999999998754221       1222367899999999865444

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

Probab=98.52  E-value=3.4e-08  Score=97.66  Aligned_cols=130  Identities=26%  Similarity=0.374  Sum_probs=73.5

Q ss_pred             cccceEEEEccccccccccCCC-CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          294 KWLGLRRMSLMNNQIKTLLNTP-SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~~-~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      .++.++.|+++.|.++.++... ..++|+.|++++|.+..+++. .....+|.+|.+++|+ ....+..+..+.++..+.
T Consensus       161 ~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~-~~~~~~L~~l~~~~N~-~~~~~~~~~~~~~l~~l~  238 (394)
T COG4886         161 NLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPE-IELLSALEELDLSNNS-IIELLSSLSNLKNLSGLE  238 (394)
T ss_pred             ccccccccccCCchhhhhhhhhhhhhhhhheeccCCccccCchh-hhhhhhhhhhhhcCCc-ceecchhhhhcccccccc
Confidence            3444555555555555554443 455555555555555555443 1233335555555553 333344455555555555


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      +.+|++..+|..++.+++++.|++++|.+..             ...+..+.+|+.|+++++.+..
T Consensus       239 l~~n~~~~~~~~~~~l~~l~~L~~s~n~i~~-------------i~~~~~~~~l~~L~~s~n~~~~  291 (394)
T COG4886         239 LSNNKLEDLPESIGNLSNLETLDLSNNQISS-------------ISSLGSLTNLRELDLSGNSLSN  291 (394)
T ss_pred             cCCceeeeccchhccccccceeccccccccc-------------cccccccCccCEEeccCccccc
Confidence            5555555555556666666666666666432             2237889999999999998643

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.52  E-value=6.7e-07  Score=81.15  Aligned_cols=154  Identities=13%  Similarity=0.081  Sum_probs=90.8

Q ss_pred             hHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-ccchhHHhhhcCCcEEEEEc
Q 038724            5 KQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-LETSQDDMILSTKKFLLLLD   83 (483)
Q Consensus         5 ~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-~~~~~~~i~l~~~~~LlvlD   83 (483)
                      ..+..+.++......+.+.|+|++|+|||+|+.++++...   .....+.|+++..... ..++.+.+.   +.-+++||
T Consensus        31 ~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~~v~y~~~~~~~~~~~~~~~~~~---~~dlliiD  104 (235)
T PRK08084         31 SLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS---QRGRAVGYVPLDKRAWFVPEVLEGME---QLSLVCID  104 (235)
T ss_pred             HHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEEHHHHhhhhHHHHHHhh---hCCEEEEe
Confidence            3455666665555557899999999999999999998762   2234466776654221 112222221   12478999


Q ss_pred             CCCCc---ccccc-ccCCCCC-CCCC-CEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCc
Q 038724           84 DLWET---IDLSK-IGVPLPS-QKIV-SKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        84 dv~~~---~~~~~-l~~~~~~-~~~g-s~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      |+...   ..|+. +...+.. ...| .++|+||+.....                   ++++++++-.+++.+.+....
T Consensus       105 di~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~  184 (235)
T PRK08084        105 NIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRG  184 (235)
T ss_pred             ChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcC
Confidence            99653   22221 1111111 1123 4788888755332                   777888888888776554332


Q ss_pred             ccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                         ..-.++..+.|++.+.|....+..+-
T Consensus       185 ---~~l~~~v~~~L~~~~~~d~r~l~~~l  210 (235)
T PRK08084        185 ---FELPEDVGRFLLKRLDREMRTLFMTL  210 (235)
T ss_pred             ---CCCCHHHHHHHHHhhcCCHHHHHHHH
Confidence               23335667778888877665554333

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.51  E-value=1.7e-06  Score=91.29  Aligned_cols=159  Identities=13%  Similarity=0.122  Sum_probs=102.3

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC---------------------CCCCEEEEEEe
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER---------------------PGFDVVIWVVV   58 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~---------------------~~f~~~~~v~~   58 (483)
                      ||.+..++.|..++..+.+. .+.++|+.|+||||+|+.+++.+....                     .+++ ++++..
T Consensus        18 iGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d-v~eida   96 (824)
T PRK07764         18 IGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD-VTEIDA   96 (824)
T ss_pred             cCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc-EEEecc
Confidence            68888999999999987665 478999999999999999988772111                     1222 234433


Q ss_pred             CCCcCc---cchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEec-CChhhh-----------h
Q 038724           59 SKELKL---ETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTT-HSEEVC-----------V  118 (483)
Q Consensus        59 ~~~~~~---~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTt-R~~~~~-----------l  118 (483)
                      .....+   +++...+   ...++.-++|||+++...  ....|+..+.+....+.+|++| ....+.           +
T Consensus        97 as~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~v~F  176 (824)
T PRK07764         97 ASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYPF  176 (824)
T ss_pred             cccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeEEEe
Confidence            222222   3333333   345677789999998663  3555655665544455555544 333332           7


Q ss_pred             ccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          119 DCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ..++.++..+.+.+....+..   .-..+....|++.++|.+..+
T Consensus       177 ~~l~~~~l~~~L~~il~~EGv---~id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        177 RLVPPEVMRGYLERICAQEGV---PVEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             eCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            788888888888776644331   223445678999999988544

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=2.4e-06  Score=83.43  Aligned_cols=160  Identities=11%  Similarity=0.134  Sum_probs=96.4

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhccc-----CCCCCCE-EEEEEeCCCcC---ccchhHH
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCS-----ERPGFDV-VIWVVVSKELK---LETSQDD   70 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~-----~~~~f~~-~~~v~~~~~~~---~~~~~~~   70 (483)
                      ||.+..++.+.+++..+.. +.+.++|++|+|||++|+.+++....     ....|.. ++-+......+   +.++..+
T Consensus        20 ig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~   99 (367)
T PRK14970         20 VGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDIRNLIDQ   99 (367)
T ss_pred             CCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHHHHHHHH
Confidence            6889999999999988754 47889999999999999999887621     0112222 12222222222   2222332


Q ss_pred             h---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCCh-hhh-----------hccCChHHHHHHHHHH
Q 038724           71 M---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VDCFTPQESWQVFQMK  133 (483)
Q Consensus        71 i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~~L~~~~a~~l~~~~  133 (483)
                      .   ...+++-++|+|+++....  +..+...+......+.+|++|... ...           ++++++++....+...
T Consensus       100 ~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~l~~~  179 (367)
T PRK14970        100 VRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGI  179 (367)
T ss_pred             HhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHHHHHHHH
Confidence            2   2335566899999975432  444443333323345555544322 111           6778888888888776


Q ss_pred             hcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          134 VGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      +...+.   .-..+.++.+++.++|.+..+
T Consensus       180 ~~~~g~---~i~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        180 AVKEGI---KFEDDALHIIAQKADGALRDA  206 (367)
T ss_pred             HHHcCC---CCCHHHHHHHHHhCCCCHHHH
Confidence            654431   123466788888898866533

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.49  E-value=1.6e-06  Score=78.66  Aligned_cols=153  Identities=8%  Similarity=0.052  Sum_probs=85.3

Q ss_pred             HHHHHHHHHhc-CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEcC
Q 038724            6 QFYQVWRFLVK-KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDD   84 (483)
Q Consensus         6 ~~~~l~~~l~~-~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDd   84 (483)
                      .+..+.++... ...+.+.|+|++|+|||+||.++++...   ..-....+++......      .+......-++|+||
T Consensus        28 ~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~---~~~~~~~~i~~~~~~~------~~~~~~~~~~liiDd   98 (227)
T PRK08903         28 LVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADAS---YGGRNARYLDAASPLL------AFDFDPEAELYAVDD   98 (227)
T ss_pred             HHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEEehHHhHH------HHhhcccCCEEEEeC
Confidence            34455555442 3446899999999999999999998762   1122345665543221      112223345788999


Q ss_pred             CCCccc--cccccCCCCC-CCCCC-EEEEecCChhhh------------------hccCChHHHHHHHHHHhcCCcccCC
Q 038724           85 LWETID--LSKIGVPLPS-QKIVS-KVVFTTHSEEVC------------------VDCFTPQESWQVFQMKVGNETLVSH  142 (483)
Q Consensus        85 v~~~~~--~~~l~~~~~~-~~~gs-~ilvTtR~~~~~------------------l~~L~~~~a~~l~~~~~~~~~~~~~  142 (483)
                      ++....  ...+...+.. ...+. .+++|++.....                  +.++++++-.+++.+......   .
T Consensus        99 i~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~---v  175 (227)
T PRK08903         99 VERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAAAERG---L  175 (227)
T ss_pred             hhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC---C
Confidence            975422  2222222221 11233 466666532211                  777777776666665443222   1


Q ss_pred             CCchhHHHHHHhHcCCchHHHHHHHHHh
Q 038724          143 PAIHKPAKMVAKDCGGLPLALTIVGRAM  170 (483)
Q Consensus       143 ~~~~~~~~~i~~~c~g~Plal~~~~~~l  170 (483)
                      .-.++..+.+++.+.|++..+..+-..+
T Consensus       176 ~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        176 QLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            2234566777777888887776555443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=3.1e-06  Score=85.77  Aligned_cols=166  Identities=13%  Similarity=0.145  Sum_probs=104.6

Q ss_pred             CCChhHHHHHHHHHhcCC-eEEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKD-VGIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~-~~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~~   60 (483)
                      ||-+..++.|.+++..+. ...+.++|+.|+||||+|+.+++......                   .|.+ ++++....
T Consensus        19 iGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpD-v~eId~a~   97 (624)
T PRK14959         19 AGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVD-VVEIDGAS   97 (624)
T ss_pred             cCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCc-eEEEeccc
Confidence            577788888888888765 46788999999999999999998772110                   0111 33443332


Q ss_pred             CcCcc---chhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCC-hhhh-----------hcc
Q 038724           61 ELKLE---TSQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHS-EEVC-----------VDC  120 (483)
Q Consensus        61 ~~~~~---~~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~-~~~~-----------l~~  120 (483)
                      ...+.   .+.+.+   ...+++.++|||+++..  .....+...+........+|++|.+ ..+.           +.+
T Consensus        98 ~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~F~p  177 (624)
T PRK14959         98 NRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTR  177 (624)
T ss_pred             ccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccccCC
Confidence            22222   222222   34567789999999765  3345555555433334555555544 3222           788


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch-HHHHHHHHHh
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP-LALTIVGRAM  170 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lal~~~~~~l  170 (483)
                      ++.++..+.+...+.....   .-..+.++.|++.++|.. .|+..+...+
T Consensus       178 Ls~~eL~~~L~~il~~egi---~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        178 LSEAGLEAHLTKVLGREGV---DYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             CCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            9999998888876654431   223456888999999865 5666665443

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

Probab=98.47  E-value=3.9e-07  Score=82.62  Aligned_cols=68  Identities=22%  Similarity=0.257  Sum_probs=54.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC--cCccchhHHh-------------------------
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE--LKLETSQDDM-------------------------   71 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~--~~~~~~~~~i-------------------------   71 (483)
                      -..++|+|++|+|||||+++++++. . ..+|+.++|+.+.++  .+..++++.+                         
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l-~-~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~   93 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAI-T-KNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE   93 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc-c-cccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence            3589999999999999999999987 3 238999999987766  5666666665                         


Q ss_pred             -----hhcCCcEEEEEcCCCCc
Q 038724           72 -----ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 -----~l~~~~~LlvlDdv~~~   88 (483)
                           .-+++++++++|++..-
T Consensus        94 ~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHHHh
Confidence                 34589999999998543

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.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=4.5e-06  Score=84.83  Aligned_cols=162  Identities=14%  Similarity=0.158  Sum_probs=102.3

Q ss_pred             CCChhHHHHHHHHHhcCCeEE-EEEEcCCCCcHHHHHHHHHhhcccCC---------------------CCCCEEEEEEe
Q 038724            1 IENPKQFYQVWRFLVKKDVGI-IGLFGTGGVGKTTILKQINNRFCSER---------------------PGFDVVIWVVV   58 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~-v~i~G~~GiGKTtLa~~~~~~~~~~~---------------------~~f~~~~~v~~   58 (483)
                      ||.+..++.|..++..+.... +.++|+.|+||||+|+.+++..-...                     .+.+ ++.+..
T Consensus        16 vGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~d-vieida   94 (584)
T PRK14952         16 VGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSID-VVELDA   94 (584)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCce-EEEecc
Confidence            688889999999999877654 68999999999999999998652110                     1112 333433


Q ss_pred             CCCcCccc---hhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEE-ecCChhhh-----------h
Q 038724           59 SKELKLET---SQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------V  118 (483)
Q Consensus        59 ~~~~~~~~---~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------l  118 (483)
                      +....+.+   +...+   ...+++-++|+|+++..  .....+...+........+|+ ||....+.           +
T Consensus        95 as~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SRc~~~~F  174 (584)
T PRK14952         95 ASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPF  174 (584)
T ss_pred             ccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHhceEEEe
Confidence            33222332   22222   23466778999999755  335555555554444555554 44433322           7


Q ss_pred             ccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHHHH
Q 038724          119 DCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALTIV  166 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~~~  166 (483)
                      .+++.++..+.+......+..   .-..+....|++.++|.+. ++..+
T Consensus       175 ~~l~~~~i~~~L~~i~~~egi---~i~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        175 RLLPPRTMRALIARICEQEGV---VVDDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             eCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            889999988888776654431   1224556788999999775 44443

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

Probab=98.46  E-value=5.1e-08  Score=96.65  Aligned_cols=162  Identities=24%  Similarity=0.276  Sum_probs=119.3

Q ss_pred             cccccceEEEEccccccccccC-CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLN-TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~-~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      ...+.++..+++.+|.++.+.. ...+++|++|++++|.++.+.+  +..++.|+.|++++|. +..++ .+..+++|+.
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~--l~~l~~L~~L~l~~N~-i~~~~-~~~~l~~L~~  166 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEG--LSTLTLLKELNLSGNL-ISDIS-GLESLKSLKL  166 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheeccccccccccc--hhhccchhhheeccCc-chhcc-CCccchhhhc
Confidence            4567789999999999999988 7889999999999999998877  6778889999999996 45444 5777999999


Q ss_pred             EeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCc---------cchhhHhhhccccc--cccceeeccCccc
Q 038724          371 LDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSD---------DAESLLKEMLCLEQ--LNIIRLTSCSLCS  438 (483)
Q Consensus       371 L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~---------~~~~~~~~l~~l~~--L~~L~l~~~~l~~  438 (483)
                      +++++|.+..++.. ...+.+|+.+++.+|.+..+.....++         ......+.+..+..  |+.+.+++|++..
T Consensus       167 l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i~~~~~~~~l~~~~l~~n~i~~~~~l~~~~~~~L~~l~l~~n~i~~  246 (414)
T KOG0531|consen  167 LDLSYNRIVDIENDELSELISLEELDLGGNSIREIEGLDLLKKLVLLSLLDNKISKLEGLNELVMLHLRELYLSGNRISR  246 (414)
T ss_pred             ccCCcchhhhhhhhhhhhccchHHHhccCCchhcccchHHHHHHHHhhcccccceeccCcccchhHHHHHHhcccCcccc
Confidence            99999999888764 578889999999999877652211110         11122222333333  7788888887654


Q ss_pred             c----CCCCCcccccceeeeeee
Q 038724          439 L----CGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       439 l----~~l~~l~~l~l~~~~~~~  457 (483)
                      +    ..+..+..|++..+.+..
T Consensus       247 ~~~~~~~~~~l~~l~~~~n~~~~  269 (414)
T KOG0531|consen  247 SPEGLENLKNLPVLDLSSNRISN  269 (414)
T ss_pred             ccccccccccccccchhhccccc
Confidence            3    455566667766666554

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=3.6e-06  Score=86.53  Aligned_cols=159  Identities=11%  Similarity=0.123  Sum_probs=103.2

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhccc--------------------CCCCCCEEEEEEeC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCS--------------------ERPGFDVVIWVVVS   59 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~--------------------~~~~f~~~~~v~~~   59 (483)
                      ||.+..++.|..++..+... .+.++|+.|+||||+|+.+++....                    ...+|+. ..+..+
T Consensus        20 iGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-~~ld~~   98 (614)
T PRK14971         20 VGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-HELDAA   98 (614)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-EEeccc
Confidence            68889999999999887664 5789999999999999998886520                    1123442 334444


Q ss_pred             CCcCccchhHHh------hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEec-CChhhh-----------hc
Q 038724           60 KELKLETSQDDM------ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTT-HSEEVC-----------VD  119 (483)
Q Consensus        60 ~~~~~~~~~~~i------~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTt-R~~~~~-----------l~  119 (483)
                      ......++...+      ...+.+-++|+|+++...  ....+...+......+.+|++| +...+.           +.
T Consensus        99 ~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~  178 (614)
T PRK14971         99 SNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFN  178 (614)
T ss_pred             ccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhheeecC
Confidence            333333333332      344566788999997653  3555555555444456655544 333222           77


Q ss_pred             cCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          120 CFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       120 ~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ++++++....+...+...+.   .-..+.++.|++.++|...-+
T Consensus       179 ~ls~~ei~~~L~~ia~~egi---~i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        179 RIQVADIVNHLQYVASKEGI---TAEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             CCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            89999998888877654441   223456788999999976544

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.45  E-value=4.5e-06  Score=82.95  Aligned_cols=159  Identities=10%  Similarity=0.082  Sum_probs=99.4

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccC--------------------CCCCCEEEEEEeC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSE--------------------RPGFDVVIWVVVS   59 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~--------------------~~~f~~~~~v~~~   59 (483)
                      ||.+..++.+.+++..+.. ..+.++|+.|+||||+|+.+++.....                    ..+++ ..++...
T Consensus        20 iGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~~~i~g~   98 (451)
T PRK06305         20 LGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-VLEIDGA   98 (451)
T ss_pred             cCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-eEEeecc
Confidence            6889999999999988765 568899999999999999998866211                    01122 2222222


Q ss_pred             CCcC---ccchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCCh-hhh-----------hc
Q 038724           60 KELK---LETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VD  119 (483)
Q Consensus        60 ~~~~---~~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~  119 (483)
                      ....   ++++.+.+   ...+.+-++|+|+++...  ..+.+...+.+......+|++|.+. .+.           +.
T Consensus        99 ~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sRc~~v~f~  178 (451)
T PRK06305         99 SHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLK  178 (451)
T ss_pred             ccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHhceEEeCC
Confidence            2222   22222222   234677889999997542  3444555554433456666555332 221           77


Q ss_pred             cCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          120 CFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       120 ~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ++++++....+...+...+   ..-..+.++.+++.++|.+.-+
T Consensus       179 ~l~~~el~~~L~~~~~~eg---~~i~~~al~~L~~~s~gdlr~a  219 (451)
T PRK06305        179 RIPEETIIDKLALIAKQEG---IETSREALLPIARAAQGSLRDA  219 (451)
T ss_pred             CCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHH
Confidence            8999998888877664332   1223456888999999976433

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.44  E-value=4.5e-06  Score=83.53  Aligned_cols=162  Identities=10%  Similarity=0.087  Sum_probs=103.7

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~~   60 (483)
                      ||-+..++.+..++..+..+ .+.++|+.|+||||+|+.+++......                   .+++ ++.+..+.
T Consensus        17 iGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~d-v~eldaas   95 (535)
T PRK08451         17 IGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHID-IIEMDAAS   95 (535)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCe-EEEecccc
Confidence            67788889999999887665 568999999999999999887652111                   1111 23333332


Q ss_pred             CcCccchhHHh------hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hcc
Q 038724           61 ELKLETSQDDM------ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDC  120 (483)
Q Consensus        61 ~~~~~~~~~~i------~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~  120 (483)
                      .....++...+      ...+++-++|+|+++...  ....+...+....+.+++|++|.+..-.            +.+
T Consensus        96 ~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~F~~  175 (535)
T PRK08451         96 NRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQ  175 (535)
T ss_pred             ccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEEcCC
Confidence            22333333333      122567789999997653  2445555554444456666666553221            888


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      ++.++..+.+...+..++.   .-..+.++.|++.++|.+.-+...
T Consensus       176 Ls~~ei~~~L~~Il~~EGi---~i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        176 IPQNSIISHLKTILEKEGV---SYEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             CCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHHHH
Confidence            9999988888877655441   223567889999999988555443

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=4.6e-06  Score=85.36  Aligned_cols=157  Identities=14%  Similarity=0.119  Sum_probs=98.1

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC---------------------------CCCCE
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER---------------------------PGFDV   52 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~---------------------------~~f~~   52 (483)
                      ||-+..+..|.+++..+... .+.++|+.|+||||+|+.+++......                           .+++.
T Consensus        19 vGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~~~n~   98 (620)
T PRK14954         19 TAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDAGTSLNI   98 (620)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhccCCCCe
Confidence            68888899999999887664 488999999999999999987762110                           12222


Q ss_pred             EEEEEeCCCcC---ccchhHHh---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEE-ecCChhhh------
Q 038724           53 VIWVVVSKELK---LETSQDDM---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVF-TTHSEEVC------  117 (483)
Q Consensus        53 ~~~v~~~~~~~---~~~~~~~i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilv-TtR~~~~~------  117 (483)
                      . .+.......   ++++.+.+   ...+.+-++|+||++....  .+.+...+......+.+|+ |++...+.      
T Consensus        99 ~-~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI~SR  177 (620)
T PRK14954         99 S-EFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASR  177 (620)
T ss_pred             E-EecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhh
Confidence            1 122222222   33333333   3345666889999976533  4555555544444455554 44333322      


Q ss_pred             -----hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH
Q 038724          118 -----VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       118 -----l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  161 (483)
                           +.+++.++....+...+....   ..-..+.++.+++.++|...
T Consensus       178 c~~vef~~l~~~ei~~~L~~i~~~eg---i~I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        178 CQRFNFKRIPLDEIQSQLQMICRAEG---IQIDADALQLIARKAQGSMR  223 (620)
T ss_pred             ceEEecCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHhCCCHH
Confidence                 778999888877777654332   11235568889999999664

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

Probab=98.43  E-value=3.8e-08  Score=92.25  Aligned_cols=157  Identities=20%  Similarity=0.204  Sum_probs=112.6

Q ss_pred             cccccccceEEEEccccccccccCC----CCCCcccEEEecCCccccccchh-hhcCCCccEEEccCCccCcc-CCcccc
Q 038724          290 SDALKWLGLRRMSLMNNQIKTLLNT----PSCPHLLTLFLNDNYLQDIKNGF-FQFMPCLKVLNLSYNRFLTK-LPSGIS  363 (483)
Q Consensus       290 ~~~~~~~~l~~l~l~~~~~~~~~~~----~~~~~L~~L~l~~n~~~~~~~~~-~~~l~~L~~L~l~~n~~~~~-~p~~~~  363 (483)
                      ++...+++++.|+++.|-+....+.    ..+++|+.|+|+.|.+.....+. -..+++|+.|.|+.|.+... +-....
T Consensus       140 ~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~  219 (505)
T KOG3207|consen  140 EYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILL  219 (505)
T ss_pred             hhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHH
Confidence            5666788999999999977765443    46899999999999876543321 23567899999999975432 112344


Q ss_pred             cCcCCCEEeccCCC-CCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc---
Q 038724          364 KLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL---  439 (483)
Q Consensus       364 ~l~~L~~L~l~~~~-i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l---  439 (483)
                      .+++|..|+|..|. +..--.....++.|+.|||++|++...+          .....+.|+.|+.|+++.|.+.++   
T Consensus       220 ~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~----------~~~~~~~l~~L~~Lnls~tgi~si~~~  289 (505)
T KOG3207|consen  220 TFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFD----------QGYKVGTLPGLNQLNLSSTGIASIAEP  289 (505)
T ss_pred             hCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccc----------cccccccccchhhhhccccCcchhcCC
Confidence            67889999999995 2222222455678999999999976432          234567889999999999987554   


Q ss_pred             --------CCCCCcccccceeeeee
Q 038724          440 --------CGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       440 --------~~l~~l~~l~l~~~~~~  456 (483)
                              ..+++|+.|++..|++.
T Consensus       290 d~~s~~kt~~f~kL~~L~i~~N~I~  314 (505)
T KOG3207|consen  290 DVESLDKTHTFPKLEYLNISENNIR  314 (505)
T ss_pred             CccchhhhcccccceeeecccCccc
Confidence                    44678888888888773

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.42  E-value=5.2e-06  Score=79.48  Aligned_cols=161  Identities=8%  Similarity=0.062  Sum_probs=96.9

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccC-----C-CCC-----CE-------------EEE
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSE-----R-PGF-----DV-------------VIW   55 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~-----~-~~f-----~~-------------~~~   55 (483)
                      ||-++..+.+...+..+.. ..+.|+|+.|+||||+|..+++..-..     . ..+     .+             ..+
T Consensus        26 ~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~~~~hPdl~~  105 (351)
T PRK09112         26 FGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIAQGAHPNLLH  105 (351)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHHcCCCCCEEE
Confidence            5788888999999988764 458999999999999999998876220     0 000     00             122


Q ss_pred             EEeC--C-------CcCccchh---HHh---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCE-EEEecCChhhh
Q 038724           56 VVVS--K-------ELKLETSQ---DDM---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSK-VVFTTHSEEVC  117 (483)
Q Consensus        56 v~~~--~-------~~~~~~~~---~~i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~-ilvTtR~~~~~  117 (483)
                      +...  .       ...+.++.   +.+   ...+++-++|||+++....  ...+...+........ |++|++...+.
T Consensus       106 l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~ll  185 (351)
T PRK09112        106 ITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLL  185 (351)
T ss_pred             eecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhcc
Confidence            2211  0       01112211   111   3356778999999986532  3344444433223344 44444332222


Q ss_pred             -----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          118 -----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       118 -----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                                 +.+++.++..+.+.+.....     .-..+....+++.++|.|.....+
T Consensus       186 ptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~-----~~~~~~~~~i~~~s~G~pr~Al~l  240 (351)
T PRK09112        186 PTIRSRCQPISLKPLDDDELKKALSHLGSSQ-----GSDGEITEALLQRSKGSVRKALLL  240 (351)
T ss_pred             HHHHhhccEEEecCCCHHHHHHHHHHhhccc-----CCCHHHHHHHHHHcCCCHHHHHHH
Confidence                       89999999999998743211     122445778999999999865433

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.41  E-value=5.5e-06  Score=85.30  Aligned_cols=159  Identities=13%  Similarity=0.142  Sum_probs=99.5

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCCC----------------CCCEEEEEEeCCCcC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSERP----------------GFDVVIWVVVSKELK   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----------------~f~~~~~v~~~~~~~   63 (483)
                      ||-+..++.|.+++..++. +.+.++|+.|+||||+|+.+++..-....                +++ ++++.......
T Consensus        21 iGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~D-vieidaasn~~   99 (725)
T PRK07133         21 VGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLD-IIEMDAASNNG   99 (725)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCc-EEEEeccccCC
Confidence            6888899999999988754 45689999999999999999876521111                111 12232221122


Q ss_pred             ---ccchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEE-EecCChhhh-----------hccCCh
Q 038724           64 ---LETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVV-FTTHSEEVC-----------VDCFTP  123 (483)
Q Consensus        64 ---~~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~il-vTtR~~~~~-----------l~~L~~  123 (483)
                         ++++...+   ...+++-++|+|+++...  .+..+...+........+| +|++...+.           +.+++.
T Consensus       100 vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~~L~~  179 (725)
T PRK07133        100 VDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISE  179 (725)
T ss_pred             HHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEccCCCH
Confidence               33444444   345777799999997552  3555555554333344444 454433332           778999


Q ss_pred             HHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          124 QESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       124 ~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ++..+.+...+...+.   ....+.++.+++.++|.+.-+
T Consensus       180 eeI~~~L~~il~kegI---~id~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        180 DEIVSRLEFILEKENI---SYEKNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             HHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            9988888776544331   222455788999999876543

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.41  E-value=4.1e-07  Score=86.07  Aligned_cols=67  Identities=21%  Similarity=0.253  Sum_probs=54.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc--CccchhHHh--------------------------
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL--KLETSQDDM--------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~--~~~~~~~~i--------------------------   71 (483)
                      ...+|+|++|+||||||+++|+.. . .++|+.++||.+.+..  .+.++++.+                          
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I-~-~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~  247 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSI-T-TNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEK  247 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHH-H-hhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHH
Confidence            467899999999999999999987 3 3389999999988887  555666655                          


Q ss_pred             ----hhcCCcEEEEEcCCCCc
Q 038724           72 ----ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ----~l~~~~~LlvlDdv~~~   88 (483)
                          ...|+.++|++|++..-
T Consensus       248 Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        248 AKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHcCCCEEEEEEChHHH
Confidence                34689999999998543

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.39  E-value=1.2e-07  Score=89.05  Aligned_cols=207  Identities=17%  Similarity=0.197  Sum_probs=130.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCC-CEEEEEEeCCCcCccchhHH------------------h--hhcCCc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGF-DVVIWVVVSKELKLETSQDD------------------M--ILSTKK   77 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f-~~~~~v~~~~~~~~~~~~~~------------------i--~l~~~~   77 (483)
                      .|.+.++|+|||||||++-++.+ .   ...| +++.++...+-.+...+.--                  +  ...++|
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~~~~~~~~~~~~~rr   89 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGDSAVDTLVRRIGDRR   89 (414)
T ss_pred             hheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhcccccccchHHHHHHHHHHhhhh
Confidence            47999999999999999999988 3   3344 44555544433322222111                  1  567899


Q ss_pred             EEEEEcCCCCccc-cccccCCCCCCCCCCEEEEecCChhhh-------hccCChH-HHHHHHHHHhcCC--cccCCCCch
Q 038724           78 FLLLLDDLWETID-LSKIGVPLPSQKIVSKVVFTTHSEEVC-------VDCFTPQ-ESWQVFQMKVGNE--TLVSHPAIH  146 (483)
Q Consensus        78 ~LlvlDdv~~~~~-~~~l~~~~~~~~~gs~ilvTtR~~~~~-------l~~L~~~-~a~~l~~~~~~~~--~~~~~~~~~  146 (483)
                      .++|+||-....+ -..+...+......-.|+.|+|+....       +.+|+.. ++.++|..-+...  .+.-.....
T Consensus        90 ~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~~~~  169 (414)
T COG3903          90 ALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTDDNA  169 (414)
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccceeecCCch
Confidence            9999999743311 111122222233345688888887655       6667655 6888887655322  222334556


Q ss_pred             hHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhcc--cCC--CChHHHHHhhhcccCCCCchhhhHHHhhh
Q 038724          147 KPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSA--LQF--PGINKVYYRLKFSFDRLPSDQIRSCFLFC  222 (483)
Q Consensus       147 ~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~--~~~--~~~~~~~~~l~~s~~~L~~~~~~~~~~~~  222 (483)
                      ..+..|.++.+|.|++|..+++..+.-.+.+.-..+-++.....  ...  .........+..||.-|.. ..+..|..+
T Consensus       170 a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtg-we~~~~~rL  248 (414)
T COG3903         170 AAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTG-WERALFGRL  248 (414)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhh-HHHHHhcch
Confidence            77889999999999999999998887332222222222221111  111  1111566778999999998 788899999


Q ss_pred             cCCCCCCc
Q 038724          223 SPFPGDYR  230 (483)
Q Consensus       223 a~fp~~~~  230 (483)
                      +.|...+.
T Consensus       249 a~~~g~f~  256 (414)
T COG3903         249 AVFVGGFD  256 (414)
T ss_pred             hhhhhhhc
Confidence            99987654

>PRK05642 DNA replication initiation factor; Validated

Probab=98.36  E-value=3e-06  Score=76.83  Aligned_cols=139  Identities=15%  Similarity=0.181  Sum_probs=81.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-ccchhHHhhhcCCcEEEEEcCCCCc---ccccc-c
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-LETSQDDMILSTKKFLLLLDDLWET---IDLSK-I   94 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-~~~~~~~i~l~~~~~LlvlDdv~~~---~~~~~-l   94 (483)
                      +.+.|+|.+|+|||.|++++++.. .  ..-..++|++..+-.. ...+.+  .+.+-. ++|+||+...   ..|.. +
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~-~--~~~~~v~y~~~~~~~~~~~~~~~--~~~~~d-~LiiDDi~~~~~~~~~~~~L  119 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRF-E--QRGEPAVYLPLAELLDRGPELLD--NLEQYE-LVCLDDLDVIAGKADWEEAL  119 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH-H--hCCCcEEEeeHHHHHhhhHHHHH--hhhhCC-EEEEechhhhcCChHHHHHH
Confidence            578999999999999999999876 2  1224467887543211 111111  122222 6789999633   22222 2


Q ss_pred             cCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHh
Q 038724           95 GVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAK  154 (483)
Q Consensus        95 ~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~  154 (483)
                      ...+.. ..+|..+|+|++.....                   +++++.++-.+++...+....   ..-.++..+.|++
T Consensus       120 f~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~---~~l~~ev~~~L~~  196 (234)
T PRK05642        120 FHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRG---LHLTDEVGHFILT  196 (234)
T ss_pred             HHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHH
Confidence            222221 22467788888754332                   677888888888875543322   1222466777777


Q ss_pred             HcCCchHHHHHHH
Q 038724          155 DCGGLPLALTIVG  167 (483)
Q Consensus       155 ~c~g~Plal~~~~  167 (483)
                      .+.|....+..+-
T Consensus       197 ~~~~d~r~l~~~l  209 (234)
T PRK05642        197 RGTRSMSALFDLL  209 (234)
T ss_pred             hcCCCHHHHHHHH
Confidence            7777665554433

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=1e-05  Score=80.94  Aligned_cols=164  Identities=13%  Similarity=0.103  Sum_probs=100.7

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhccc--CC----------------CCCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCS--ER----------------PGFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~--~~----------------~~f~~~~~v~~~~~   61 (483)
                      ||-+..+..+..++..+... .+.++|+.|+||||+|+.++.....  ..                +.+.....+..+..
T Consensus        19 iGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eidaas~   98 (486)
T PRK14953         19 IGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDAASN   98 (486)
T ss_pred             cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEeCccC
Confidence            57888899999999887554 5678999999999999999886521  00                01122334443332


Q ss_pred             cCc---cchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEE-ecCChhhh-----------hccC
Q 038724           62 LKL---ETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------VDCF  121 (483)
Q Consensus        62 ~~~---~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------l~~L  121 (483)
                      ...   +.+...+   ...+++-++|+|+++...  ....+...+........+|+ |++...+.           +.++
T Consensus        99 ~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc~~i~f~~l  178 (486)
T PRK14953         99 RGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKP  178 (486)
T ss_pred             CCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhceEEEcCCC
Confidence            222   2333333   345677899999997552  34445444544333444544 44332221           7788


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      +.++....+...+...+.   .-..+.++.+++.++|.+..+....
T Consensus       179 s~~el~~~L~~i~k~egi---~id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        179 TKEQIKEYLKRICNEEKI---EYEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             CHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            888888888776644331   2234567888999999776554333

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.36  E-value=2.6e-06  Score=91.04  Aligned_cols=158  Identities=14%  Similarity=0.150  Sum_probs=93.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccC--CCC-CCEEEE-EEeCC----Cc-------Ccc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSE--RPG-FDVVIW-VVVSK----EL-------KLE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~--~~~-f~~~~~-v~~~~----~~-------~~~   65 (483)
                      |||++++.++.+.|......-+.++|++|+|||++|+.++++....  ... ....+| +.++.    ..       .+.
T Consensus       190 iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~e~~lk  269 (852)
T TIGR03345       190 LGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEFENRLK  269 (852)
T ss_pred             cCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHHHHHHH
Confidence            7999999999999988776778899999999999999999876211  111 122333 33332    11       122


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCcc-------ccc---cccCCCCCCCCCCEEEEecCChhh----h-------------h
Q 038724           66 TSQDDMILSTKKFLLLLDDLWETI-------DLS---KIGVPLPSQKIVSKVVFTTHSEEV----C-------------V  118 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~~-------~~~---~l~~~~~~~~~gs~ilvTtR~~~~----~-------------l  118 (483)
                      .+..++.-.+++++|++|+++...       +.+   -+.+.+. .+ .-++|-||....+    .             +
T Consensus       270 ~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~-~G-~l~~IgaTT~~e~~~~~~~d~AL~rRf~~i~v  347 (852)
T TIGR03345       270 SVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA-RG-ELRTIAATTWAEYKKYFEKDPALTRRFQVVKV  347 (852)
T ss_pred             HHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh-CC-CeEEEEecCHHHHhhhhhccHHHHHhCeEEEe
Confidence            233333334678999999986542       111   1222222 22 2445555544222    1             8


Q ss_pred             ccCChHHHHHHHHHHhcCCcc-cCCCCchhHHHHHHhHcCCch
Q 038724          119 DCFTPQESWQVFQMKVGNETL-VSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~~~~~~-~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      ++++.++..+++......-.. ..-.-..+..+.+++.+.+..
T Consensus       348 ~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       348 EEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             CCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence            899999999997654422110 111223455667777765443

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=8.9e-06  Score=83.70  Aligned_cols=162  Identities=12%  Similarity=0.097  Sum_probs=99.0

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCCC---------------------CCCEEEEEEe
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSERP---------------------GFDVVIWVVV   58 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~~---------------------~f~~~~~v~~   58 (483)
                      ||.++.++.|.+++..+.. +.+.++|+.|+||||+|+.+++.......                     |.+ ++.+..
T Consensus        19 iGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D-~~ei~~   97 (620)
T PRK14948         19 VGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALD-VIEIDA   97 (620)
T ss_pred             cChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCcc-EEEEec
Confidence            6888899999999987753 57889999999999999999987621100                     001 222332


Q ss_pred             CCCcCccchhH---Hh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCCh-hhh-----------h
Q 038724           59 SKELKLETSQD---DM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------V  118 (483)
Q Consensus        59 ~~~~~~~~~~~---~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l  118 (483)
                      ........+.+   ..   ...+++-++|+|+++...  ....+...+........+|++|.+. .+.           +
T Consensus        98 ~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrSRc~~~~f  177 (620)
T PRK14948         98 ASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRFDF  177 (620)
T ss_pred             cccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHhheeEEEe
Confidence            22222322222   22   234667789999998653  3555555554433345444444333 222           6


Q ss_pred             ccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          119 DCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      ..++.++....+...+.....   .-..+.++.|++.++|.+..+...
T Consensus       178 ~~l~~~ei~~~L~~ia~kegi---~is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        178 RRIPLEAMVQHLSEIAEKESI---EIEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             cCCCHHHHHHHHHHHHHHhCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            678888877777766544331   122356788999999987655433

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=9.3e-06  Score=83.72  Aligned_cols=162  Identities=11%  Similarity=0.105  Sum_probs=100.5

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC--C------------------CCCEEEEEEeC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER--P------------------GFDVVIWVVVS   59 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~------------------~f~~~~~v~~~   59 (483)
                      ||-+..++.|..++..+.. ..+.++|+.|+||||+|+.+++......  .                  +.+ ++.+..+
T Consensus        19 iGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d-~~~i~~~   97 (585)
T PRK14950         19 VGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVD-VIEMDAA   97 (585)
T ss_pred             cCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCe-EEEEecc
Confidence            6888899999999987655 4578999999999999999987762110  0                  111 2233332


Q ss_pred             CCcCccc---hhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCCh-hhh-----------hc
Q 038724           60 KELKLET---SQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VD  119 (483)
Q Consensus        60 ~~~~~~~---~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~  119 (483)
                      ......+   +...+   ...+++-++|||+++..  ...+.+...+......+.+|+++.+. .+.           +.
T Consensus        98 ~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~SR~~~i~f~  177 (585)
T PRK14950         98 SHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFH  177 (585)
T ss_pred             ccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHhccceeeCC
Confidence            2232222   22222   23356778999999755  33555555554433455666555432 221           66


Q ss_pred             cCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          120 CFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       120 ~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      .++.++....+...+...+.   .-..+.++.+++.++|.+..+...
T Consensus       178 ~l~~~el~~~L~~~a~~egl---~i~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        178 RHSVADMAAHLRKIAAAEGI---NLEPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             CCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            77888888777776654331   123456889999999988655443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.34  E-value=1.4e-05  Score=81.28  Aligned_cols=161  Identities=10%  Similarity=0.090  Sum_probs=102.5

Q ss_pred             CCChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccC-------------------CCCCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSE-------------------RPGFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~-------------------~~~f~~~~~v~~~~   60 (483)
                      ||-+..++.+..++.++..+ .+.++|+.|+||||+|+.+++.....                   ..+++ ..++....
T Consensus        19 iGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~d-v~~idgas   97 (563)
T PRK06647         19 EGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLD-VIEIDGAS   97 (563)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCC-eEEecCcc
Confidence            68888899999999887654 58899999999999999999876211                   01233 23333222


Q ss_pred             CcCcc---chhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCCh-hhh-----------hcc
Q 038724           61 ELKLE---TSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSE-EVC-----------VDC  120 (483)
Q Consensus        61 ~~~~~---~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~-~~~-----------l~~  120 (483)
                      .....   ++...+   ...+++-++|+|+++...  .+..+...+........+|++|.+. .+.           +.+
T Consensus        98 ~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~~~f~~  177 (563)
T PRK06647         98 NTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRL  177 (563)
T ss_pred             cCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceEEEecC
Confidence            23333   333222   334677789999997653  3555655665444456665555432 221           777


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      ++.++..+.+...+....   ..-..+.++.|++.++|.+..+..
T Consensus       178 l~~~el~~~L~~i~~~eg---i~id~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        178 LSLEKIYNMLKKVCLEDQ---IKYEDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             CCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            888888888877664433   122356678899999998754433

>PRK09087 hypothetical protein; Validated

Probab=98.31  E-value=3.3e-06  Score=75.91  Aligned_cols=132  Identities=11%  Similarity=0.026  Sum_probs=81.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEcCCCCcc-ccccccCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETI-DLSKIGVP   97 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDdv~~~~-~~~~l~~~   97 (483)
                      .+.+.|+|++|+|||+|++..++..   .     ..|++.. .+.. ++...  +.  .-++++||++... .-..+...
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~---~-----~~~i~~~-~~~~-~~~~~--~~--~~~l~iDDi~~~~~~~~~lf~l  109 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKS---D-----ALLIHPN-EIGS-DAANA--AA--EGPVLIEDIDAGGFDETGLFHL  109 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhc---C-----CEEecHH-Hcch-HHHHh--hh--cCeEEEECCCCCCCCHHHHHHH
Confidence            4579999999999999999998754   1     1255442 1111 11111  11  1378889996432 11222222


Q ss_pred             CCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcC
Q 038724           98 LPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCG  157 (483)
Q Consensus        98 ~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~  157 (483)
                      +.. ...|..+|+|++.....                   ++++++++-.+++.+.+....   ..-.++..+.|++.+.
T Consensus       110 ~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~~---~~l~~ev~~~La~~~~  186 (226)
T PRK09087        110 INSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADRQ---LYVDPHVVYYLVSRME  186 (226)
T ss_pred             HHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHhh
Confidence            221 12367788888743221                   889999999999998885543   2333567888888888


Q ss_pred             CchHHHHHHH
Q 038724          158 GLPLALTIVG  167 (483)
Q Consensus       158 g~Plal~~~~  167 (483)
                      |...++..+-
T Consensus       187 r~~~~l~~~l  196 (226)
T PRK09087        187 RSLFAAQTIV  196 (226)
T ss_pred             hhHHHHHHHH
Confidence            8776665433

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.30  E-value=1.6e-06  Score=84.41  Aligned_cols=153  Identities=14%  Similarity=0.149  Sum_probs=87.1

Q ss_pred             CCChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC-c-Ccc
Q 038724            1 IENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE-L-KLE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~-~-~~~   65 (483)
                      .|+++.++++.+.+..             ...+-+.++|++|+|||++|+++++..   ...|-.+........ . ...
T Consensus       125 ~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l---~~~~~~v~~~~l~~~~~g~~~  201 (364)
T TIGR01242       125 GGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATFIRVVGSELVRKYIGEGA  201 (364)
T ss_pred             CChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC---CCCEEecchHHHHHHhhhHHH
Confidence            4788889999887742             124568999999999999999999977   333321110000000 0 000


Q ss_pred             chhHHh---hhcCCcEEEEEcCCCCccc----------------cccccCCCCC--CCCCCEEEEecCChhhh-------
Q 038724           66 TSQDDM---ILSTKKFLLLLDDLWETID----------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        66 ~~~~~i---~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~-------  117 (483)
                      .....+   .....+.+|++||++....                +..+...+..  ...+.+||+||......       
T Consensus       202 ~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~  281 (364)
T TIGR01242       202 RLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRP  281 (364)
T ss_pred             HHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCc
Confidence            111111   3345678999999975310                1111111111  12356777777643221       


Q ss_pred             --------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 --------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 --------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                              +...+.++..++|..+.........    .....+++.+.|..
T Consensus       282 grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~----~~~~~la~~t~g~s  328 (364)
T TIGR01242       282 GRFDRIIEVPLPDFEGRLEILKIHTRKMKLAED----VDLEAIAKMTEGAS  328 (364)
T ss_pred             ccCceEEEeCCcCHHHHHHHHHHHHhcCCCCcc----CCHHHHHHHcCCCC
Confidence                    6677889999999887754331111    12567777777654

Many proteins may score above the trusted cutoff because an internal

>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=98.27  E-value=8.6e-07  Score=56.63  Aligned_cols=39  Identities=28%  Similarity=0.408  Sum_probs=26.1

Q ss_pred             cCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          366 VSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       366 ~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      ++|++|++++|+|.++|+.+.+|++|+.|++++|++..+
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i   39 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDI   39 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBE
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCC
Confidence            357777777777777776677777777777777775533

...

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.26  E-value=2.4e-05  Score=79.95  Aligned_cols=160  Identities=11%  Similarity=0.107  Sum_probs=99.9

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~~   60 (483)
                      ||.+..+..+..++..+.. +.+.++|+.|+|||++|+.+++......                   .+++ ++.+..+.
T Consensus        19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~d-v~eidaas   97 (559)
T PRK05563         19 VGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMD-VIEIDAAS   97 (559)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCC-eEEeeccc
Confidence            6899999999999987754 4577899999999999999987652111                   1222 23343332


Q ss_pred             CcC---ccchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEE-ecCChhhh-----------hcc
Q 038724           61 ELK---LETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------VDC  120 (483)
Q Consensus        61 ~~~---~~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------l~~  120 (483)
                      ...   ++++...+   ...++.-++|+|+++...  .+..+...+........+|+ ||....+.           +.+
T Consensus        98 ~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~~f~~  177 (559)
T PRK05563         98 NNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKR  177 (559)
T ss_pred             cCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEEecCC
Confidence            222   23333333   345677789999997553  35555555544333444444 44333222           677


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      ++.++....+...+...+.   .-..+.++.|++.++|.+..+.
T Consensus       178 ~~~~ei~~~L~~i~~~egi---~i~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        178 ISVEDIVERLKYILDKEGI---EYEDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             CCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHH
Confidence            8888888888776644331   1224567788889988775443

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.25  E-value=5.8e-07  Score=95.71  Aligned_cols=104  Identities=27%  Similarity=0.343  Sum_probs=83.5

Q ss_pred             ccceEEEEccccc--cccccC--CCCCCcccEEEecCCc-cccccchhhhcCCCccEEEccCCccCccCCcccccCcCCC
Q 038724          295 WLGLRRMSLMNNQ--IKTLLN--TPSCPHLLTLFLNDNY-LQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQ  369 (483)
Q Consensus       295 ~~~l~~l~l~~~~--~~~~~~--~~~~~~L~~L~l~~n~-~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~  369 (483)
                      .+++++|-+..|.  +..++.  ...++.|++|||++|. +..+|.. ++.+-+||+|+++++. +..+|.++++|..|.
T Consensus       544 ~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~-I~~Li~LryL~L~~t~-I~~LP~~l~~Lk~L~  621 (889)
T KOG4658|consen  544 NPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSS-IGELVHLRYLDLSDTG-ISHLPSGLGNLKKLI  621 (889)
T ss_pred             CCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChH-HhhhhhhhcccccCCC-ccccchHHHHHHhhh
Confidence            3468888888875  454444  2568999999999874 4555554 8999999999999996 779999999999999


Q ss_pred             EEeccCCC-CCccCccccCCcCCCEEecCCCC
Q 038724          370 HLDISFTS-TLELPEELKALEKLKYLDMDDHQ  400 (483)
Q Consensus       370 ~L~l~~~~-i~~lp~~~~~l~~L~~L~l~~n~  400 (483)
                      +|++..+. +..+|.....|++|++|.+....
T Consensus       622 ~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  622 YLNLEVTGRLESIPGILLELQSLRVLRLPRSA  653 (889)
T ss_pred             eeccccccccccccchhhhcccccEEEeeccc
Confidence            99999998 55565556679999999988765

>PF14516 AAA_35: AAA-like domain

Probab=98.25  E-value=2.4e-05  Score=74.86  Aligned_cols=161  Identities=16%  Similarity=0.219  Sum_probs=101.9

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC-----cCccchhHHh----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE-----LKLETSQDDM----   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~-----~~~~~~~~~i----   71 (483)
                      |+|+...+++.+.+.+.+ ..+.|.|+..+|||+|..++.+.. .. ..+. ++++++..-     .+...+...+    
T Consensus        14 i~R~~~e~~~~~~i~~~G-~~~~I~apRq~GKTSll~~l~~~l-~~-~~~~-~v~id~~~~~~~~~~~~~~f~~~~~~~i   89 (331)
T PF14516_consen   14 IERPPAEQECYQEIVQPG-SYIRIKAPRQMGKTSLLLRLLERL-QQ-QGYR-CVYIDLQQLGSAIFSDLEQFLRWFCEEI   89 (331)
T ss_pred             cCchHHHHHHHHHHhcCC-CEEEEECcccCCHHHHHHHHHHHH-HH-CCCE-EEEEEeecCCCcccCCHHHHHHHHHHHH
Confidence            678877777778887643 489999999999999999998877 22 2333 456655431     1222222222    


Q ss_pred             ---------------------------------hhcCCcEEEEEcCCCCcccc----ccccCCC----------CCCCCC
Q 038724           72 ---------------------------------ILSTKKFLLLLDDLWETIDL----SKIGVPL----------PSQKIV  104 (483)
Q Consensus        72 ---------------------------------~l~~~~~LlvlDdv~~~~~~----~~l~~~~----------~~~~~g  104 (483)
                                                       ...+++.+|+||+|+..-..    .++...+          +...+-
T Consensus        90 ~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L  169 (331)
T PF14516_consen   90 SRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKL  169 (331)
T ss_pred             HHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceE
Confidence                                             22378999999999755221    1111111          111111


Q ss_pred             CEEEEecCChhh-h--------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHH
Q 038724          105 SKVVFTTHSEEV-C--------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRA  169 (483)
Q Consensus       105 s~ilvTtR~~~~-~--------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~  169 (483)
                      +-|++.+..... .              +++++.+|...|...+.....       ....+.|...+||+|..+..++..
T Consensus       170 ~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~~-------~~~~~~l~~~tgGhP~Lv~~~~~~  242 (331)
T PF14516_consen  170 RLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEFS-------QEQLEQLMDWTGGHPYLVQKACYL  242 (331)
T ss_pred             EEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccCC-------HHHHHHHHHHHCCCHHHHHHHHHH
Confidence            122222211111 1              899999999999887653321       233899999999999999999999


Q ss_pred             hcC
Q 038724          170 MAY  172 (483)
Q Consensus       170 l~~  172 (483)
                      +..
T Consensus       243 l~~  245 (331)
T PF14516_consen  243 LVE  245 (331)
T ss_pred             HHH
Confidence            865

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.24  E-value=9.3e-06  Score=83.79  Aligned_cols=43  Identities=23%  Similarity=0.268  Sum_probs=36.2

Q ss_pred             CCChhHHHHHHHHHhc----CC-eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK----KD-VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~-~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +||++++++|...|..    .+ ..++.|+|++|.|||+.++.+.++.
T Consensus       758 PhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrEL  805 (1164)
T PTZ00112        758 PCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLL  805 (1164)
T ss_pred             CChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            5899999999998864    22 2467899999999999999998766

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.24  E-value=5.9e-06  Score=79.02  Aligned_cols=107  Identities=14%  Similarity=0.166  Sum_probs=67.5

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-------h
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-------I   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-------~   72 (483)
                      ||.++..+.+..++..+.. .++.++|++|+|||++|+++++..   ...   ...++.+. .....+...+       .
T Consensus        24 ~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~---~~~i~~~~-~~~~~i~~~l~~~~~~~~   96 (316)
T PHA02544         24 ILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAE---VLFVNGSD-CRIDFVRNRLTRFASTVS   96 (316)
T ss_pred             cCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---Ccc---ceEeccCc-ccHHHHHHHHHHHHHhhc
Confidence            5888899999999987754 566669999999999999999865   222   23444443 2222222222       2


Q ss_pred             hcCCcEEEEEcCCCCcc---ccccccCCCCCCCCCCEEEEecCCh
Q 038724           73 LSTKKFLLLLDDLWETI---DLSKIGVPLPSQKIVSKVVFTTHSE  114 (483)
Q Consensus        73 l~~~~~LlvlDdv~~~~---~~~~l~~~~~~~~~gs~ilvTtR~~  114 (483)
                      ..+.+-++|+||++...   ....+...+.....++++|+||...
T Consensus        97 ~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~  141 (316)
T PHA02544         97 LTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK  141 (316)
T ss_pred             ccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence            23456789999997551   1222322233334567888888654

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=2.3e-05  Score=80.51  Aligned_cols=162  Identities=14%  Similarity=0.151  Sum_probs=100.0

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCCC-------------------CCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSERP-------------------GFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~~-------------------~f~~~~~v~~~~   60 (483)
                      ||.+..+..|..++..+.. +.+.++|+.|+||||+|+.+++..-....                   +++ .+.+....
T Consensus        19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d-~~eid~~s   97 (576)
T PRK14965         19 TGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVD-VFEIDGAS   97 (576)
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCC-eeeeeccC
Confidence            6888889999999988765 45689999999999999999887521110                   112 12222222


Q ss_pred             CcC---ccchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEE-ecCChhhh-----------hcc
Q 038724           61 ELK---LETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------VDC  120 (483)
Q Consensus        61 ~~~---~~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------l~~  120 (483)
                      ...   ++++...+   ...+++-++|+|+++...  ....+...+.+......+|+ ||....+.           +.+
T Consensus        98 ~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SRc~~~~f~~  177 (576)
T PRK14965         98 NTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRR  177 (576)
T ss_pred             ccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHhhhhhhcCC
Confidence            222   33333333   234566789999997653  34455555544334455554 44433332           678


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch-HHHHHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP-LALTIV  166 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lal~~~  166 (483)
                      ++.++....+......++.   .-..+..+.|++.++|.. .++..+
T Consensus       178 l~~~~i~~~L~~i~~~egi---~i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        178 IPLQKIVDRLRYIADQEGI---SISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             CCHHHHHHHHHHHHHHhCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            8888888777776644431   223456778899998866 444444

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.23  E-value=2e-05  Score=81.50  Aligned_cols=43  Identities=21%  Similarity=0.200  Sum_probs=36.9

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||++..+..+.+.+.......+.|+|++|+||||+|+.+++..
T Consensus       157 iGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       157 VGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             eeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            5788888888888876666789999999999999999998755

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

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

Probab=98.22  E-value=3.9e-06  Score=81.35  Aligned_cols=84  Identities=19%  Similarity=0.216  Sum_probs=61.5

Q ss_pred             CChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh----------
Q 038724            2 ENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM----------   71 (483)
Q Consensus         2 gr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i----------   71 (483)
                      +.++.++.+...+...  +.+.++|++|+|||++|+++++.. .....|+.+.||++++..+..++....          
T Consensus       179 i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vgy~~~  255 (459)
T PRK11331        179 IPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVGFRRK  255 (459)
T ss_pred             CCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccCCCCCCeEec
Confidence            4567788888888765  478889999999999999999987 344567778888887655444333211          


Q ss_pred             ------------hhcCCcEEEEEcCCCCc
Q 038724           72 ------------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ------------~l~~~~~LlvlDdv~~~   88 (483)
                                  .-.++++++|+|++...
T Consensus       256 ~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        256 DGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             CchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence                        12247899999999755

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

Probab=98.21  E-value=3.4e-07  Score=90.82  Aligned_cols=106  Identities=33%  Similarity=0.447  Sum_probs=86.1

Q ss_pred             ccceEEEEccccccccccC-CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          295 WLGLRRMSLMNNQIKTLLN-TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~-~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      +..+..+++..|.+..+.. ...+++|..|++.+|.+..+... +..+++|++|++++|. +..+. .+..++.|+.|++
T Consensus        71 l~~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~-l~~~~~L~~L~ls~N~-I~~i~-~l~~l~~L~~L~l  147 (414)
T KOG0531|consen   71 LTSLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIENL-LSSLVNLQVLDLSFNK-ITKLE-GLSTLTLLKELNL  147 (414)
T ss_pred             hHhHHhhccchhhhhhhhcccccccceeeeeccccchhhcccc-hhhhhcchheeccccc-ccccc-chhhccchhhhee
Confidence            3445556677777776333 57889999999999999888764 6779999999999996 55554 5888889999999


Q ss_pred             cCCCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          374 SFTSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       374 ~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      ++|.|..++. +..+++|+.+++++|.+..+
T Consensus       148 ~~N~i~~~~~-~~~l~~L~~l~l~~n~i~~i  177 (414)
T KOG0531|consen  148 SGNLISDISG-LESLKSLKLLDLSYNRIVDI  177 (414)
T ss_pred             ccCcchhccC-CccchhhhcccCCcchhhhh
Confidence            9999999864 66799999999999997765

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

Probab=98.21  E-value=1.2e-07  Score=74.81  Aligned_cols=103  Identities=21%  Similarity=0.343  Sum_probs=78.6

Q ss_pred             EEccccccccccCC----CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCC
Q 038724          301 MSLMNNQIKTLLNT----PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT  376 (483)
Q Consensus       301 l~l~~~~~~~~~~~----~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~  376 (483)
                      +++++|.+-.++..    ....+|...+|++|.++.+|+.+-..++.+..|++++|. +..+|..+..++.|+.|+++.|
T Consensus        32 ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~ne-isdvPeE~Aam~aLr~lNl~~N  110 (177)
T KOG4579|consen   32 LDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNE-ISDVPEELAAMPALRSLNLRFN  110 (177)
T ss_pred             cccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhh-hhhchHHHhhhHHhhhcccccC
Confidence            45555554433221    345677788888888888888876777788888888885 7788888888888888888888


Q ss_pred             CCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          377 STLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       377 ~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      .+...|.-+..|.+|-.|+..+|.+..+
T Consensus       111 ~l~~~p~vi~~L~~l~~Lds~~na~~ei  138 (177)
T KOG4579|consen  111 PLNAEPRVIAPLIKLDMLDSPENARAEI  138 (177)
T ss_pred             ccccchHHHHHHHhHHHhcCCCCccccC
Confidence            8888888877788888888888876654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.19  E-value=1.2e-05  Score=86.27  Aligned_cols=88  Identities=20%  Similarity=0.321  Sum_probs=60.5

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCC--CC--CCEEEEEEeCCCc-----------Ccc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSER--PG--FDVVIWVVVSKEL-----------KLE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~--f~~~~~v~~~~~~-----------~~~   65 (483)
                      |||+.++.++.+.|.......+.++|++|+|||++|+.++.+.....  ..  -..++++.++.-.           .+.
T Consensus       181 igr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~~e~~lk  260 (857)
T PRK10865        181 IGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLK  260 (857)
T ss_pred             CCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhhhHHHHH
Confidence            79999999999999887767788999999999999999999872110  00  1223344433211           122


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCc
Q 038724           66 TSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      .++.++.-.+++++|++|+++..
T Consensus       261 ~~~~~~~~~~~~~ILfIDEih~l  283 (857)
T PRK10865        261 GVLNDLAKQEGNVILFIDELHTM  283 (857)
T ss_pred             HHHHHHHHcCCCeEEEEecHHHh
Confidence            33333344568899999999744

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.18  E-value=1e-05  Score=87.13  Aligned_cols=133  Identities=17%  Similarity=0.225  Sum_probs=79.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCC--CC-CCE-EEEEEeCCC----c-------Ccc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSER--PG-FDV-VIWVVVSKE----L-------KLE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~-f~~-~~~v~~~~~----~-------~~~   65 (483)
                      |||++++.++.+.|.......+.++|++|+|||++|..++.+.....  .. ... ++.+.++.-    .       .+.
T Consensus       176 igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~g~~e~~l~  255 (852)
T TIGR03346       176 IGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYRGEFEERLK  255 (852)
T ss_pred             CCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhhhhHHHHHH
Confidence            79999999999999887667778999999999999999998762110  00 122 333333211    1       122


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCccc---------cccccCCCCCCCCCCEEEE-ecCChh---hh-------------hc
Q 038724           66 TSQDDMILSTKKFLLLLDDLWETID---------LSKIGVPLPSQKIVSKVVF-TTHSEE---VC-------------VD  119 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~~~---------~~~l~~~~~~~~~gs~ilv-TtR~~~---~~-------------l~  119 (483)
                      .+...+.-.+++.+|++|+++....         ...+..+....+. -++|. ||.++.   ..             ++
T Consensus       256 ~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~-i~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~  334 (852)
T TIGR03346       256 AVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGE-LHCIGATTLDEYRKYIEKDAALERRFQPVFVD  334 (852)
T ss_pred             HHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcCc-eEEEEeCcHHHHHHHhhcCHHHHhcCCEEEeC
Confidence            2222223345789999999974321         1122222222222 34444 554432   11             77


Q ss_pred             cCChHHHHHHHHHHh
Q 038724          120 CFTPQESWQVFQMKV  134 (483)
Q Consensus       120 ~L~~~~a~~l~~~~~  134 (483)
                      ..+.++..+++....
T Consensus       335 ~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       335 EPTVEDTISILRGLK  349 (852)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            778899988887654

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.16  E-value=8.2e-06  Score=75.52  Aligned_cols=26  Identities=31%  Similarity=0.422  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+.++|++|+||||+|+.+++..
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            34578899999999999999998765

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.16  E-value=1.3e-05  Score=78.39  Aligned_cols=150  Identities=15%  Similarity=0.163  Sum_probs=86.0

Q ss_pred             CCChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-----
Q 038724            1 IENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-----   62 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-----   62 (483)
                      +|+++.++++.+.+..             ..++-|.++|++|+|||++|+++++..   ...|   +.+..+.-.     
T Consensus       134 ~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~---~~~~---i~v~~~~l~~~~~g  207 (389)
T PRK03992        134 GGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATF---IRVVGSELVQKFIG  207 (389)
T ss_pred             CCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh---CCCE---EEeehHHHhHhhcc
Confidence            4889999999887742             234568999999999999999999976   2222   112111100     


Q ss_pred             CccchhHHh---hhcCCcEEEEEcCCCCcc------------c----cccccCCCCC--CCCCCEEEEecCChhhh----
Q 038724           63 KLETSQDDM---ILSTKKFLLLLDDLWETI------------D----LSKIGVPLPS--QKIVSKVVFTTHSEEVC----  117 (483)
Q Consensus        63 ~~~~~~~~i---~l~~~~~LlvlDdv~~~~------------~----~~~l~~~~~~--~~~gs~ilvTtR~~~~~----  117 (483)
                      ........+   .....+.+|+|||++...            .    +..+...+..  ...+..||.||......    
T Consensus       208 ~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~al  287 (389)
T PRK03992        208 EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAI  287 (389)
T ss_pred             chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHH
Confidence            011112222   334567899999997531            0    1111111111  12345677777543222    


Q ss_pred             -----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 -----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 -----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                 +++.+.++-.++|..+.........    .....+++.+.|.-
T Consensus       288 lRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~----~~~~~la~~t~g~s  337 (389)
T PRK03992        288 LRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADD----VDLEELAELTEGAS  337 (389)
T ss_pred             cCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCc----CCHHHHHHHcCCCC
Confidence                       6678888888888877654331111    12456666666643

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.15  E-value=6.1e-06  Score=87.53  Aligned_cols=43  Identities=26%  Similarity=0.348  Sum_probs=39.5

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |||+++++++.+.|......-+.++|++|+|||++|+.++++.
T Consensus       185 igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       185 IGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             cCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999988766778899999999999999999876

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.13  E-value=5.5e-05  Score=67.12  Aligned_cols=81  Identities=23%  Similarity=0.254  Sum_probs=57.7

Q ss_pred             CCChhHHHHHHHHH----hcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC--CCcCccchhHHhhhc
Q 038724            1 IENPKQFYQVWRFL----VKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS--KELKLETSQDDMILS   74 (483)
Q Consensus         1 vgr~~~~~~l~~~l----~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~--~~~~~~~~~~~i~l~   74 (483)
                      +|-++..+.|.+-.    ......-|.++|..|.|||++++++.+.+ ..++    .--|.+.  +-.++.++...+...
T Consensus        30 ~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y-~~~G----LRlIev~k~~L~~l~~l~~~l~~~  104 (249)
T PF05673_consen   30 IGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY-ADQG----LRLIEVSKEDLGDLPELLDLLRDR  104 (249)
T ss_pred             cCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH-hhcC----ceEEEECHHHhccHHHHHHHHhcC
Confidence            35555555554433    23456689999999999999999999877 2222    2234444  345677888888888


Q ss_pred             CCcEEEEEcCCC
Q 038724           75 TKKFLLLLDDLW   86 (483)
Q Consensus        75 ~~~~LlvlDdv~   86 (483)
                      ..+++|++||+.
T Consensus       105 ~~kFIlf~DDLs  116 (249)
T PF05673_consen  105 PYKFILFCDDLS  116 (249)
T ss_pred             CCCEEEEecCCC
Confidence            899999999984

>TIGR00767 rho transcription termination factor Rho

Probab=98.09  E-value=8.6e-06  Score=77.69  Aligned_cols=67  Identities=21%  Similarity=0.268  Sum_probs=53.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC--cCccchhHHh--------------------------
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE--LKLETSQDDM--------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~--~~~~~~~~~i--------------------------   71 (483)
                      ..++|+|++|+|||||++.+++.. . .++|+..+|+.+.++  ..+.++++.+                          
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I-~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAI-T-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhh-c-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            468999999999999999999987 2 347999999988866  4555555555                          


Q ss_pred             ----hhcCCcEEEEEcCCCCc
Q 038724           72 ----ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ----~l~~~~~LlvlDdv~~~   88 (483)
                          ..+|++++|++|++..-
T Consensus       247 Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhHH
Confidence                45689999999998543

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

>PRK06620 hypothetical protein; Validated

Probab=98.09  E-value=2.6e-05  Score=69.47  Aligned_cols=124  Identities=9%  Similarity=-0.002  Sum_probs=67.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEcCCCCccccccccCCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLP   99 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDdv~~~~~~~~l~~~~~   99 (483)
                      +.+.|+|++|+|||+|++++++..   ..     .++.  ..+...    +. . ...-++++||++..++ ..+...+.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~---~~-----~~~~--~~~~~~----~~-~-~~~d~lliDdi~~~~~-~~lf~l~N  107 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS---NA-----YIIK--DIFFNE----EI-L-EKYNAFIIEDIENWQE-PALLHIFN  107 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc---CC-----EEcc--hhhhch----hH-H-hcCCEEEEeccccchH-HHHHHHHH
Confidence            679999999999999999988765   11     1222  111111    11 1 2234788999974321 11221111


Q ss_pred             C-CCCCCEEEEecCChhhh-----------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH
Q 038724          100 S-QKIVSKVVFTTHSEEVC-----------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       100 ~-~~~gs~ilvTtR~~~~~-----------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  161 (483)
                      . ..+|..+++|++.....                 ++++++++-.+++.+.+....   ..-.++..+-|++.+.|.-.
T Consensus       108 ~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~---l~l~~ev~~~L~~~~~~d~r  184 (214)
T PRK06620        108 IINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISS---VTISRQIIDFLLVNLPREYS  184 (214)
T ss_pred             HHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHccCCHH
Confidence            0 13467889888754332                 666666666666655543222   12224455666666655443


Q ss_pred             HH
Q 038724          162 AL  163 (483)
Q Consensus       162 al  163 (483)
                      .+
T Consensus       185 ~l  186 (214)
T PRK06620        185 KI  186 (214)
T ss_pred             HH
Confidence            33

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.08  E-value=1.1e-05  Score=86.57  Aligned_cols=43  Identities=30%  Similarity=0.400  Sum_probs=39.5

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |||+++++++.+.|......-+.++|++|+|||++|..++.+.
T Consensus       182 igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        182 IGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999988766678899999999999999999876

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

Probab=98.07  E-value=6.6e-06  Score=69.72  Aligned_cols=105  Identities=27%  Similarity=0.356  Sum_probs=77.9

Q ss_pred             ccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC--cccccCcCCCEEe
Q 038724          295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP--SGISKLVSLQHLD  372 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p--~~~~~l~~L~~L~  372 (483)
                      ..+...+++++|.+..+...+.++.|.+|.|++|.+..+.+..-..+++|..|.|.+|+ +..+-  ..+..++.|++|.
T Consensus        41 ~d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNs-i~~l~dl~pLa~~p~L~~Lt  119 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNS-IQELGDLDPLASCPKLEYLT  119 (233)
T ss_pred             ccccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcc-hhhhhhcchhccCCccceee
Confidence            34455678888888888777888888888888888888888766777888888888886 33332  2355667888888


Q ss_pred             ccCCCCCccCcc----ccCCcCCCEEecCCCC
Q 038724          373 ISFTSTLELPEE----LKALEKLKYLDMDDHQ  400 (483)
Q Consensus       373 l~~~~i~~lp~~----~~~l~~L~~L~l~~n~  400 (483)
                      +-+|++.+.+..    +..+++|+.||..+-.
T Consensus       120 ll~Npv~~k~~YR~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  120 LLGNPVEHKKNYRLYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             ecCCchhcccCceeEEEEecCcceEeehhhhh
Confidence            888887766554    6778888888877543

>CHL00181 cbbX CbbX; Provisional

Probab=98.06  E-value=2.2e-05  Score=73.23  Aligned_cols=114  Identities=14%  Similarity=0.184  Sum_probs=60.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc--------CccchhHHhhhcCCcEEEEEcCCCCc---
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL--------KLETSQDDMILSTKKFLLLLDDLWET---   88 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~--------~~~~~~~~i~l~~~~~LlvlDdv~~~---   88 (483)
                      ..+.++|++|+|||++|+.+++.. ...+.-...-|+.++...        ..... ..+.-+...-+|+||+++..   
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~-~~~g~~~~~~~~~v~~~~l~~~~~g~~~~~~-~~~l~~a~ggVLfIDE~~~l~~~  137 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADIL-YKLGYIKKGHLLTVTRDDLVGQYIGHTAPKT-KEVLKKAMGGVLFIDEAYYLYKP  137 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH-HHcCCCCCCceEEecHHHHHHHHhccchHHH-HHHHHHccCCEEEEEccchhccC
Confidence            358899999999999999998765 111111111133333110        00111 11211123358999999642   


Q ss_pred             --------cccccccCCCCCCCCCCEEEEecCChhhh------------------hccCChHHHHHHHHHHhc
Q 038724           89 --------IDLSKIGVPLPSQKIVSKVVFTTHSEEVC------------------VDCFTPQESWQVFQMKVG  135 (483)
Q Consensus        89 --------~~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------------l~~L~~~~a~~l~~~~~~  135 (483)
                              +....+...+.......+||+++......                  +++++.++..+++...+.
T Consensus       138 ~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~  210 (287)
T CHL00181        138 DNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLE  210 (287)
T ss_pred             CCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHH
Confidence                    11222333333333446676666533221                  566777777777766653

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=0.0001  Score=70.97  Aligned_cols=87  Identities=16%  Similarity=0.237  Sum_probs=63.0

Q ss_pred             CCChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-----
Q 038724            1 IENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-----   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-----   71 (483)
                      .+|+++++++...|..    ..+.-+.|+|.+|.|||+.++.++++........+ .++|.+-...+..++..++     
T Consensus        20 ~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~~~~   98 (366)
T COG1474          20 PHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILNKLG   98 (366)
T ss_pred             cccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHHHcC
Confidence            3799999999888764    33445999999999999999999998833322333 6777665555544444444     


Q ss_pred             --------------------hhcCCcEEEEEcCCCCc
Q 038724           72 --------------------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 --------------------~l~~~~~LlvlDdv~~~   88 (483)
                                          .-.++.+++|||+++..
T Consensus        99 ~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L  135 (366)
T COG1474          99 KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDAL  135 (366)
T ss_pred             CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhh
Confidence                                44678999999999754

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

Probab=98.05  E-value=4.4e-06  Score=70.75  Aligned_cols=126  Identities=24%  Similarity=0.273  Sum_probs=78.2

Q ss_pred             EEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          299 RRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      +.+++.+.++..+... ....+...+||++|.+..++.  |..++.|.+|.++.|++...-|.--.-+++|.+|.+.+|+
T Consensus        22 ~e~~LR~lkip~ienlg~~~d~~d~iDLtdNdl~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNs   99 (233)
T KOG1644|consen   22 RELDLRGLKIPVIENLGATLDQFDAIDLTDNDLRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNS   99 (233)
T ss_pred             cccccccccccchhhccccccccceecccccchhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcc
Confidence            3456666665544433 245567778888887777655  6777888888888887655555444445668888888887


Q ss_pred             CCccCc--cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeecc
Q 038724          378 TLELPE--ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSC  434 (483)
Q Consensus       378 i~~lp~--~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~  434 (483)
                      |.++..  .+..+++|++|.+-+|.....+.        -..--+..+++|+.|+.+..
T Consensus       100 i~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~--------YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  100 IQELGDLDPLASCPKLEYLTLLGNPVEHKKN--------YRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             hhhhhhcchhccCCccceeeecCCchhcccC--------ceeEEEEecCcceEeehhhh
Confidence            666543  25667778888777776432111        01112445666666666554

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.05  E-value=5.1e-05  Score=72.54  Aligned_cols=130  Identities=12%  Similarity=0.105  Sum_probs=82.1

Q ss_pred             ChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeCCCc
Q 038724            3 NPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVSKEL   62 (483)
Q Consensus         3 r~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~~~~   62 (483)
                      -+..++.+.+.+..++.+ .+.++|+.|+|||++|..+++..-...                   .|.|.......+...
T Consensus        11 q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~~~~~i   90 (329)
T PRK08058         11 QPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAPDGQSI   90 (329)
T ss_pred             HHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEeccccccC
Confidence            566788888888877654 568999999999999999987652111                   133332222222223


Q ss_pred             Cccch---hHHhh---hcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccCC
Q 038724           63 KLETS---QDDMI---LSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFT  122 (483)
Q Consensus        63 ~~~~~---~~~i~---l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~  122 (483)
                      ...++   .+.+.   ..+.+-++|+|+++....  ...+...+.+...++.+|++|.+..-.            +.+++
T Consensus        91 ~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~  170 (329)
T PRK08058         91 KKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLP  170 (329)
T ss_pred             CHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhceeeeCCCCC
Confidence            33333   22232   456777899999976533  445666665555567777776654322            78899


Q ss_pred             hHHHHHHHHH
Q 038724          123 PQESWQVFQM  132 (483)
Q Consensus       123 ~~~a~~l~~~  132 (483)
                      .++..+.+..
T Consensus       171 ~~~~~~~L~~  180 (329)
T PRK08058        171 PESLIQRLQE  180 (329)
T ss_pred             HHHHHHHHHH
Confidence            9988777764

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.05  E-value=6.2e-05  Score=71.51  Aligned_cols=140  Identities=14%  Similarity=0.117  Sum_probs=85.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeC---CCcCccc---hhHHh--
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVS---KELKLET---SQDDM--   71 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~---~~~~~~~---~~~~i--   71 (483)
                      ...+.++|+.|+|||++|..+++..--..                   .|-| ..|+...   +...+.+   +...+  
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~~~~~~~~i~id~iR~l~~~~~~  100 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPD-NFVLEPEEADKTIKVDQVRELVSFVVQ  100 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccCCCCCCCHHHHHHHHHHHhh
Confidence            34688999999999999999887762110                   1222 3444322   2233333   33333  


Q ss_pred             -hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcC
Q 038724           72 -ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGN  136 (483)
Q Consensus        72 -~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~  136 (483)
                       ...+++-++|||+++...  ....+...+.+...++.+|++|.+....            +.+++.+++.+.+......
T Consensus       101 ~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~  180 (328)
T PRK05707        101 TAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE  180 (328)
T ss_pred             ccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc
Confidence             233555566789998653  3455555554444456677776665433            8889999998888765311


Q ss_pred             CcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          137 ETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       137 ~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                             ...+.+..++..++|.|.....+
T Consensus       181 -------~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 -------SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             -------CChHHHHHHHHHcCCCHHHHHHH
Confidence                   12344667888999999755433

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.03  E-value=2.3e-05  Score=73.15  Aligned_cols=114  Identities=11%  Similarity=0.128  Sum_probs=60.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc--------CccchhHHhhhcCCcEEEEEcCCCCc----
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL--------KLETSQDDMILSTKKFLLLLDDLWET----   88 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~--------~~~~~~~~i~l~~~~~LlvlDdv~~~----   88 (483)
                      .+.++|++|+|||++|+.+++.. ...+.....-++.++...        ....+ .++.-+-..-+|+||+++..    
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l-~~~g~~~~~~~v~v~~~~l~~~~~g~~~~~~-~~~~~~a~~gvL~iDEi~~L~~~~  137 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQIL-HRLGYVRKGHLVSVTRDDLVGQYIGHTAPKT-KEILKRAMGGVLFIDEAYYLYRPD  137 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH-HHcCCcccceEEEecHHHHhHhhcccchHHH-HHHHHHccCcEEEEechhhhccCC
Confidence            68899999999999998887765 111211111233322110        00111 11111223468899999632    


Q ss_pred             -------cccccccCCCCCCCCCCEEEEecCChhh------------------hhccCChHHHHHHHHHHhcC
Q 038724           89 -------IDLSKIGVPLPSQKIVSKVVFTTHSEEV------------------CVDCFTPQESWQVFQMKVGN  136 (483)
Q Consensus        89 -------~~~~~l~~~~~~~~~gs~ilvTtR~~~~------------------~l~~L~~~~a~~l~~~~~~~  136 (483)
                             +....+...+.....+.+||+++.....                  .+++++.+|..+++...+..
T Consensus       138 ~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~  210 (284)
T TIGR02880       138 NERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKE  210 (284)
T ss_pred             CccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHH
Confidence                   1122333333333345566666543211                  07778888888887776643

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.01  E-value=0.00013  Score=72.12  Aligned_cols=139  Identities=18%  Similarity=0.159  Sum_probs=80.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh----------hhcCCcEEEEEcCCCCcc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM----------ILSTKKFLLLLDDLWETI   89 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i----------~l~~~~~LlvlDdv~~~~   89 (483)
                      ..+.|+|++|+|||.|++++++... ....-..++|++..+-.  .++...+          .++ ..-+|||||++...
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~-~~~~~~~v~yi~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~dlLiiDDi~~l~  212 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEIL-ENNPNAKVVYVSSEKFT--NDFVNALRNNKMEEFKEKYR-SVDLLLIDDIQFLA  212 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHH-HhCCCCcEEEEEHHHHH--HHHHHHHHcCCHHHHHHHHH-hCCEEEEehhhhhc
Confidence            4689999999999999999999872 22112345677643211  1111111          122 23488899997532


Q ss_pred             cc----ccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCCc
Q 038724           90 DL----SKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPAI  145 (483)
Q Consensus        90 ~~----~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~  145 (483)
                      ..    +.+...+.. ..++..+++|+....-.                   +++.+.++-.+++...+....   ..-.
T Consensus       213 ~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~---~~l~  289 (405)
T TIGR00362       213 GKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEEG---LELP  289 (405)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHcC---CCCC
Confidence            11    112111111 12345677777542211                   567788888888887775433   1223


Q ss_pred             hhHHHHHHhHcCCchHHHHH
Q 038724          146 HKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       146 ~~~~~~i~~~c~g~Plal~~  165 (483)
                      ++..+.|++.+.|....+.-
T Consensus       290 ~e~l~~ia~~~~~~~r~l~~  309 (405)
T TIGR00362       290 DEVLEFIAKNIRSNVRELEG  309 (405)
T ss_pred             HHHHHHHHHhcCCCHHHHHH
Confidence            56678888888887765543

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>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=98.01  E-value=5.7e-06  Score=52.85  Aligned_cols=39  Identities=33%  Similarity=0.525  Sum_probs=19.7

Q ss_pred             CccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccC
Q 038724          343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELP  382 (483)
Q Consensus       343 ~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp  382 (483)
                      +|++|++++|+ +..+|..+++|++|++|++++|++.++|
T Consensus         2 ~L~~L~l~~N~-i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQ-ITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS--SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCCC-CcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            45555555554 3344444555555555555555555443

...

>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=98.00  E-value=1.2e-05  Score=71.93  Aligned_cols=141  Identities=16%  Similarity=0.191  Sum_probs=76.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc----------CccchhHHhhhcCCcEEEEEcCCCCc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL----------KLETSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~----------~~~~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      ...+.|+|+.|+|||.|.+++++...+... -..++|++..+=.          ...++..  .++ .-=+++|||++..
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~-~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~--~~~-~~DlL~iDDi~~l  109 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHP-GKRVVYLSAEEFIREFADALRDGEIEEFKD--RLR-SADLLIIDDIQFL  109 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCT-TS-EEEEEHHHHHHHHHHHHHTTSHHHHHH--HHC-TSSEEEEETGGGG
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccc-cccceeecHHHHHHHHHHHHHcccchhhhh--hhh-cCCEEEEecchhh
Confidence            346899999999999999999998722112 2236677543210          1111111  233 3447789999754


Q ss_pred             cc---cc-cccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCC
Q 038724           89 ID---LS-KIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPA  144 (483)
Q Consensus        89 ~~---~~-~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~  144 (483)
                      ..   |. .+...+.. ...|.++|+|++.....                   ++++++++-.+++.+.+.....   .-
T Consensus       110 ~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~---~l  186 (219)
T PF00308_consen  110 AGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGI---EL  186 (219)
T ss_dssp             TTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT-----S
T ss_pred             cCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCC---CC
Confidence            22   11 11111111 12467899998655333                   7778888888888777654431   23


Q ss_pred             chhHHHHHHhHcCCchHHHHHH
Q 038724          145 IHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       145 ~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      .+++++-|++.+.+..-.+..+
T Consensus       187 ~~~v~~~l~~~~~~~~r~L~~~  208 (219)
T PF00308_consen  187 PEEVIEYLARRFRRDVRELEGA  208 (219)
T ss_dssp             -HHHHHHHHHHTTSSHHHHHHH
T ss_pred             cHHHHHHHHHhhcCCHHHHHHH
Confidence            3456667777766655555433

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.

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

Probab=97.99  E-value=5.4e-06  Score=72.47  Aligned_cols=43  Identities=21%  Similarity=0.360  Sum_probs=32.4

Q ss_pred             CCChhHHHHHHHHHh---cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLV---KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~---~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |||+++++++...+.   ....+.+.|+|++|+|||+|.++++.+.
T Consensus         3 vgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    3 VGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            799999999999993   3456899999999999999999999888

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.98  E-value=0.00017  Score=68.21  Aligned_cols=158  Identities=13%  Similarity=0.121  Sum_probs=98.4

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccC-------------CCCCCEEEEEEeC-----CC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSE-------------RPGFDVVIWVVVS-----KE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~-------------~~~f~~~~~v~~~-----~~   61 (483)
                      ||-++..+.+.+.+..++. +...++|+.|+||+++|.++++..-..             ..|-| ..|+.-.     +.
T Consensus         7 iGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPD-l~~i~p~~~~~g~~   85 (314)
T PRK07399          7 IGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPD-LLWVEPTYQHQGKL   85 (314)
T ss_pred             CCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCC-EEEEeccccccccc
Confidence            6888999999999998864 689999999999999999988765211             11222 3444321     10


Q ss_pred             ------------------c---CccchhHHh---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChh
Q 038724           62 ------------------L---KLETSQDDM---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEE  115 (483)
Q Consensus        62 ------------------~---~~~~~~~~i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~  115 (483)
                                        .   .++++.+.+   ...+.+-++|+|+++....  ...+...+-+..+..-|++|+....
T Consensus        86 ~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~  165 (314)
T PRK07399         86 ITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSPES  165 (314)
T ss_pred             cchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECChHh
Confidence                              0   111222222   3557788999999976633  4445445533333334444443332


Q ss_pred             hh-----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          116 VC-----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       116 ~~-----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      +.           +.++++++..+.+......+.      .......++..++|.|.....
T Consensus       166 Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~------~~~~~~~l~~~a~Gs~~~al~  220 (314)
T PRK07399        166 LLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI------LNINFPELLALAQGSPGAAIA  220 (314)
T ss_pred             CcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc------chhHHHHHHHHcCCCHHHHHH
Confidence            22           889999999999887643211      111246788999999976543

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.98  E-value=5.8e-05  Score=75.10  Aligned_cols=147  Identities=10%  Similarity=0.091  Sum_probs=88.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchh----------HHh-hhcCCcEEEEEcCCCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ----------DDM-ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~----------~~i-~l~~~~~LlvlDdv~~~   88 (483)
                      ..+.|+|..|+|||.|+.++++.... ...-..++|++..+-  ...+.          .++ ..-...-+|||||+...
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~-~~~~~~v~yv~~~~f--~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l  218 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIES-NFSDLKVSYMSGDEF--ARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFL  218 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEEHHHH--HHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccc
Confidence            46899999999999999999986521 122233566654321  11111          111 11123448889999644


Q ss_pred             cc----cccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCC
Q 038724           89 ID----LSKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPA  144 (483)
Q Consensus        89 ~~----~~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~  144 (483)
                      ..    .+.+...+.. ...|..||+|+......                   +++++.++-.+++.+.+..... ...-
T Consensus       219 ~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl-~~~l  297 (450)
T PRK14087        219 SYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNI-KQEV  297 (450)
T ss_pred             cCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCC-CCCC
Confidence            21    1222222221 12345688886543221                   7899999999999988754331 1133


Q ss_pred             chhHHHHHHhHcCCchHHHHHHHHHh
Q 038724          145 IHKPAKMVAKDCGGLPLALTIVGRAM  170 (483)
Q Consensus       145 ~~~~~~~i~~~c~g~Plal~~~~~~l  170 (483)
                      .++..+.|++.++|.|..+..+...+
T Consensus       298 ~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        298 TEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             CHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            46778899999999998887665443

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.97  E-value=2.8e-05  Score=76.36  Aligned_cols=149  Identities=16%  Similarity=0.133  Sum_probs=84.4

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-----C
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-----K   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-----~   63 (483)
                      |.++.++++.+++.-             ...+-|.++|++|+|||++|+++++..   ...|-   .+..+.-.     .
T Consensus       187 Gl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el---~~~fi---~V~~seL~~k~~Ge  260 (438)
T PTZ00361        187 GLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET---SATFL---RVVGSELIQKYLGD  260 (438)
T ss_pred             CHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh---CCCEE---EEecchhhhhhcch
Confidence            667778888777741             134568899999999999999999976   33331   12111100     0


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc----------------cccccCCCCC--CCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID----------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~-----  117 (483)
                      .......+   +..+.+++|+||+++....                +..+...+..  ...+.+||+||......     
T Consensus       261 ~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLl  340 (438)
T PTZ00361        261 GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALI  340 (438)
T ss_pred             HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhc
Confidence            11112222   4456789999999853210                0111111111  12346777777654333     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                +...+.++..++|..+..........    ....++..+.|+-
T Consensus       341 RpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dv----dl~~la~~t~g~s  389 (438)
T PTZ00361        341 RPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDV----DLEEFIMAKDELS  389 (438)
T ss_pred             cCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCc----CHHHHHHhcCCCC
Confidence                      66777888888888776544321111    2455565655543

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.97  E-value=3.7e-05  Score=76.65  Aligned_cols=86  Identities=16%  Similarity=0.166  Sum_probs=52.7

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCC--CCCCEEEEEEeCCCc----
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSER--PGFDVVIWVVVSKEL----   62 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~f~~~~~v~~~~~~----   62 (483)
                      |.++.++++.+.+.-             ...+-+.++|++|+|||++|+++++......  ..+....|+.+....    
T Consensus       186 Gl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~eLl~k  265 (512)
T TIGR03689       186 GLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPELLNK  265 (512)
T ss_pred             ChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchhhccc
Confidence            577888888777642             1345689999999999999999999872110  011223344433211    


Q ss_pred             -------CccchhHHh---hhcCCcEEEEEcCCCC
Q 038724           63 -------KLETSQDDM---ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        63 -------~~~~~~~~i---~l~~~~~LlvlDdv~~   87 (483)
                             .++.+....   ...+++++|+||+++.
T Consensus       266 yvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~  300 (512)
T TIGR03689       266 YVGETERQIRLIFQRAREKASDGRPVIVFFDEMDS  300 (512)
T ss_pred             ccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhh
Confidence                   111121111   2346899999999974

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.96  E-value=5.9e-05  Score=73.83  Aligned_cols=116  Identities=20%  Similarity=0.184  Sum_probs=78.0

Q ss_pred             hHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC----ccchhHHh---hhcCCc
Q 038724            5 KQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK----LETSQDDM---ILSTKK   77 (483)
Q Consensus         5 ~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~----~~~~~~~i---~l~~~~   77 (483)
                      .-+.++.+.+..... ++.|.|+-++||||+++.+....   .+.   .+++...+...    +.+.....   ... ++
T Consensus        24 ~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~~l~d~~~~~~~~~~~-~~   95 (398)
T COG1373          24 KLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRIELLDLLRAYIELKER-EK   95 (398)
T ss_pred             hhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchhhHHHHHHHHHHhhcc-CC
Confidence            344555555555544 99999999999999997777655   222   55554433222    22222222   222 77


Q ss_pred             EEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh----------------hccCChHHHHHH
Q 038724           78 FLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----------------VDCFTPQESWQV  129 (483)
Q Consensus        78 ~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~----------------l~~L~~~~a~~l  129 (483)
                      ..++||.|.....|......+.+.++. ++++|+.+....                +-||+-.|-..+
T Consensus        96 ~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~  162 (398)
T COG1373          96 SYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL  162 (398)
T ss_pred             ceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence            899999999999999887777766655 888888776654                778887776544

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

Probab=97.95  E-value=4.5e-06  Score=68.42  Aligned_cols=93  Identities=23%  Similarity=0.267  Sum_probs=55.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCC--CCCCEEEEEEeCCCcCccchhHHh-----------------------hh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSER--PGFDVVIWVVVSKELKLETSQDDM-----------------------IL   73 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~f~~~~~v~~~~~~~~~~~~~~i-----------------------~l   73 (483)
                      .+.+.|+|++|+|||+++++++++.....  ..-..++|+.+....+...+...+                       .+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            46899999999999999999998762100  003446788877666655555555                       22


Q ss_pred             c-CCcEEEEEcCCCCc-c--ccccccCCCCCCCCCCEEEEecCC
Q 038724           74 S-TKKFLLLLDDLWET-I--DLSKIGVPLPSQKIVSKVVFTTHS  113 (483)
Q Consensus        74 ~-~~~~LlvlDdv~~~-~--~~~~l~~~~~~~~~gs~ilvTtR~  113 (483)
                      . .+..+||+|+++.. .  .++.+.....  ..+.++++..+.
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            2 33469999999654 2  2333322222  445666665544

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.95  E-value=5.4e-05  Score=71.27  Aligned_cols=151  Identities=11%  Similarity=0.054  Sum_probs=91.3

Q ss_pred             hHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccC----------------CCCCCEEEEEEeCCC------
Q 038724            5 KQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSE----------------RPGFDVVIWVVVSKE------   61 (483)
Q Consensus         5 ~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~----------------~~~f~~~~~v~~~~~------   61 (483)
                      ...+.+.+.+..++.+ .+.++|+.|+||+++|.++++..--.                ..|-| ..|+....+      
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD-~~~i~~~p~~~~~k~   89 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPD-LQLVSFIPNRTGDKL   89 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCC-EEEEecCCCcccccc
Confidence            3456777777777654 58899999999999999988655211                11222 334421110      


Q ss_pred             ---cCcc---chhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------h
Q 038724           62 ---LKLE---TSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------V  118 (483)
Q Consensus        62 ---~~~~---~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l  118 (483)
                         ..++   ++.+.+   ...+++-++|||+++...  ....+...+-+...++.+|++|.+....            +
T Consensus        90 ~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~  169 (319)
T PRK08769         90 RTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEF  169 (319)
T ss_pred             cccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeC
Confidence               1111   122222   344677899999998663  3444555554444567666666554333            7


Q ss_pred             ccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          119 DCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      .+++.+++.+.+....         .....++.++..++|.|+....
T Consensus       170 ~~~~~~~~~~~L~~~~---------~~~~~a~~~~~l~~G~p~~A~~  207 (319)
T PRK08769        170 KLPPAHEALAWLLAQG---------VSERAAQEALDAARGHPGLAAQ  207 (319)
T ss_pred             CCcCHHHHHHHHHHcC---------CChHHHHHHHHHcCCCHHHHHH
Confidence            7888888887776431         1123366789999999986543

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

Probab=97.95  E-value=6.8e-05  Score=69.36  Aligned_cols=158  Identities=13%  Similarity=0.160  Sum_probs=92.7

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC--------
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK--------   60 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~--------   60 (483)
                      |-++.+++|++..+-             +.++=|.+||++|.|||-||++|+++.   ...     |+.+..        
T Consensus       155 GL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T---~At-----FIrvvgSElVqKYi  226 (406)
T COG1222         155 GLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT---DAT-----FIRVVGSELVQKYI  226 (406)
T ss_pred             CHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc---Cce-----EEEeccHHHHHHHh
Confidence            567888888888753             245678999999999999999999977   333     333322        


Q ss_pred             --CcCccchhHHhhhcCCcEEEEEcCCCCccc----------------cccccCCCCCC--CCCCEEEEecCChhhh---
Q 038724           61 --ELKLETSQDDMILSTKKFLLLLDDLWETID----------------LSKIGVPLPSQ--KIVSKVVFTTHSEEVC---  117 (483)
Q Consensus        61 --~~~~~~~~~~i~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~~~--~~gs~ilvTtR~~~~~---  117 (483)
                        ...+.+-+-.++-...++.|++|.++....                .-++...+..+  ...-|||..|-.....   
T Consensus       227 GEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPA  306 (406)
T COG1222         227 GEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPA  306 (406)
T ss_pred             ccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChh
Confidence              222222222337778999999999964311                11122222222  2235777665544443   


Q ss_pred             ------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH----HHHHHHHHhc
Q 038724          118 ------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL----ALTIVGRAMA  171 (483)
Q Consensus       118 ------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl----al~~~~~~l~  171 (483)
                                  +..-+.+.-.++|.-+.........-+    .+.+++.|.|.--    |+..-|++++
T Consensus       307 LLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd----~e~la~~~~g~sGAdlkaictEAGm~A  372 (406)
T COG1222         307 LLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVD----LELLARLTEGFSGADLKAICTEAGMFA  372 (406)
T ss_pred             hcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcC----HHHHHHhcCCCchHHHHHHHHHHhHHH
Confidence                        333445555667777776555333233    4667777776653    3444455443

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

Probab=97.93  E-value=0.00021  Score=64.07  Aligned_cols=161  Identities=19%  Similarity=0.187  Sum_probs=89.3

Q ss_pred             CCChhHHHHHHHHHh-----cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            1 IENPKQFYQVWRFLV-----KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         1 vgr~~~~~~l~~~l~-----~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      ||-++..+.+.-.+.     ++..-.|.++|++|.||||||.-+++..   ...+....==.+.+..++..++..  ++.
T Consensus        29 iGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em---gvn~k~tsGp~leK~gDlaaiLt~--Le~  103 (332)
T COG2255          29 IGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL---GVNLKITSGPALEKPGDLAAILTN--LEE  103 (332)
T ss_pred             cChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh---cCCeEecccccccChhhHHHHHhc--CCc
Confidence            344555554444443     2345689999999999999999999988   222211000011122233333222  333


Q ss_pred             CcEEEEEcCCCCccc--------------cccccCCCCC-------CCCCCEEEEecCChhhh------------hccCC
Q 038724           76 KKFLLLLDDLWETID--------------LSKIGVPLPS-------QKIVSKVVFTTHSEEVC------------VDCFT  122 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~--------------~~~l~~~~~~-------~~~gs~ilvTtR~~~~~------------l~~L~  122 (483)
                      .. .+++|.++....              ++-+...-|.       -.+-.-|=.|||.=.+.            ++--+
T Consensus       104 ~D-VLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~  182 (332)
T COG2255         104 GD-VLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYT  182 (332)
T ss_pred             CC-eEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCeeeeecCC
Confidence            33 455788753311              1111111000       01124455688865444            77788


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHh
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAM  170 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l  170 (483)
                      .+|-.++..+.+..-.   ..-.++.+.+|+++..|-|.-..-+-+.+
T Consensus       183 ~~eL~~Iv~r~a~~l~---i~i~~~~a~eIA~rSRGTPRIAnRLLrRV  227 (332)
T COG2255         183 VEELEEIVKRSAKILG---IEIDEEAALEIARRSRGTPRIANRLLRRV  227 (332)
T ss_pred             HHHHHHHHHHHHHHhC---CCCChHHHHHHHHhccCCcHHHHHHHHHH
Confidence            8898888887774333   23345678899999999996554443333

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.92  E-value=4.9e-05  Score=79.93  Aligned_cols=132  Identities=18%  Similarity=0.226  Sum_probs=77.4

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCC---CCEEEEEE-eCC----Cc---C----cc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPG---FDVVIWVV-VSK----EL---K----LE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~---f~~~~~v~-~~~----~~---~----~~   65 (483)
                      |||++++.++.+.|......-+.++|++|+|||++|+.+++........   .++.+|.. .+.    ..   .    +.
T Consensus       189 iGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~Ge~e~rl~  268 (758)
T PRK11034        189 IGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFK  268 (758)
T ss_pred             cCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchhhhHHHHHH
Confidence            7999999999999988655667899999999999999999865211111   13344431 111    00   1    11


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCc--------cc--cccccCCCCCCCCCCEEEEecCChhhh-----------------h
Q 038724           66 TSQDDMILSTKKFLLLLDDLWET--------ID--LSKIGVPLPSQKIVSKVVFTTHSEEVC-----------------V  118 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~--------~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~-----------------l  118 (483)
                      .+...+. +..+.+|+||+++..        .+  ...+..++...+ .-++|.+|....+.                 +
T Consensus       269 ~l~~~l~-~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g-~i~vIgATt~~E~~~~~~~D~AL~rRFq~I~v  346 (758)
T PRK11034        269 ALLKQLE-QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTYQEFSNIFEKDRALARRFQKIDI  346 (758)
T ss_pred             HHHHHHH-hcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCC-CeEEEecCChHHHHHHhhccHHHHhhCcEEEe
Confidence            2222222 345779999999632        11  111122222222 23444444333321                 7


Q ss_pred             ccCChHHHHHHHHHHh
Q 038724          119 DCFTPQESWQVFQMKV  134 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~  134 (483)
                      ++++.++..+++....
T Consensus       347 ~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        347 TEPSIEETVQIINGLK  362 (758)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            8888899888887654

>CHL00176 ftsH cell division protein; Validated

Probab=97.91  E-value=6.8e-05  Score=77.39  Aligned_cols=130  Identities=15%  Similarity=0.175  Sum_probs=72.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC------CcCccchhHHh--hhcCCcEEEEEcCCCCcc-
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK------ELKLETSQDDM--ILSTKKFLLLLDDLWETI-   89 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~------~~~~~~~~~~i--~l~~~~~LlvlDdv~~~~-   89 (483)
                      .+-|.++|++|+|||++|++++...   ...|   +.++.++      ......+..-+  .....+++|+|||++... 
T Consensus       216 p~gVLL~GPpGTGKT~LAralA~e~---~~p~---i~is~s~f~~~~~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~  289 (638)
T CHL00176        216 PKGVLLVGPPGTGKTLLAKAIAGEA---EVPF---FSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGR  289 (638)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh---CCCe---eeccHHHHHHHhhhhhHHHHHHHHHHHhcCCCcEEEEecchhhhh
Confidence            3468999999999999999999876   2222   1121111      00111111111  456788999999996431 


Q ss_pred             ---------------ccccccCCCCC--CCCCCEEEEecCChhhh---------------hccCChHHHHHHHHHHhcCC
Q 038724           90 ---------------DLSKIGVPLPS--QKIVSKVVFTTHSEEVC---------------VDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        90 ---------------~~~~l~~~~~~--~~~gs~ilvTtR~~~~~---------------l~~L~~~~a~~l~~~~~~~~  137 (483)
                                     .+..+...+..  ...+..+|.||......               ++..+.++-.+++..+....
T Consensus       290 ~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~  369 (638)
T CHL00176        290 QRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNK  369 (638)
T ss_pred             cccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhc
Confidence                           01222222211  22345566666554322               55677778888887776543


Q ss_pred             cccCCCCchhHHHHHHhHcCC
Q 038724          138 TLVSHPAIHKPAKMVAKDCGG  158 (483)
Q Consensus       138 ~~~~~~~~~~~~~~i~~~c~g  158 (483)
                      .    .........+++.+.|
T Consensus       370 ~----~~~d~~l~~lA~~t~G  386 (638)
T CHL00176        370 K----LSPDVSLELIARRTPG  386 (638)
T ss_pred             c----cchhHHHHHHHhcCCC
Confidence            2    1112345677777776

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.86  E-value=3.6e-05  Score=73.96  Aligned_cols=80  Identities=16%  Similarity=0.209  Sum_probs=55.6

Q ss_pred             ccceEEEEccccccccccCCCCCCcccEEEecCC-ccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n-~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      +.+++.|++++|.++.+|..  ..+|++|.++++ .++.+|.. +  .++|+.|++++|..+..+|..      |++|++
T Consensus        51 ~~~l~~L~Is~c~L~sLP~L--P~sLtsL~Lsnc~nLtsLP~~-L--P~nLe~L~Ls~Cs~L~sLP~s------Le~L~L  119 (426)
T PRK15386         51 ARASGRLYIKDCDIESLPVL--PNELTEITIENCNNLTTLPGS-I--PEGLEKLTVCHCPEISGLPES------VRSLEI  119 (426)
T ss_pred             hcCCCEEEeCCCCCcccCCC--CCCCcEEEccCCCCcccCCch-h--hhhhhheEccCcccccccccc------cceEEe
Confidence            46678899999988888732  347999999874 45555433 3  357999999998656677754      566666


Q ss_pred             cCCC---CCccCccc
Q 038724          374 SFTS---TLELPEEL  385 (483)
Q Consensus       374 ~~~~---i~~lp~~~  385 (483)
                      .++.   +..+|.++
T Consensus       120 ~~n~~~~L~~LPssL  134 (426)
T PRK15386        120 KGSATDSIKNVPNGL  134 (426)
T ss_pred             CCCCCcccccCcchH
Confidence            6654   56677654

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

Probab=97.86  E-value=5.4e-07  Score=89.78  Aligned_cols=121  Identities=26%  Similarity=0.352  Sum_probs=83.3

Q ss_pred             CcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEec
Q 038724          318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDM  396 (483)
Q Consensus       318 ~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l  396 (483)
                      ..|.+.+.++|.+.....+ +.-++.|+.|+|++|++...  +.+..++.|.+|||+.|.+..+|.- ...+ +|+.|.+
T Consensus       164 n~L~~a~fsyN~L~~mD~S-Lqll~ale~LnLshNk~~~v--~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~~L~l  239 (1096)
T KOG1859|consen  164 NKLATASFSYNRLVLMDES-LQLLPALESLNLSHNKFTKV--DNLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQLLNL  239 (1096)
T ss_pred             hhHhhhhcchhhHHhHHHH-HHHHHHhhhhccchhhhhhh--HHHHhcccccccccccchhccccccchhhh-hheeeee
Confidence            4456666677776665554 67778888888888875443  2677888888888888888888763 3333 4888888


Q ss_pred             CCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCCC------CCcccccceeeee
Q 038724          397 DDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGL------PTVQCLTSRRLNL  455 (483)
Q Consensus       397 ~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~l------~~l~~l~l~~~~~  455 (483)
                      ++|.+.             ....+.+|.+|+.|+++.|-+...+.|      ..|+.|.+..|-+
T Consensus       240 rnN~l~-------------tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  240 RNNALT-------------TLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             cccHHH-------------hhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            888743             445677888999999999876544443      3444554444433

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.84  E-value=0.00019  Score=71.93  Aligned_cols=140  Identities=16%  Similarity=0.155  Sum_probs=82.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh----------hhcCCcEEEEEcCCCCcc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM----------ILSTKKFLLLLDDLWETI   89 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i----------~l~~~~~LlvlDdv~~~~   89 (483)
                      ..+.|+|++|+|||.|++++++... ....-..+.|++...-  ..++...+          .++ +.-+|||||++...
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~v~yi~~~~~--~~~~~~~~~~~~~~~~~~~~~-~~dlLiiDDi~~l~  224 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYIL-EKNPNAKVVYVTSEKF--TNDFVNALRNNTMEEFKEKYR-SVDVLLIDDIQFLA  224 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEEEHHHH--HHHHHHHHHcCcHHHHHHHHh-cCCEEEEehhhhhc
Confidence            5689999999999999999999872 2111233566654321  11111111          122 34488999996432


Q ss_pred             c----cccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCCc
Q 038724           90 D----LSKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPAI  145 (483)
Q Consensus        90 ~----~~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~  145 (483)
                      .    .+.+...+.. ..+|..+++|+....-.                   +++.+.++-.+++...+....   ..-.
T Consensus       225 ~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~---~~l~  301 (450)
T PRK00149        225 GKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEEG---IDLP  301 (450)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHcC---CCCC
Confidence            1    1122211111 12345577777543211                   678888999899888775432   2234


Q ss_pred             hhHHHHHHhHcCCchHHHHHH
Q 038724          146 HKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       146 ~~~~~~i~~~c~g~Plal~~~  166 (483)
                      ++..+.|++.+.|....+.-+
T Consensus       302 ~e~l~~ia~~~~~~~R~l~~~  322 (450)
T PRK00149        302 DEVLEFIAKNITSNVRELEGA  322 (450)
T ss_pred             HHHHHHHHcCcCCCHHHHHHH
Confidence            567888999988887755433

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.83  E-value=6.6e-05  Score=73.22  Aligned_cols=149  Identities=15%  Similarity=0.117  Sum_probs=82.1

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC----c-C
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE----L-K   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~----~-~   63 (483)
                      |.+...++|.+.+.-             ...+-|.++|++|+|||++|+++++..   ...|-   .+..+.-    . .
T Consensus       149 Gl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l---~~~fi---~i~~s~l~~k~~ge  222 (398)
T PTZ00454        149 GLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT---TATFI---RVVGSEFVQKYLGE  222 (398)
T ss_pred             CHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCEE---EEehHHHHHHhcch
Confidence            566667777766531             135679999999999999999999976   33331   1111100    0 0


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc----------------cccccCCCCC--CCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID----------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~-----  117 (483)
                      ......++   .....+.+|++|+++....                +..+...+..  ...+..+|+||......     
T Consensus       223 ~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAll  302 (398)
T PTZ00454        223 GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALL  302 (398)
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHc
Confidence            01111222   4557889999999864210                1111111211  12345677777644332     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++..++|..+.........    .....+++.+.|.-
T Consensus       303 R~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~d----vd~~~la~~t~g~s  351 (398)
T PTZ00454        303 RPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEE----VDLEDFVSRPEKIS  351 (398)
T ss_pred             CCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcc----cCHHHHHHHcCCCC
Confidence                      5566777777788766644332111    12456666665543

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.82  E-value=8.1e-05  Score=75.57  Aligned_cols=132  Identities=18%  Similarity=0.197  Sum_probs=70.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC------CcCccchhHHh--hhcCCcEEEEEcCCCCccc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK------ELKLETSQDDM--ILSTKKFLLLLDDLWETID   90 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~------~~~~~~~~~~i--~l~~~~~LlvlDdv~~~~~   90 (483)
                      .+-+.++|++|+|||++|+++++..   ...|   +.++.+.      ......+..-+  .....+++|+|||++....
T Consensus        88 ~~giLL~GppGtGKT~la~alA~~~---~~~~---~~i~~~~~~~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~  161 (495)
T TIGR01241        88 PKGVLLVGPPGTGKTLLAKAVAGEA---GVPF---FSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGR  161 (495)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHc---CCCe---eeccHHHHHHHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhh
Confidence            3458999999999999999999876   2222   1111111      00111111111  3456778999999964311


Q ss_pred             ----------------cccccCCCCC--CCCCCEEEEecCChhhh---------------hccCChHHHHHHHHHHhcCC
Q 038724           91 ----------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC---------------VDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        91 ----------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~---------------l~~L~~~~a~~l~~~~~~~~  137 (483)
                                      +..+...+..  ...+..||.||......               ++..+.++-.+++..+....
T Consensus       162 ~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~  241 (495)
T TIGR01241       162 QRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNK  241 (495)
T ss_pred             ccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcC
Confidence                            1111111111  12234555566544321               55667777788887776443


Q ss_pred             cccCCCCchhHHHHHHhHcCCch
Q 038724          138 TLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       138 ~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      ...    .......+++.+.|.-
T Consensus       242 ~~~----~~~~l~~la~~t~G~s  260 (495)
T TIGR01241       242 KLA----PDVDLKAVARRTPGFS  260 (495)
T ss_pred             CCC----cchhHHHHHHhCCCCC
Confidence            211    1223557777777643

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

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

Probab=97.81  E-value=8e-06  Score=84.93  Aligned_cols=135  Identities=20%  Similarity=0.290  Sum_probs=94.2

Q ss_pred             ccceEEEEcccccccc-ccC---CCCCCcccEEEecCCccccc-cchhhhcCCCccEEEccCCccCccCCcccccCcCCC
Q 038724          295 WLGLRRMSLMNNQIKT-LLN---TPSCPHLLTLFLNDNYLQDI-KNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQ  369 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~-~~~---~~~~~~L~~L~l~~n~~~~~-~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~  369 (483)
                      ..+|+.|++++...-. -++   ...+|+|++|.+++-.+... ....+.++|+|+.||+|+++ +..+ .+++.|+||+
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~Tn-I~nl-~GIS~LknLq  198 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTN-ISNL-SGISRLKNLQ  198 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCC-ccCc-HHHhccccHH
Confidence            4568888888753221 111   14689999999998766433 23446789999999999996 4444 6899999999


Q ss_pred             EEeccCCCCCccCc--cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc
Q 038724          370 HLDISFTSTLELPE--ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       370 ~L~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                      .|.+.+-.+..-+.  .+.+|++|++||+|.......+.+     ..--.+--..||+|+.|+.|+..+
T Consensus       199 ~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~i-----i~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  199 VLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKI-----IEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             HHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHH-----HHHHHHhcccCccccEEecCCcch
Confidence            99998777665432  478999999999998765433210     111122234588999999998875

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

Probab=97.79  E-value=1e-05  Score=74.29  Aligned_cols=132  Identities=20%  Similarity=0.264  Sum_probs=69.6

Q ss_pred             CcccEEEecCCcccccc----chhhhcCCCccEEEccCCccCc----cCCcccccCcCCCEEeccCCCCCc-----cCcc
Q 038724          318 PHLLTLFLNDNYLQDIK----NGFFQFMPCLKVLNLSYNRFLT----KLPSGISKLVSLQHLDISFTSTLE-----LPEE  384 (483)
Q Consensus       318 ~~L~~L~l~~n~~~~~~----~~~~~~l~~L~~L~l~~n~~~~----~~p~~~~~l~~L~~L~l~~~~i~~-----lp~~  384 (483)
                      +.|++++.++|.+..-+    ...|+..+.|+.+.+..|.+..    .+...+..+++|+.||+++|-++.     +...
T Consensus       157 ~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~Laka  236 (382)
T KOG1909|consen  157 PKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKA  236 (382)
T ss_pred             cceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHH
Confidence            44555555555444322    1223444555555555553211    112234556666666666665332     2223


Q ss_pred             ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhc-cccccccceeeccCc---------cccCCCCCcccccceeee
Q 038724          385 LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEML-CLEQLNIIRLTSCSL---------CSLCGLPTVQCLTSRRLN  454 (483)
Q Consensus       385 ~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~-~l~~L~~L~l~~~~l---------~~l~~l~~l~~l~l~~~~  454 (483)
                      +..+++|+.|++++|.+..-       ....+.+.+. ..++|+.|.|.+|.+         .++...|.|..|+++.|.
T Consensus       237 L~s~~~L~El~l~dcll~~~-------Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~  309 (382)
T KOG1909|consen  237 LSSWPHLRELNLGDCLLENE-------GAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNR  309 (382)
T ss_pred             hcccchheeecccccccccc-------cHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCccc
Confidence            45555666666666654321       1233344443 356788888888765         235557778888777777


Q ss_pred             ee
Q 038724          455 LE  456 (483)
Q Consensus       455 ~~  456 (483)
                      ++
T Consensus       310 l~  311 (382)
T KOG1909|consen  310 LG  311 (382)
T ss_pred             cc
Confidence            75

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.79  E-value=0.00011  Score=73.08  Aligned_cols=142  Identities=17%  Similarity=0.156  Sum_probs=81.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh----------hhcCCcEEEEEcCCCCc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM----------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i----------~l~~~~~LlvlDdv~~~   88 (483)
                      ...+.|+|++|+|||.|+.++++.. .....-..++|++..+-  ..++...+          ......-+|++||++..
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l-~~~~~~~~v~yi~~~~f--~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l  206 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYV-VQNEPDLRVMYITSEKF--LNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFL  206 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHH-HHhCCCCeEEEEEHHHH--HHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhh
Confidence            3469999999999999999999986 21111124667764321  11111111          12224558999999743


Q ss_pred             cc---c-ccccCCCCC-CCCCCEEEEecC-Chhhh------------------hccCChHHHHHHHHHHhcCCcccCCCC
Q 038724           89 ID---L-SKIGVPLPS-QKIVSKVVFTTH-SEEVC------------------VDCFTPQESWQVFQMKVGNETLVSHPA  144 (483)
Q Consensus        89 ~~---~-~~l~~~~~~-~~~gs~ilvTtR-~~~~~------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~  144 (483)
                      ..   . ..+...+.. ...|..|++||. ...-.                  +++.+.++-.+++.+.+....   ..-
T Consensus       207 ~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~---~~l  283 (440)
T PRK14088        207 IGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIEH---GEL  283 (440)
T ss_pred             cCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhcC---CCC
Confidence            11   1 122222211 122456888875 32211                  667788888888887765433   122


Q ss_pred             chhHHHHHHhHcCCchHHHHHH
Q 038724          145 IHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       145 ~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      .++..+.|++.+.|.-..+.-+
T Consensus       284 ~~ev~~~Ia~~~~~~~R~L~g~  305 (440)
T PRK14088        284 PEEVLNFVAENVDDNLRRLRGA  305 (440)
T ss_pred             CHHHHHHHHhccccCHHHHHHH
Confidence            3566888888888766555433

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.78  E-value=5.8e-05  Score=72.51  Aligned_cols=59  Identities=15%  Similarity=0.201  Sum_probs=33.4

Q ss_pred             ccceEEEEcccc-ccccccCCCCCCcccEEEecCC-ccccccchhhhcCCCccEEEccCCcc--CccCCcc
Q 038724          295 WLGLRRMSLMNN-QIKTLLNTPSCPHLLTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSYNRF--LTKLPSG  361 (483)
Q Consensus       295 ~~~l~~l~l~~~-~~~~~~~~~~~~~L~~L~l~~n-~~~~~~~~~~~~l~~L~~L~l~~n~~--~~~~p~~  361 (483)
                      ..+|+.|.+.++ .++.+|. .-.++|+.|.+++| .+..+|+       +|+.|+++++..  +..+|.+
T Consensus        71 P~sLtsL~Lsnc~nLtsLP~-~LP~nLe~L~Ls~Cs~L~sLP~-------sLe~L~L~~n~~~~L~~LPss  133 (426)
T PRK15386         71 PNELTEITIENCNNLTTLPG-SIPEGLEKLTVCHCPEISGLPE-------SVRSLEIKGSATDSIKNVPNG  133 (426)
T ss_pred             CCCCcEEEccCCCCcccCCc-hhhhhhhheEccCccccccccc-------ccceEEeCCCCCcccccCcch
Confidence            345777888763 4444432 22357888888877 5544443       366677765532  3445544

>PRK10536 hypothetical protein; Provisional

Probab=97.78  E-value=6.3e-05  Score=67.59  Aligned_cols=40  Identities=20%  Similarity=0.135  Sum_probs=33.5

Q ss_pred             CChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            2 ENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         2 gr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.+....+..++.+.  ..|.++|+.|.|||+||.+++.+.
T Consensus        59 p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~   98 (262)
T PRK10536         59 ARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEA   98 (262)
T ss_pred             CCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHH
Confidence            4667777888888765  499999999999999999998864

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.76  E-value=0.00068  Score=64.05  Aligned_cols=148  Identities=8%  Similarity=0.073  Sum_probs=91.5

Q ss_pred             HHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEe--CCCcCc
Q 038724            7 FYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVV--SKELKL   64 (483)
Q Consensus         7 ~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~--~~~~~~   64 (483)
                      -+.+.+.+..+.. .-+.++|+.|+||+++|.+++...--..                   .|-| ..++..  +....+
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~p~~~~~I~i   89 (325)
T PRK06871         11 YQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPD-FHILEPIDNKDIGV   89 (325)
T ss_pred             HHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEccccCCCCCH
Confidence            4567777777654 5677999999999999999887652110                   1222 223321  222233


Q ss_pred             cchh---HHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChH
Q 038724           65 ETSQ---DDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQ  124 (483)
Q Consensus        65 ~~~~---~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~  124 (483)
                      .++.   +.+   ...+++-++|+|+++...  ....+...+-+...+..+|++|.+..-.            +.+++++
T Consensus        90 d~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~  169 (325)
T PRK06871         90 DQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQ  169 (325)
T ss_pred             HHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHH
Confidence            3332   333   445777888999998664  3455555555545566666666554332            8889999


Q ss_pred             HHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          125 ESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       125 ~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ++.+.+.......        ...+...+..++|.|...
T Consensus       170 ~~~~~L~~~~~~~--------~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        170 QALDWLQAQSSAE--------ISEILTALRINYGRPLLA  200 (325)
T ss_pred             HHHHHHHHHhccC--------hHHHHHHHHHcCCCHHHH
Confidence            9988887654211        123566788899999633

>PTZ00202 tuzin; Provisional

Probab=97.75  E-value=0.00012  Score=70.13  Aligned_cols=43  Identities=16%  Similarity=0.205  Sum_probs=37.8

Q ss_pred             CCChhHHHHHHHHHhcC---CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |||++++.++.+.|.+.   ..+++.|+|++|+|||||++.+....
T Consensus       265 VGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l  310 (550)
T PTZ00202        265 VSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE  310 (550)
T ss_pred             CCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC
Confidence            79999999999999642   34689999999999999999998765

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

Probab=97.74  E-value=1.6e-05  Score=82.75  Aligned_cols=111  Identities=19%  Similarity=0.198  Sum_probs=73.9

Q ss_pred             ccccccccceEEEEcccccccccc--CC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc-cCCccccc
Q 038724          289 PSDALKWLGLRRMSLMNNQIKTLL--NT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT-KLPSGISK  364 (483)
Q Consensus       289 ~~~~~~~~~l~~l~l~~~~~~~~~--~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~-~~p~~~~~  364 (483)
                      ......++.|++|.+.+-.+..-.  .. ..+++|.+||+|+.+++.+..  ++.+++|++|.+.+-.+.. ..-..+..
T Consensus       141 ~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~G--IS~LknLq~L~mrnLe~e~~~~l~~LF~  218 (699)
T KOG3665|consen  141 KKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSG--ISRLKNLQVLSMRNLEFESYQDLIDLFN  218 (699)
T ss_pred             HHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHH--HhccccHHHHhccCCCCCchhhHHHHhc
Confidence            334446788888888875543221  11 467888888888888887733  7888888888887654332 11135778


Q ss_pred             CcCCCEEeccCCCCCccCcc-------ccCCcCCCEEecCCCCC
Q 038724          365 LVSLQHLDISFTSTLELPEE-------LKALEKLKYLDMDDHQQ  401 (483)
Q Consensus       365 l~~L~~L~l~~~~i~~lp~~-------~~~l~~L~~L~l~~n~~  401 (483)
                      |++|+.||+|...-..-+.-       -..|++|+.||.|++.+
T Consensus       219 L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi  262 (699)
T KOG3665|consen  219 LKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDI  262 (699)
T ss_pred             ccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcch
Confidence            88888888887764333311       23578888888887764

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

Probab=97.73  E-value=1.8e-05  Score=72.72  Aligned_cols=157  Identities=23%  Similarity=0.284  Sum_probs=112.4

Q ss_pred             cccceEEEEccccccccccCC------CCCCcccEEEecCCccccccchh-------------hhcCCCccEEEccCCcc
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT------PSCPHLLTLFLNDNYLQDIKNGF-------------FQFMPCLKVLNLSYNRF  354 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~------~~~~~L~~L~l~~n~~~~~~~~~-------------~~~l~~L~~L~l~~n~~  354 (483)
                      ..++|+.++|++|.+..-...      ..+..|+.|.|.+|++...-...             ...-+.||++..+.|+ 
T Consensus        90 ~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNr-  168 (382)
T KOG1909|consen   90 GCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNR-  168 (382)
T ss_pred             cCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeeccc-
Confidence            445899999999987532211      46889999999999875432222             2345789999999996 


Q ss_pred             CccCC-----cccccCcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhcccc
Q 038724          355 LTKLP-----SGISKLVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLE  424 (483)
Q Consensus       355 ~~~~p-----~~~~~l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~  424 (483)
                      ++.-+     ..+...+.|+.+.+..|.|..     +-..+..+++|+.|||+.|.+...       .+...-+.+..++
T Consensus       169 len~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~e-------gs~~LakaL~s~~  241 (382)
T KOG1909|consen  169 LENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLE-------GSVALAKALSSWP  241 (382)
T ss_pred             cccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhH-------HHHHHHHHhcccc
Confidence            44333     346667889999999887643     223478899999999999986533       2344556788899


Q ss_pred             ccccceeeccCccc---------c-CCCCCcccccceeeeeeee
Q 038724          425 QLNIIRLTSCSLCS---------L-CGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       425 ~L~~L~l~~~~l~~---------l-~~l~~l~~l~l~~~~~~~~  458 (483)
                      +|+.|+++.|.+..         + ...|+|+.|.+.+|.+...
T Consensus       242 ~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~d  285 (382)
T KOG1909|consen  242 HLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRD  285 (382)
T ss_pred             hheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHH
Confidence            99999999998632         2 4478899999988888643

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

Probab=97.71  E-value=0.0006  Score=62.66  Aligned_cols=160  Identities=14%  Similarity=0.089  Sum_probs=94.7

Q ss_pred             hHHHHHHHHHhcC---CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCC---CCEEEEEEeCCCcCccchhHHh-------
Q 038724            5 KQFYQVWRFLVKK---DVGIIGLFGTGGVGKTTILKQINNRFCSERPG---FDVVIWVVVSKELKLETSQDDM-------   71 (483)
Q Consensus         5 ~~~~~l~~~l~~~---~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~---f~~~~~v~~~~~~~~~~~~~~i-------   71 (483)
                      +.++.+.+.+...   +.+.+.|+|.+|.|||++++++.+.+....+.   --.++.|.....++...+...|       
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP  123 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAP  123 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcc
Confidence            3455666666542   45679999999999999999999877322111   1257888888888888888877       


Q ss_pred             -----------------hhcCCcEEEEEcCCCCc-----c---ccccccCCCCCCCCCCEEEEecCChhhh---------
Q 038724           72 -----------------ILSTKKFLLLLDDLWET-----I---DLSKIGVPLPSQKIVSKVVFTTHSEEVC---------  117 (483)
Q Consensus        72 -----------------~l~~~~~LlvlDdv~~~-----~---~~~~l~~~~~~~~~gs~ilvTtR~~~~~---------  117 (483)
                                       .-.-+--+||+|++.+.     .   ..-.....+.+.-+-+-|.+-|++...+         
T Consensus       124 ~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~  203 (302)
T PF05621_consen  124 YRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLAS  203 (302)
T ss_pred             cCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHh
Confidence                             11123447889999764     1   1111222232222335566666554443         


Q ss_pred             ------hccCCh-HHHHHHHHHHhcCCcc--cCCCCchhHHHHHHhHcCCchHHHH
Q 038724          118 ------VDCFTP-QESWQVFQMKVGNETL--VSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       118 ------l~~L~~-~~a~~l~~~~~~~~~~--~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                            +..... ++...|+......-..  ...-...+.++.|...++|+.--+.
T Consensus       204 RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~  259 (302)
T PF05621_consen  204 RFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELS  259 (302)
T ss_pred             ccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHH
Confidence                  333332 3445555443321111  1123446778999999999875543

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

>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=97.71  E-value=9.8e-06  Score=66.45  Aligned_cols=61  Identities=26%  Similarity=0.343  Sum_probs=38.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc--CccchhHHh-------hhcCCcEEEEEcCCCCc
Q 038724           22 IGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL--KLETSQDDM-------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~--~~~~~~~~i-------~l~~~~~LlvlDdv~~~   88 (483)
                      |.|+|++|+|||++|+.+++..   .  ++ .+.++.+.-.  ...+....+       ....++.++++||++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l---~--~~-~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l   70 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL---G--FP-FIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKL   70 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT---T--SE-EEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc---c--cc-cccccccccccccccccccccccccccccccccceeeeeccchhc
Confidence            5799999999999999999987   2  22 3445443322  111111222       22235899999999644

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 ....

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.70  E-value=0.00011  Score=62.44  Aligned_cols=114  Identities=11%  Similarity=0.119  Sum_probs=72.2

Q ss_pred             CChhHHHHHHHHHhcCCeE-EEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCC-
Q 038724            2 ENPKQFYQVWRFLVKKDVG-IIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKE-   61 (483)
Q Consensus         2 gr~~~~~~l~~~l~~~~~~-~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~-   61 (483)
                      |-++..+.+.+.+..+..+ .+.++|+.|+||+++|.++++..-...                  .|.| ..|+.-... 
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~   79 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPD-FIIIKPDKKK   79 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTT-EEEEETTTSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcc-eEEEeccccc
Confidence            5677888999999888765 579999999999999999887662111                  1223 455544432 


Q ss_pred             --cCccchhHHh------hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCChhh
Q 038724           62 --LKLETSQDDM------ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSEEV  116 (483)
Q Consensus        62 --~~~~~~~~~i------~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~~~  116 (483)
                        ....++..-+      ...+..-++|+||++..  +....++..+-+....+.+|++|++...
T Consensus        80 ~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~  144 (162)
T PF13177_consen   80 KSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSK  144 (162)
T ss_dssp             SSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGG
T ss_pred             chhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHH
Confidence              3343333222      44467889999999865  3345555555444556888888877643

...

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.68  E-value=0.00017  Score=73.11  Aligned_cols=140  Identities=16%  Similarity=0.107  Sum_probs=82.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh----------hhcCCcEEEEEcCCCCcc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM----------ILSTKKFLLLLDDLWETI   89 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i----------~l~~~~~LlvlDdv~~~~   89 (483)
                      ..+.|+|..|+|||.|+.++++.... ...-..++|++...-.  .++...+          ..+ +.=+|||||+....
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~-~~~g~~V~Yitaeef~--~el~~al~~~~~~~f~~~y~-~~DLLlIDDIq~l~  390 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARR-LYPGTRVRYVSSEEFT--NEFINSIRDGKGDSFRRRYR-EMDILLVDDIQFLE  390 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHH-hCCCCeEEEeeHHHHH--HHHHHHHHhccHHHHHHHhh-cCCEEEEehhcccc
Confidence            35899999999999999999997721 1112335677643211  1111111          111 22478899996442


Q ss_pred             c---c-ccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCCc
Q 038724           90 D---L-SKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPAI  145 (483)
Q Consensus        90 ~---~-~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~  145 (483)
                      .   + +.+...+.. ..++..||+||....-.                   +++.+.+.-.+++.+.+.....   .-.
T Consensus       391 gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l---~l~  467 (617)
T PRK14086        391 DKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQL---NAP  467 (617)
T ss_pred             CCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCC---CCC
Confidence            1   1 112222211 12356688888753211                   7778888888899888755442   233


Q ss_pred             hhHHHHHHhHcCCchHHHHHH
Q 038724          146 HKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       146 ~~~~~~i~~~c~g~Plal~~~  166 (483)
                      .++.+-|++.+.+..-.+..+
T Consensus       468 ~eVi~yLa~r~~rnvR~Lega  488 (617)
T PRK14086        468 PEVLEFIASRISRNIRELEGA  488 (617)
T ss_pred             HHHHHHHHHhccCCHHHHHHH
Confidence            566788888877765555433

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.67  E-value=8.7e-05  Score=61.39  Aligned_cols=68  Identities=24%  Similarity=0.273  Sum_probs=42.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccch-------------------hHHh---hhcCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETS-------------------QDDM---ILSTKK   77 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~-------------------~~~i---~l~~~~   77 (483)
                      +.+.|+|++|+||||+|+.++...   ......++++..+........                   ...+   ....+.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL---GPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKP   79 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc---CCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCC
Confidence            578999999999999999999987   222233555544432221111                   1111   222335


Q ss_pred             EEEEEcCCCCccc
Q 038724           78 FLLLLDDLWETID   90 (483)
Q Consensus        78 ~LlvlDdv~~~~~   90 (483)
                      .++++|+++....
T Consensus        80 ~viiiDei~~~~~   92 (148)
T smart00382       80 DVLILDEITSLLD   92 (148)
T ss_pred             CEEEEECCcccCC
Confidence            9999999987644

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.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.65  E-value=0.0013  Score=62.86  Aligned_cols=149  Identities=9%  Similarity=0.010  Sum_probs=91.4

Q ss_pred             HHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccC-------------------CCCCCEEEEEEeCC---Cc
Q 038724            6 QFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSE-------------------RPGFDVVIWVVVSK---EL   62 (483)
Q Consensus         6 ~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~-------------------~~~f~~~~~v~~~~---~~   62 (483)
                      .-+++.+.+..++. .-+.++|+.|+||+++|.+++...--.                   ..|-| ..++.-..   ..
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~p~~~~~~I   88 (334)
T PRK07993         10 DYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLTPEKGKSSL   88 (334)
T ss_pred             HHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCC-EEEEecccccccC
Confidence            34567777776654 567899999999999999987765210                   11223 23343221   12


Q ss_pred             Ccc---chhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCC
Q 038724           63 KLE---TSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFT  122 (483)
Q Consensus        63 ~~~---~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~  122 (483)
                      .+.   ++.+.+   ...+++-++|+|+++...  ....+...+-+...++.+|++|.+....            +.+++
T Consensus        89 ~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~  168 (334)
T PRK07993         89 GVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPP  168 (334)
T ss_pred             CHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCC
Confidence            222   223333   445778899999998663  3455555555545566666666554332            77888


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ++++.+.+....+        ...+.+..++..++|.|...
T Consensus       169 ~~~~~~~L~~~~~--------~~~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        169 EQYALTWLSREVT--------MSQDALLAALRLSAGAPGAA  201 (334)
T ss_pred             HHHHHHHHHHccC--------CCHHHHHHHHHHcCCCHHHH
Confidence            8888877754321        11234677889999999643

>PRK08118 topology modulation protein; Reviewed

Probab=97.64  E-value=3.6e-05  Score=65.78  Aligned_cols=36  Identities=31%  Similarity=0.610  Sum_probs=29.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .|.|+|++|+||||||+.+++......-+|+..+|-
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~   38 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK   38 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence            589999999999999999999873333567777753

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=0.0015  Score=62.83  Aligned_cols=153  Identities=16%  Similarity=0.168  Sum_probs=91.5

Q ss_pred             hHHHHHHHHHhcC------C---eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            5 KQFYQVWRFLVKK------D---VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         5 ~~~~~l~~~l~~~------~---~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      +.++.+.+.+...      +   -|=..++||+|.|||++..++|+..     .|+ ++-+.++.-.+-.++-+-+.-..
T Consensus       212 ~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L-----~yd-IydLeLt~v~~n~dLr~LL~~t~  285 (457)
T KOG0743|consen  212 RIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL-----NYD-IYDLELTEVKLDSDLRHLLLATP  285 (457)
T ss_pred             HHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc-----CCc-eEEeeeccccCcHHHHHHHHhCC
Confidence            4456666666542      1   2346899999999999999999977     555 34455555555555444445567


Q ss_pred             CcEEEEEcCCCCccccc------------------------cccCCCCCCCCCCEEEE-ecCChhhh-------------
Q 038724           76 KKFLLLLDDLWETIDLS------------------------KIGVPLPSQKIVSKVVF-TTHSEEVC-------------  117 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~~~------------------------~l~~~~~~~~~gs~ilv-TtR~~~~~-------------  117 (483)
                      .+.+|||.|++..-++.                        .+...+...+ +=||+| ||-.....             
T Consensus       286 ~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg-~ERIivFTTNh~EkLDPALlRpGRmDmh  364 (457)
T KOG0743|consen  286 NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCG-DERIIVFTTNHKEKLDPALLRPGRMDMH  364 (457)
T ss_pred             CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCC-CceEEEEecCChhhcCHhhcCCCcceeE
Confidence            78888899997441111                        0111111222 235554 77655443             


Q ss_pred             --hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHh
Q 038724          118 --VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAM  170 (483)
Q Consensus       118 --l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l  170 (483)
                        ++--+.+....|+.++.+.+.      .+..+.+|.+...+.-+.=..+++.+
T Consensus       365 I~mgyCtf~~fK~La~nYL~~~~------~h~L~~eie~l~~~~~~tPA~V~e~l  413 (457)
T KOG0743|consen  365 IYMGYCTFEAFKTLASNYLGIEE------DHRLFDEIERLIEETEVTPAQVAEEL  413 (457)
T ss_pred             EEcCCCCHHHHHHHHHHhcCCCC------CcchhHHHHHHhhcCccCHHHHHHHH
Confidence              666778888888888875432      24456666665566555545555444

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.61  E-value=0.0016  Score=61.33  Aligned_cols=149  Identities=12%  Similarity=0.045  Sum_probs=91.5

Q ss_pred             HHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccC------------------CCCCCEEEEEEeC---CCcC
Q 038724            6 QFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSE------------------RPGFDVVIWVVVS---KELK   63 (483)
Q Consensus         6 ~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~------------------~~~f~~~~~v~~~---~~~~   63 (483)
                      .-+.+.+.+..++. ..+.++|+.|+||+++|.++++..--.                  ..|.| ..|+...   +...
T Consensus        11 ~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD-~~~i~p~~~~~~I~   89 (319)
T PRK06090         11 VWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPD-LHVIKPEKEGKSIT   89 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCC-EEEEecCcCCCcCC
Confidence            34566777766654 468899999999999999987655211                  11223 3344322   2233


Q ss_pred             ccchhH---Hh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhh-h-----------hccCCh
Q 038724           64 LETSQD---DM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEV-C-----------VDCFTP  123 (483)
Q Consensus        64 ~~~~~~---~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~-~-----------l~~L~~  123 (483)
                      ++++..   .+   ...++.-++|+|+++...  ....+...+-+...++.+|++|.+... .           +.++++
T Consensus        90 vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~  169 (319)
T PRK06090         90 VEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPST  169 (319)
T ss_pred             HHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCH
Confidence            333322   11   344667788999998663  345555555554555666666555433 2           888899


Q ss_pred             HHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          124 QESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       124 ~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      +++.+.+....   .    .    ..+.++..++|.|+....+
T Consensus       170 ~~~~~~L~~~~---~----~----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        170 AQAMQWLKGQG---I----T----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             HHHHHHHHHcC---C----c----hHHHHHHHcCCCHHHHHHH
Confidence            98888876431   1    1    2456788999999876433

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

Probab=97.60  E-value=9.8e-06  Score=64.30  Aligned_cols=90  Identities=31%  Similarity=0.432  Sum_probs=79.4

Q ss_pred             cccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      ....+...++++|.++..|+.  ..++.+..|++++|.+..+|.. +..++.|+.|+++.|+ +...|.-+..|.+|-+|
T Consensus        51 ~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE-~Aam~aLr~lNl~~N~-l~~~p~vi~~L~~l~~L  128 (177)
T KOG4579|consen   51 KGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEE-LAAMPALRSLNLRFNP-LNAEPRVIAPLIKLDML  128 (177)
T ss_pred             CCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHH-HhhhHHhhhcccccCc-cccchHHHHHHHhHHHh
Confidence            345688899999999998876  4567899999999999999988 8999999999999997 67788888899999999


Q ss_pred             eccCCCCCccCccc
Q 038724          372 DISFTSTLELPEEL  385 (483)
Q Consensus       372 ~l~~~~i~~lp~~~  385 (483)
                      +..+|.+..+|-.+
T Consensus       129 ds~~na~~eid~dl  142 (177)
T KOG4579|consen  129 DSPENARAEIDVDL  142 (177)
T ss_pred             cCCCCccccCcHHH
Confidence            99999999998763

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.58  E-value=0.00035  Score=69.06  Aligned_cols=83  Identities=18%  Similarity=0.229  Sum_probs=53.8

Q ss_pred             CChhHHHHHHHHHhc------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEE------EEeCCCcC
Q 038724            2 ENPKQFYQVWRFLVK------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIW------VVVSKELK   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~------v~~~~~~~   63 (483)
                      |.++.+.+|.+.+..            ...|=|.++|++|+|||.||++++.+.   .-.|-.+.-      ++-.....
T Consensus       194 G~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel---~vPf~~isApeivSGvSGESEkk  270 (802)
T KOG0733|consen  194 GLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL---GVPFLSISAPEIVSGVSGESEKK  270 (802)
T ss_pred             ChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc---CCceEeecchhhhcccCcccHHH
Confidence            567778888777753            245668999999999999999999987   223311110      00011112


Q ss_pred             ccchhHHhhhcCCcEEEEEcCCCCc
Q 038724           64 LETSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        64 ~~~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      ++++..+ +....+|++++|+++-.
T Consensus       271 iRelF~~-A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  271 IRELFDQ-AKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             HHHHHHH-HhccCCeEEEeeccccc
Confidence            3333322 67789999999999744

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.58  E-value=0.00011  Score=73.95  Aligned_cols=65  Identities=25%  Similarity=0.419  Sum_probs=53.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh--------hh--cCCcEEEEEcCCCC
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM--------IL--STKKFLLLLDDLWE   87 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i--------~l--~~~~~LlvlDdv~~   87 (483)
                      .-++..++|++|+||||||..++++.     .|. ++=|.+|+..+...+-..|        .+  .+++..+|+|.++-
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GYs-VvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDG  398 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GYS-VVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDG  398 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cce-EEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccC
Confidence            45789999999999999999999976     443 6678899999888888888        23  27888999999975


Q ss_pred             c
Q 038724           88 T   88 (483)
Q Consensus        88 ~   88 (483)
                      .
T Consensus       399 a  399 (877)
T KOG1969|consen  399 A  399 (877)
T ss_pred             C
Confidence            4

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.57  E-value=0.0027  Score=61.10  Aligned_cols=166  Identities=16%  Similarity=0.243  Sum_probs=104.2

Q ss_pred             ChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHH-HHHHhhcccCCCCCCEEEEEEeCCCcC-------ccchh------
Q 038724            3 NPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTIL-KQINNRFCSERPGFDVVIWVVVSKELK-------LETSQ------   68 (483)
Q Consensus         3 r~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa-~~~~~~~~~~~~~f~~~~~v~~~~~~~-------~~~~~------   68 (483)
                      |.+.+++|..||.+..-..|.|.||.|.||+.|+ .++.++.   ++    ++.+++.+-..       +..+.      
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r---~~----vL~IDC~~i~~ar~D~~~I~~lA~qvGY~   73 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR---KN----VLVIDCDQIVKARGDAAFIKNLASQVGYF   73 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC---CC----EEEEEChHhhhccChHHHHHHHHHhcCCC
Confidence            7788999999999987789999999999999999 6665543   11    34443321111       01111      


Q ss_pred             -----------------------------------HHh-----------hhc---------------------CCcEEEE
Q 038724           69 -----------------------------------DDM-----------ILS---------------------TKKFLLL   81 (483)
Q Consensus        69 -----------------------------------~~i-----------~l~---------------------~~~~Llv   81 (483)
                                                         ..|           .+.                     .++=+||
T Consensus        74 PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVV  153 (431)
T PF10443_consen   74 PVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVV  153 (431)
T ss_pred             cchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEE
Confidence                                               111           111                     1245899


Q ss_pred             EcCCCCccc-----cccc---cCCCCCCCCCCEEEEecCChhhh----------------hccCChHHHHHHHHHHhcCC
Q 038724           82 LDDLWETID-----LSKI---GVPLPSQKIVSKVVFTTHSEEVC----------------VDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        82 lDdv~~~~~-----~~~l---~~~~~~~~~gs~ilvTtR~~~~~----------------l~~L~~~~a~~l~~~~~~~~  137 (483)
                      |||......     |+.+   ...+- ..+--.||+.|-+....                +.-.+++.|..+........
T Consensus       154 IdnF~~k~~~~~~iy~~laeWAa~Lv-~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~  232 (431)
T PF10443_consen  154 IDNFLHKAEENDFIYDKLAEWAASLV-QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDED  232 (431)
T ss_pred             EcchhccCcccchHHHHHHHHHHHHH-hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhccc
Confidence            999853321     1111   11111 12335788888776554                77788999999998887543


Q ss_pred             ccc------------C-----CCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCH
Q 038724          138 TLV------------S-----HPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTP  176 (483)
Q Consensus       138 ~~~------------~-----~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~  176 (483)
                      ...            .     ...........++..||==.-+..+++.++...++
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p  288 (431)
T PF10443_consen  233 TEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESP  288 (431)
T ss_pred             ccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCH
Confidence            100            0     01344556778889999999999999999865444

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.57  E-value=0.00019  Score=71.13  Aligned_cols=133  Identities=12%  Similarity=0.080  Sum_probs=74.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------hhcCCcEEEEEcCCCCccc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------ILSTKKFLLLLDDLWETID   90 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------~l~~~~~LlvlDdv~~~~~   90 (483)
                      ..+.|+|++|+|||+|++++++...   .....++|++...-.  ..+...+         ..-...-++++||+.....
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~---~~~~~v~yi~~~~f~--~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~  216 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALR---ESGGKILYVRSELFT--EHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSG  216 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHH---HcCCCEEEeeHHHHH--HHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcC
Confidence            5689999999999999999999872   122335666543110  1111111         1112344888999865421


Q ss_pred             ----cccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCcccCCCCch
Q 038724           91 ----LSKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNETLVSHPAIH  146 (483)
Q Consensus        91 ----~~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~  146 (483)
                          .+.+...+.. ...|..||+||....-.                   +.+++.++-.+++...+.....   .-..
T Consensus       217 k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~---~l~~  293 (445)
T PRK12422        217 KGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALSI---RIEE  293 (445)
T ss_pred             ChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcCC---CCCH
Confidence                1122211111 11345688877542111                   6778888888888877754331   2234


Q ss_pred             hHHHHHHhHcCCch
Q 038724          147 KPAKMVAKDCGGLP  160 (483)
Q Consensus       147 ~~~~~i~~~c~g~P  160 (483)
                      +....|++.+.+.-
T Consensus       294 evl~~la~~~~~di  307 (445)
T PRK12422        294 TALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHHHHhcCCCH
Confidence            55666777766544

>PRK07261 topology modulation protein; Provisional

Probab=97.56  E-value=0.00012  Score=62.88  Aligned_cols=65  Identities=17%  Similarity=0.312  Sum_probs=39.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh--hhcCCcEEEEEcCCCC
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM--ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i--~l~~~~~LlvlDdv~~   87 (483)
                      .|.|+|++|+||||||++++.......-+.|...|-......+..++...+  .+.+.+  .|+|....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~--wIidg~~~   68 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFLLKHD--WIIDGNYS   68 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHHhCCC--EEEcCcch
Confidence            489999999999999999987752222244555564322223333333333  344444  67777644

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.56  E-value=5.2e-05  Score=68.20  Aligned_cols=84  Identities=26%  Similarity=0.342  Sum_probs=46.4

Q ss_pred             CCCcccEEEecCCcccccc--chhhhcCCCccEEEccCCccCccCCccc-ccCcCCCEEeccCCC--CCccCccccCCcC
Q 038724          316 SCPHLLTLFLNDNYLQDIK--NGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTS--TLELPEELKALEK  390 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~--~~~~~~l~~L~~L~l~~n~~~~~~p~~~-~~l~~L~~L~l~~~~--i~~lp~~~~~l~~  390 (483)
                      .+.+++.+||.+|.++...  ..++.++|.|++|+++.|++...+- .. ..+.+|++|-|.++.  .+.....+..++.
T Consensus        69 ~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~-~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~  147 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIK-SLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPK  147 (418)
T ss_pred             HhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccc-cCcccccceEEEEEcCCCCChhhhhhhhhcchh
Confidence            4556666677777665432  2335566777777777765332221 12 345666777666665  2333333555556


Q ss_pred             CCEEecCCCC
Q 038724          391 LKYLDMDDHQ  400 (483)
Q Consensus       391 L~~L~l~~n~  400 (483)
                      ++.|.++.|.
T Consensus       148 vtelHmS~N~  157 (418)
T KOG2982|consen  148 VTELHMSDNS  157 (418)
T ss_pred             hhhhhhccch
Confidence            6666666553

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=97.55  E-value=0.0021  Score=61.88  Aligned_cols=164  Identities=16%  Similarity=0.216  Sum_probs=93.6

Q ss_pred             CCChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-----
Q 038724            1 IENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-----   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-----   71 (483)
                      +||+.+++.+.+++..    ...+.+.|.|.+|.|||.+...++.+....... ..++++....-....++...|     
T Consensus       153 ~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~-~~~v~inc~sl~~~~aiF~kI~~~~~  231 (529)
T KOG2227|consen  153 KGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKS-PVTVYINCTSLTEASAIFKKIFSSLL  231 (529)
T ss_pred             cchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhccc-ceeEEEeeccccchHHHHHHHHHHHH
Confidence            5999999999999874    356789999999999999999999887322222 234566433212222222222     


Q ss_pred             --------------------hhcCCcEEEEEcCCCCc----cccccccCCCCCCCCCCEEEEec---------CChhhh-
Q 038724           72 --------------------ILSTKKFLLLLDDLWET----IDLSKIGVPLPSQKIVSKVVFTT---------HSEEVC-  117 (483)
Q Consensus        72 --------------------~l~~~~~LlvlDdv~~~----~~~~~l~~~~~~~~~gs~ilvTt---------R~~~~~-  117 (483)
                                          .-....+++|+|..+.-    ...-.....+++.. ++++++--         |.-... 
T Consensus       232 q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp-~sr~iLiGiANslDlTdR~LprL~  310 (529)
T KOG2227|consen  232 QDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLP-NSRIILIGIANSLDLTDRFLPRLN  310 (529)
T ss_pred             HHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCC-cceeeeeeehhhhhHHHHHhhhhh
Confidence                                22235799999998632    11111222334332 34444321         111111 


Q ss_pred             -----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHc----CCchHHHHHHHH
Q 038724          118 -----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDC----GGLPLALTIVGR  168 (483)
Q Consensus       118 -----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c----~g~Plal~~~~~  168 (483)
                                 ..|.+.++..+++..........  ......++.++++|    |.+--|+.+.-+
T Consensus       311 ~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~--~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~  374 (529)
T KOG2227|consen  311 LDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTS--IFLNAAIELCARKVAAPSGDLRKALDVCRR  374 (529)
T ss_pred             hccCCCCceeeecCCCHHHHHHHHHHHHhccccc--ccchHHHHHHHHHhccCchhHHHHHHHHHH
Confidence                       67889999999999887554421  12223344444444    444444444443

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.55  E-value=0.0014  Score=63.92  Aligned_cols=72  Identities=19%  Similarity=0.243  Sum_probs=48.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccc------hhHHh--hhcCCcEEEEEcCCCCcc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLET------SQDDM--ILSTKKFLLLLDDLWETI   89 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~------~~~~i--~l~~~~~LlvlDdv~~~~   89 (483)
                      +...+.+.|++|.|||+||..++..     ..|..+--++..+-....+      +....  +.+..-..||+||+...-
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~-----S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLi  611 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALS-----SDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLL  611 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhh-----cCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhh
Confidence            4567889999999999999999874     4777655554333222222      22222  667788899999997665


Q ss_pred             ccccc
Q 038724           90 DLSKI   94 (483)
Q Consensus        90 ~~~~l   94 (483)
                      +|-.+
T Consensus       612 D~vpI  616 (744)
T KOG0741|consen  612 DYVPI  616 (744)
T ss_pred             ccccc
Confidence            55443

>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=97.54  E-value=0.00017  Score=63.09  Aligned_cols=106  Identities=15%  Similarity=0.198  Sum_probs=57.5

Q ss_pred             ChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC----CCcC--ccchhHHh-----
Q 038724            3 NPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS----KELK--LETSQDDM-----   71 (483)
Q Consensus         3 r~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~----~~~~--~~~~~~~i-----   71 (483)
                      +........+++.  ...+|.+.|++|.|||.||.+.+-+. -..+.|+.++++...    ++..  .-++.+++     
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~   81 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLR   81 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE-S--TT----SS---------TTTH
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHH
Confidence            4455666666777  34599999999999999999998776 345788888777321    1100  00000111     


Q ss_pred             ------------------------------hhcCC---cEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCCh
Q 038724           72 ------------------------------ILSTK---KFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSE  114 (483)
Q Consensus        72 ------------------------------~l~~~---~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~  114 (483)
                                                    .++|+   ..+||+|++.+.  .++..+...   .+.+||++++--..
T Consensus        82 p~~d~l~~~~~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~GD~~  156 (205)
T PF02562_consen   82 PIYDALEELFGKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKIIITGDPS  156 (205)
T ss_dssp             HHHHHHTTTS-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE---
T ss_pred             HHHHHHHHHhChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEEEecCce
Confidence                                          45554   459999999655  345555444   35689999985443

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.53  E-value=0.00015  Score=74.33  Aligned_cols=43  Identities=23%  Similarity=0.358  Sum_probs=35.7

Q ss_pred             CCChhHHHHHHHHHhcC-----CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK-----DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~-----~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|-++.++++..++...     ..++++|+|++|+||||+++.++...
T Consensus        87 ~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        87 AVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             cCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46678888999998753     23579999999999999999999866

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.53  E-value=0.00024  Score=66.39  Aligned_cols=86  Identities=17%  Similarity=0.337  Sum_probs=64.3

Q ss_pred             CChhHHHHHHHHHhcCCe---EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-------
Q 038724            2 ENPKQFYQVWRFLVKKDV---GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-------   71 (483)
Q Consensus         2 gr~~~~~~l~~~l~~~~~---~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-------   71 (483)
                      +|+.++..+...+.+...   ..|.|+|-+|.|||.+.+++.+..   ..+   .+|+++-+.+..+.+.+.|       
T Consensus        10 ~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n~~---~vw~n~~ecft~~~lle~IL~~~~~~   83 (438)
T KOG2543|consen   10 CRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---NLE---NVWLNCVECFTYAILLEKILNKSQLA   83 (438)
T ss_pred             chHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---CCc---ceeeehHHhccHHHHHHHHHHHhccC
Confidence            689999999999987643   456899999999999999999876   222   4688766666555555544       


Q ss_pred             ---------------------------hhcCCcEEEEEcCCCCcccccc
Q 038724           72 ---------------------------ILSTKKFLLLLDDLWETIDLSK   93 (483)
Q Consensus        72 ---------------------------~l~~~~~LlvlDdv~~~~~~~~   93 (483)
                                                 ..+++.++|||||++...+.+.
T Consensus        84 d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a  132 (438)
T KOG2543|consen   84 DKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDA  132 (438)
T ss_pred             CCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccch
Confidence                                       2335789999999987655443

>PRK08181 transposase; Validated

Probab=97.52  E-value=7.8e-05  Score=68.50  Aligned_cols=66  Identities=26%  Similarity=0.247  Sum_probs=42.1

Q ss_pred             HHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-------------hhcCCcE
Q 038724           12 RFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-------------ILSTKKF   78 (483)
Q Consensus        12 ~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-------------~l~~~~~   78 (483)
                      +|+...  .-+.++|++|+|||.||.++++...   .....+.|+++.      ++...+             ..-.+.=
T Consensus       101 ~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~~v~f~~~~------~L~~~l~~a~~~~~~~~~l~~l~~~d  169 (269)
T PRK08181        101 SWLAKG--ANLLLFGPPGGGKSHLAAAIGLALI---ENGWRVLFTRTT------DLVQKLQVARRELQLESAIAKLDKFD  169 (269)
T ss_pred             HHHhcC--ceEEEEecCCCcHHHHHHHHHHHHH---HcCCceeeeeHH------HHHHHHHHHHhCCcHHHHHHHHhcCC
Confidence            455533  4699999999999999999998772   222345666542      222222             1112445


Q ss_pred             EEEEcCCCCc
Q 038724           79 LLLLDDLWET   88 (483)
Q Consensus        79 LlvlDdv~~~   88 (483)
                      ||||||+...
T Consensus       170 LLIIDDlg~~  179 (269)
T PRK08181        170 LLILDDLAYV  179 (269)
T ss_pred             EEEEeccccc
Confidence            9999999533

>PRK08116 hypothetical protein; Validated

Probab=97.52  E-value=7.1e-05  Score=69.18  Aligned_cols=89  Identities=26%  Similarity=0.215  Sum_probs=51.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-------------ccchhHHhhhcCCcEEEEEcCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-------------LETSQDDMILSTKKFLLLLDDLW   86 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-------------~~~~~~~i~l~~~~~LlvlDdv~   86 (483)
                      ..+.++|.+|+|||.||.++++...   .....++|++++.-..             ..++..  .+.+-. ||||||+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~--~l~~~d-lLviDDlg  188 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIR--SLVNAD-LLILDDLG  188 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHH--HhcCCC-EEEEeccc
Confidence            4589999999999999999999872   2234467776533110             001111  233333 89999994


Q ss_pred             Cc--cccc--cccCCCCC-CCCCCEEEEecCCh
Q 038724           87 ET--IDLS--KIGVPLPS-QKIVSKVVFTTHSE  114 (483)
Q Consensus        87 ~~--~~~~--~l~~~~~~-~~~gs~ilvTtR~~  114 (483)
                      ..  .+|.  .+...+.. ..++..+|+||...
T Consensus       189 ~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        189 AERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            32  2222  12211211 12456788887654

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.50  E-value=0.0011  Score=61.37  Aligned_cols=37  Identities=24%  Similarity=0.340  Sum_probs=27.6

Q ss_pred             hHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            5 KQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         5 ~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.++++..++..+  +.|.+.|++|+|||++|+++++..
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445555555544  367799999999999999998754

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).

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.47  E-value=0.00087  Score=66.66  Aligned_cols=160  Identities=13%  Similarity=0.127  Sum_probs=100.3

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-CCCC--EEEEE---------------EeCCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-PGFD--VVIWV---------------VVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-~~f~--~~~~v---------------~~~~~   61 (483)
                      ||-+..+..|..++..+.. .-..+.|+.|+||||+|+.+++..--.. ...+  +.+..               +....
T Consensus        19 vGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEiDaASn   98 (515)
T COG2812          19 VGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEIDAASN   98 (515)
T ss_pred             cccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccchhhhhhhc
Confidence            5777888888888887754 3567899999999999999887651110 1111  11111               11111


Q ss_pred             c---CccchhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEE-ecCChhhh-----------hccC
Q 038724           62 L---KLETSQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVF-TTHSEEVC-----------VDCF  121 (483)
Q Consensus        62 ~---~~~~~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-TtR~~~~~-----------l~~L  121 (483)
                      .   +.+++.+++   -..++.-+.|+|.|+-.  ..+..+...+-........|+ ||-...+.           ++.+
T Consensus        99 ~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRcq~f~fkri  178 (515)
T COG2812          99 TGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRL  178 (515)
T ss_pred             cChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhccccccccCC
Confidence            1   223333333   46678889999999744  557777777754444454444 44444333           8889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      +.++....+...+..+..   .-.++....|++...|...-.
T Consensus       179 ~~~~I~~~L~~i~~~E~I---~~e~~aL~~ia~~a~Gs~RDa  217 (515)
T COG2812         179 DLEEIAKHLAAILDKEGI---NIEEDALSLIARAAEGSLRDA  217 (515)
T ss_pred             CHHHHHHHHHHHHHhcCC---ccCHHHHHHHHHHcCCChhhH
Confidence            999988888888876653   233455677777777755433

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.46  E-value=8.3e-06  Score=72.47  Aligned_cols=103  Identities=25%  Similarity=0.221  Sum_probs=67.5

Q ss_pred             CCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCc--cccCCcCCCEE
Q 038724          317 CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPE--ELKALEKLKYL  394 (483)
Q Consensus       317 ~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~--~~~~l~~L~~L  394 (483)
                      +.+.+.|+..++.+.++.-  ...|+.|++|.|+-|++..--  .+..+++|+.|.|+.|.|..+..  .+.++++|+.|
T Consensus        18 l~~vkKLNcwg~~L~DIsi--c~kMp~lEVLsLSvNkIssL~--pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISI--CEKMPLLEVLSLSVNKISSLA--PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HHHhhhhcccCCCccHHHH--HHhcccceeEEeeccccccch--hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhH
Confidence            4566677777777666543  567788888888888643332  36777778888888887777653  26778888888


Q ss_pred             ecCCCCCcCC-CCCCCCccchhhHhhhccccccccce
Q 038724          395 DMDDHQQVME-EGNCQSDDAESLLKEMLCLEQLNIIR  430 (483)
Q Consensus       395 ~l~~n~~~~~-p~~~~l~~~~~~~~~l~~l~~L~~L~  430 (483)
                      .|..|.-... +.       .-...-+..|++|++|+
T Consensus        94 WL~ENPCc~~ag~-------nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   94 WLDENPCCGEAGQ-------NYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hhccCCcccccch-------hHHHHHHHHcccchhcc
Confidence            8888764433 11       22233456677777776

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.46  E-value=0.001  Score=62.69  Aligned_cols=133  Identities=14%  Similarity=0.090  Sum_probs=75.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC---------cCccchhHHh----hhcCCcEEEEEcC
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE---------LKLETSQDDM----ILSTKKFLLLLDD   84 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~---------~~~~~~~~~i----~l~~~~~LlvlDd   84 (483)
                      .++.++|+|++|+|||.+|+++++..   .-.|   +-++.++-         ..++++....    ..++++++|+||+
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~el---g~~~---i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDE  220 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKM---GIEP---IVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFIND  220 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHc---CCCe---EEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEeh
Confidence            56789999999999999999999987   2222   22322211         1122333222    2468999999999


Q ss_pred             CCCcc------c--c------ccccCC--------CC------CCCCCCEEEEecCChhhh-------------hccCCh
Q 038724           85 LWETI------D--L------SKIGVP--------LP------SQKIVSKVVFTTHSEEVC-------------VDCFTP  123 (483)
Q Consensus        85 v~~~~------~--~------~~l~~~--------~~------~~~~gs~ilvTtR~~~~~-------------l~~L~~  123 (483)
                      ++...      +  .      ..+...        ++      ....+..||+||-.....             +..-+.
T Consensus       221 IDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~i~lPd~  300 (413)
T PLN00020        221 LDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTR  300 (413)
T ss_pred             hhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCceeCCCCH
Confidence            96331      0  0      111110        11      123456778888666543             323455


Q ss_pred             HHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH
Q 038724          124 QESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       124 ~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  161 (483)
                      ++-.+++..+......     ......++++...|-|+
T Consensus       301 e~R~eIL~~~~r~~~l-----~~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        301 EDRIGVVHGIFRDDGV-----SREDVVKLVDTFPGQPL  333 (413)
T ss_pred             HHHHHHHHHHhccCCC-----CHHHHHHHHHcCCCCCc
Confidence            6666666665544331     12445566666666654

>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=97.45  E-value=0.00016  Score=59.93  Aligned_cols=61  Identities=25%  Similarity=0.296  Sum_probs=42.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------------hhcCCcEEEEEcCCC
Q 038724           22 IGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------------ILSTKKFLLLLDDLW   86 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------------~l~~~~~LlvlDdv~   86 (483)
                      |.++|++|+|||+||+.+++..   .   ....-+.++...+..++....               .--.+..++|||+++
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~---~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin   75 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---G---RPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEIN   75 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---T---CEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCG
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---h---cceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcc
Confidence            7899999999999999999877   1   123445666666655555444               111378899999997


Q ss_pred             Cc
Q 038724           87 ET   88 (483)
Q Consensus        87 ~~   88 (483)
                      ..
T Consensus        76 ~a   77 (139)
T PF07728_consen   76 RA   77 (139)
T ss_dssp             G-
T ss_pred             cC
Confidence            43

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.44  E-value=0.0039  Score=59.38  Aligned_cols=81  Identities=11%  Similarity=0.055  Sum_probs=51.9

Q ss_pred             hcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhh-h-----------hccCChHHHHHHHHHHhcCCc
Q 038724           73 LSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEV-C-----------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        73 l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~-~-----------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      ..+++-++|+|+++...  ....+...+-+..+++.+|++|.+... .           +.+++.++..+.+....   .
T Consensus       129 ~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~---~  205 (342)
T PRK06964        129 HRGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG---V  205 (342)
T ss_pred             ccCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC---C
Confidence            44667788899998663  355565566555556666655554433 2           88899999988886641   1


Q ss_pred             ccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                          ..    .+.++..++|.|....
T Consensus       206 ----~~----~~~~l~~~~Gsp~~Al  223 (342)
T PRK06964        206 ----AD----ADALLAEAGGAPLAAL  223 (342)
T ss_pred             ----Ch----HHHHHHHcCCCHHHHH
Confidence                11    2345778899997543

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.43  E-value=0.0012  Score=57.81  Aligned_cols=79  Identities=20%  Similarity=0.218  Sum_probs=56.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEcCCCC---ccccccc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWE---TIDLSKI   94 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDdv~~---~~~~~~l   94 (483)
                      ...-|.++|..|.|||.|++++.+.+   ....--.+=|+-.+-.++..+...+.....++.|+.||..=   .+.+..+
T Consensus        84 pANnVLLwGaRGtGKSSLVKA~~~e~---~~~glrLVEV~k~dl~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~L  160 (287)
T COG2607          84 PANNVLLWGARGTGKSSLVKALLNEY---ADEGLRLVEVDKEDLATLPDLVELLRARPEKFILFCDDLSFEEGDDAYKAL  160 (287)
T ss_pred             cccceEEecCCCCChHHHHHHHHHHH---HhcCCeEEEEcHHHHhhHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHH
Confidence            45679999999999999999999987   22222233333334467888888889999999999999952   2335555


Q ss_pred             cCCCC
Q 038724           95 GVPLP   99 (483)
Q Consensus        95 ~~~~~   99 (483)
                      +..+.
T Consensus       161 Ks~Le  165 (287)
T COG2607         161 KSALE  165 (287)
T ss_pred             HHHhc
Confidence            55443

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.43  E-value=0.00034  Score=69.93  Aligned_cols=133  Identities=18%  Similarity=0.174  Sum_probs=71.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC--------C-cCccchhHHhhhcCCcEEEEEcCCCCcc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK--------E-LKLETSQDDMILSTKKFLLLLDDLWETI   89 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~--------~-~~~~~~~~~i~l~~~~~LlvlDdv~~~~   89 (483)
                      .+-|.++|++|+|||.+|+++++..   ...|   +-+..+.        . ..++++.. ..-...+++|++|+++...
T Consensus       259 pkGILL~GPpGTGKTllAkaiA~e~---~~~~---~~l~~~~l~~~~vGese~~l~~~f~-~A~~~~P~IL~IDEID~~~  331 (489)
T CHL00195        259 PRGLLLVGIQGTGKSLTAKAIANDW---QLPL---LRLDVGKLFGGIVGESESRMRQMIR-IAEALSPCILWIDEIDKAF  331 (489)
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEEhHHhcccccChHHHHHHHHHH-HHHhcCCcEEEehhhhhhh
Confidence            4568999999999999999999976   2222   1122111        0 11112211 1345689999999997431


Q ss_pred             c--------------cccccCCCCCCCCCCEEEEecCChhhh---------------hccCChHHHHHHHHHHhcCCccc
Q 038724           90 D--------------LSKIGVPLPSQKIVSKVVFTTHSEEVC---------------VDCFTPQESWQVFQMKVGNETLV  140 (483)
Q Consensus        90 ~--------------~~~l~~~~~~~~~gs~ilvTtR~~~~~---------------l~~L~~~~a~~l~~~~~~~~~~~  140 (483)
                      .              +..+...+.....+.-||.||......               ++..+.++-.++|..+.......
T Consensus       332 ~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~  411 (489)
T CHL00195        332 SNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPK  411 (489)
T ss_pred             ccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCC
Confidence            1              001111111222334455566544321               55567777788887776443211


Q ss_pred             CCCCchhHHHHHHhHcCCch
Q 038724          141 SHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       141 ~~~~~~~~~~~i~~~c~g~P  160 (483)
                      .  ......+.+++.+.|.-
T Consensus       412 ~--~~~~dl~~La~~T~GfS  429 (489)
T CHL00195        412 S--WKKYDIKKLSKLSNKFS  429 (489)
T ss_pred             c--ccccCHHHHHhhcCCCC
Confidence            0  11223556666666544

>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=97.42  E-value=0.0004  Score=62.19  Aligned_cols=35  Identities=29%  Similarity=0.502  Sum_probs=29.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEe
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVV   58 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~   58 (483)
                      .++|.|.+|.||||++..+....   ...|..+++++-
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            67899999999999999999877   667887777743

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.40  E-value=0.00038  Score=75.26  Aligned_cols=43  Identities=21%  Similarity=0.342  Sum_probs=35.8

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.+..++.+.+.+...         ...++.++|++|+|||++|+.+++..
T Consensus       568 ~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       568 VGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             CCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            58888899888888642         13578899999999999999999876

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

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

Probab=97.39  E-value=0.0001  Score=65.37  Aligned_cols=59  Identities=39%  Similarity=0.495  Sum_probs=27.6

Q ss_pred             ccceEEEEccccccccccCCCCCCcccEEEecCCc--cccccchhhhcCCCccEEEccCCc
Q 038724          295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNY--LQDIKNGFFQFMPCLKVLNLSYNR  353 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~--~~~~~~~~~~~l~~L~~L~l~~n~  353 (483)
                      +..++.+++.+..++.+...+.+++|+.|.+|.|.  +..-.+.....+++|++|++++|+
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nk  102 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNK  102 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCc
Confidence            33444555555555555444555555555555552  221111112333555555555554

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.38  E-value=0.00055  Score=65.74  Aligned_cols=114  Identities=13%  Similarity=0.158  Sum_probs=73.1

Q ss_pred             CCChhHHHHHHHHHhc-CCeEE-EEEEcCCCCcHHHHHHHHHhhcccCCC------------------CCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVK-KDVGI-IGLFGTGGVGKTTILKQINNRFCSERP------------------GFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-~~~~~-v~i~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~~v~~~~   60 (483)
                      +|-+..+.++..+... ++.+. +.++|++|+||||+|.++++.......                  ..+.+..+..++
T Consensus         4 ~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~   83 (325)
T COG0470           4 VPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSD   83 (325)
T ss_pred             ccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccc
Confidence            3556777788888874 44455 999999999999999999988731110                  113355566665


Q ss_pred             CcCc---cchhHHh-------hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCCh
Q 038724           61 ELKL---ETSQDDM-------ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSE  114 (483)
Q Consensus        61 ~~~~---~~~~~~i-------~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~  114 (483)
                      ....   .+..+++       ...++.-++++|+++....  ...+...+......+.++++|...
T Consensus        84 ~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~  149 (325)
T COG0470          84 LRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDP  149 (325)
T ss_pred             cCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCCh
Confidence            5553   2333333       2337888999999986633  344444444445567777777644

>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=97.37  E-value=0.00014  Score=58.55  Aligned_cols=23  Identities=35%  Similarity=0.634  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|++|+||||+|+.++++.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999976

...

>PRK06696 uridine kinase; Validated

Probab=97.37  E-value=0.00025  Score=63.90  Aligned_cols=42  Identities=12%  Similarity=0.182  Sum_probs=36.5

Q ss_pred             CChhHHHHHHHHHhc---CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            2 ENPKQFYQVWRFLVK---KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         2 gr~~~~~~l~~~l~~---~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|++.+++|.+.+..   +...+|+|.|.+|.||||+|+++++..
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            478888999888863   467799999999999999999999876

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

Probab=97.37  E-value=1.4e-05  Score=71.87  Aligned_cols=146  Identities=19%  Similarity=0.235  Sum_probs=71.3

Q ss_pred             ccceEEEEccccccccccC--CCCCCcccEEEecCC-ccccc-cchhhhcCCCccEEEccCCccCccCCc-cccc-CcCC
Q 038724          295 WLGLRRMSLMNNQIKTLLN--TPSCPHLLTLFLNDN-YLQDI-KNGFFQFMPCLKVLNLSYNRFLTKLPS-GISK-LVSL  368 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~--~~~~~~L~~L~l~~n-~~~~~-~~~~~~~l~~L~~L~l~~n~~~~~~p~-~~~~-l~~L  368 (483)
                      .++|+.+++.++++.+-..  .+.-.+|+.|+++.+ +++.. ..-.+.+++.|..|+++.|......-. .+.. -.+|
T Consensus       209 C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~hise~l  288 (419)
T KOG2120|consen  209 CSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVAHISETL  288 (419)
T ss_pred             HHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHhhhchhh
Confidence            4445555555555443211  123345666666654 23321 122345556666666666632211100 0000 1335


Q ss_pred             CEEeccCCC----CCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccC------ccc
Q 038724          369 QHLDISFTS----TLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS------LCS  438 (483)
Q Consensus       369 ~~L~l~~~~----i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~------l~~  438 (483)
                      ..|+++|+.    ...+..-...+++|.+|||++|..+          ......++..++.|++|.++.|.      +-.
T Consensus       289 ~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l----------~~~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~  358 (419)
T KOG2120|consen  289 TQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVML----------KNDCFQEFFKFNYLQHLSLSRCYDIIPETLLE  358 (419)
T ss_pred             hhhhhhhhHhhhhhhHHHHHHHhCCceeeecccccccc----------CchHHHHHHhcchheeeehhhhcCCChHHeee
Confidence            555555543    1222111356677777777776543          23455566667777777777764      234


Q ss_pred             cCCCCCcccccc
Q 038724          439 LCGLPTVQCLTS  450 (483)
Q Consensus       439 l~~l~~l~~l~l  450 (483)
                      +...|.|..|+.
T Consensus       359 l~s~psl~yLdv  370 (419)
T KOG2120|consen  359 LNSKPSLVYLDV  370 (419)
T ss_pred             eccCcceEEEEe
Confidence            555566655554

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.36  E-value=0.00043  Score=69.95  Aligned_cols=81  Identities=22%  Similarity=0.252  Sum_probs=54.8

Q ss_pred             CChhHHHHHHHHHhc------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccch--------
Q 038724            2 ENPKQFYQVWRFLVK------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETS--------   67 (483)
Q Consensus         2 gr~~~~~~l~~~l~~------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~--------   67 (483)
                      |.++.-++|.+.|.-      -.-++++++||+|+|||.|++.+++..   ...|   +-+++++-.|..++        
T Consensus       327 GLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~Rkf---vR~sLGGvrDEAEIRGHRRTYI  400 (782)
T COG0466         327 GLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKF---VRISLGGVRDEAEIRGHRRTYI  400 (782)
T ss_pred             CchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCE---EEEecCccccHHHhcccccccc
Confidence            567777888887742      234699999999999999999999977   3343   22445544444332        


Q ss_pred             -------hHHh-hhcCCcEEEEEcCCCCc
Q 038724           68 -------QDDM-ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        68 -------~~~i-~l~~~~~LlvlDdv~~~   88 (483)
                             .+.| ....+.=+++||.++..
T Consensus       401 GamPGrIiQ~mkka~~~NPv~LLDEIDKm  429 (782)
T COG0466         401 GAMPGKIIQGMKKAGVKNPVFLLDEIDKM  429 (782)
T ss_pred             ccCChHHHHHHHHhCCcCCeEEeechhhc
Confidence                   2233 34445568889999755

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.34  E-value=0.0081  Score=53.46  Aligned_cols=158  Identities=14%  Similarity=0.202  Sum_probs=87.6

Q ss_pred             HHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh--------------
Q 038724            6 QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM--------------   71 (483)
Q Consensus         6 ~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i--------------   71 (483)
                      .+..+...+.+ +.+++.++|.-|.|||+++++..... .  +.--+++.+. .+......+...+              
T Consensus        39 ~l~~l~~~i~d-~qg~~~vtGevGsGKTv~~Ral~~s~-~--~d~~~~v~i~-~~~~s~~~~~~ai~~~l~~~p~~~~~~  113 (269)
T COG3267          39 ALLMLHAAIAD-GQGILAVTGEVGSGKTVLRRALLASL-N--EDQVAVVVID-KPTLSDATLLEAIVADLESQPKVNVNA  113 (269)
T ss_pred             HHHHHHHHHhc-CCceEEEEecCCCchhHHHHHHHHhc-C--CCceEEEEec-CcchhHHHHHHHHHHHhccCccchhHH
Confidence            34444444443 34699999999999999999766655 1  1111222221 1111122222211              


Q ss_pred             ------------hhcCCc-EEEEEcCCCCcc--ccccc--cCCCC-CCC-CCCEEEEec---CC----hhh---------
Q 038724           72 ------------ILSTKK-FLLLLDDLWETI--DLSKI--GVPLP-SQK-IVSKVVFTT---HS----EEV---------  116 (483)
Q Consensus        72 ------------~l~~~~-~LlvlDdv~~~~--~~~~l--~~~~~-~~~-~gs~ilvTt---R~----~~~---------  116 (483)
                                  ..+++| ..+++|++....  ..+.+  ...+- +.. .-+++++--   +.    ...         
T Consensus       114 ~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~i  193 (269)
T COG3267         114 VLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDI  193 (269)
T ss_pred             HHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEE
Confidence                        455666 999999986542  22222  11111 111 112333311   11    111         


Q ss_pred             --hhccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHH
Q 038724          117 --CVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGR  168 (483)
Q Consensus       117 --~l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~  168 (483)
                        .+.|++.++...++............--..+....|.....|.|.++..++.
T Consensus       194 r~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         194 RIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             EEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence              0889999988888887775443222223356677899999999999987763

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.33  E-value=6.9e-05  Score=61.95  Aligned_cols=105  Identities=12%  Similarity=0.162  Sum_probs=61.4

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcE
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKF   78 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~   78 (483)
                      ||+-..++++.+.+..  .....|.|+|..|+||+++|+.+++........|..+   ..... .     .++.-+.+.-
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~~-~-----~~~l~~a~~g   71 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCASL-P-----AELLEQAKGG   71 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHCT-C-----HHHHHHCTTS
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhhC-c-----HHHHHHcCCC
Confidence            6888888988888875  3446789999999999999999988662222223211   11111 1     2222223666


Q ss_pred             EEEEcCCCCccc--cccccCCCC-CCCCCCEEEEecCCh
Q 038724           79 LLLLDDLWETID--LSKIGVPLP-SQKIVSKVVFTTHSE  114 (483)
Q Consensus        79 LlvlDdv~~~~~--~~~l~~~~~-~~~~gs~ilvTtR~~  114 (483)
                      -++|+|++....  ...+...+. ......|+|+||+..
T Consensus        72 tL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   72 TLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             EEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             EEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence            678999976532  222322222 114568999998865

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.32  E-value=0.0016  Score=58.33  Aligned_cols=206  Identities=12%  Similarity=0.095  Sum_probs=116.4

Q ss_pred             CChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccC---CCCCCEEEEEEeCCC-----------------
Q 038724            2 ENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSE---RPGFDVVIWVVVSKE-----------------   61 (483)
Q Consensus         2 gr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~~v~~~~~-----------------   61 (483)
                      ++++.-.++......++.+...++|++|.||-|.+..+.++...+   +-.-+..-|.+.+..                 
T Consensus        17 ~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlEitP   96 (351)
T KOG2035|consen   17 YHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLEITP   96 (351)
T ss_pred             cHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEEeCh
Confidence            455666666666666778899999999999999998887776210   111233334432221                 


Q ss_pred             ----cCcc----chhHHh------hhc-CCcE-EEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCC--hhhh----
Q 038724           62 ----LKLE----TSQDDM------ILS-TKKF-LLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHS--EEVC----  117 (483)
Q Consensus        62 ----~~~~----~~~~~i------~l~-~~~~-LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~--~~~~----  117 (483)
                          ...+    +++.++      ..+ .+.| ++|+-.+++.  +...++........+.+|+|+..-+  +.+.    
T Consensus        97 SDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cns~SriIepIrS  176 (351)
T KOG2035|consen   97 SDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNSTSRIIEPIRS  176 (351)
T ss_pred             hhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEecCcccchhHHhh
Confidence                0112    222222      222 3344 5566666533  2223333333333445777764322  2222    


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCC----------CCHHHHHH
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYK----------KTPEEWKD  181 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~----------~~~~~w~~  181 (483)
                            +...+++|....+....-.++.   .-..+.+++|+++++|+-.-.-.+-..++-+          -+.-+|+-
T Consensus       177 RCl~iRvpaps~eeI~~vl~~v~~kE~l---~lp~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a~~~~i~~~dWe~  253 (351)
T KOG2035|consen  177 RCLFIRVPAPSDEEITSVLSKVLKKEGL---QLPKELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTANSQVIPKPDWEI  253 (351)
T ss_pred             heeEEeCCCCCHHHHHHHHHHHHHHhcc---cCcHHHHHHHHHHhcccHHHHHHHHHHHHhccccccccCCCCCCccHHH
Confidence                  7889999999999998877663   2236789999999988653333333222211          24568998


Q ss_pred             HHHHHHhcccCCCChHHHHHhhhcccCCC
Q 038724          182 AIEILMRSALQFPGINKVYYRLKFSFDRL  210 (483)
Q Consensus       182 ~~~~l~~~~~~~~~~~~~~~~l~~s~~~L  210 (483)
                      +................+..+-..=|+-|
T Consensus       254 ~i~e~a~~i~~eQs~~~L~~vR~~LYeLL  282 (351)
T KOG2035|consen  254 YIQEIARVILKEQSPAKLLEVRGRLYELL  282 (351)
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHHHH
Confidence            88877666544444444444443334333

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.32  E-value=0.00037  Score=67.74  Aligned_cols=77  Identities=16%  Similarity=0.278  Sum_probs=52.4

Q ss_pred             hHHHHHHHHHhcC--------C-eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-------ccchh
Q 038724            5 KQFYQVWRFLVKK--------D-VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-------LETSQ   68 (483)
Q Consensus         5 ~~~~~l~~~l~~~--------~-~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-------~~~~~   68 (483)
                      .++++|++.|.+.        . ++=|.++|++|.|||-||++++-.. .  -.|    |...+..|+       .+++.
T Consensus       314 ~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA-~--VPF----F~~sGSEFdEm~VGvGArRVR  386 (752)
T KOG0734|consen  314 QELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA-G--VPF----FYASGSEFDEMFVGVGARRVR  386 (752)
T ss_pred             HHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc-C--CCe----EeccccchhhhhhcccHHHHH
Confidence            4678888888763        2 3458999999999999999998876 2  222    223333333       22222


Q ss_pred             HHh--hhcCCcEEEEEcCCCCc
Q 038724           69 DDM--ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        69 ~~i--~l~~~~~LlvlDdv~~~   88 (483)
                      .-+  +-+..+|.|+||.++..
T Consensus       387 dLF~aAk~~APcIIFIDEiDav  408 (752)
T KOG0734|consen  387 DLFAAAKARAPCIIFIDEIDAV  408 (752)
T ss_pred             HHHHHHHhcCCeEEEEechhhh
Confidence            222  66788999999999744

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.32  E-value=0.0007  Score=65.26  Aligned_cols=115  Identities=15%  Similarity=0.141  Sum_probs=67.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCC--EEEEEEeCCCcCccchhHHh--------hhcCCcEEEEEcCCCCc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFD--VVIWVVVSKELKLETSQDDM--------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~--~~~~v~~~~~~~~~~~~~~i--------~l~~~~~LlvlDdv~~~   88 (483)
                      ...+.|+|..|.|||-|++++.+..   .....  .+++++...  -..++...+        +-.-.-=++++||++-.
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~~se~--f~~~~v~a~~~~~~~~Fk~~y~~dlllIDDiq~l  187 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYLTSED--FTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQFL  187 (408)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEeccHHH--HHHHHHHHHHhhhHHHHHHhhccCeeeechHhHh
Confidence            5689999999999999999999987   33333  344443221  111111111        11113348889999643


Q ss_pred             cc----cccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHHHHhcCCc
Q 038724           89 ID----LSKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        89 ~~----~~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      ..    -+.+...+.. ...|..|++|++...-.                   +.+.+.+...+++.+.+....
T Consensus       188 ~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~  261 (408)
T COG0593         188 AGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRG  261 (408)
T ss_pred             cCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcC
Confidence            22    1122222221 12344788888655333                   778888888888888665443

>PRK04132 replication factor C small subunit; Provisional

Probab=97.31  E-value=0.0025  Score=67.57  Aligned_cols=136  Identities=8%  Similarity=0.005  Sum_probs=87.0

Q ss_pred             Ec--CCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---h----hcC-CcEEEEEcCCCCcc--ccc
Q 038724           25 FG--TGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---I----LST-KKFLLLLDDLWETI--DLS   92 (483)
Q Consensus        25 ~G--~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---~----l~~-~~~LlvlDdv~~~~--~~~   92 (483)
                      .|  |.++||||+|.+++++.. ..+.-...+-+++++......+.+.+   .    ..+ +..++|+|+++...  ...
T Consensus       570 ~G~lPh~lGKTT~A~ala~~l~-g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~~AQn  648 (846)
T PRK04132        570 GGNLPTVLHNTTAALALARELF-GENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQ  648 (846)
T ss_pred             cCCCCCcccHHHHHHHHHHhhh-cccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCHHHHH
Confidence            36  779999999999999862 11111235667777765555444443   1    112 45799999998764  455


Q ss_pred             cccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724           93 KIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus        93 ~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      .+...+......+++|++|.+..-.            +.+++.++....+...+..+..   .-..+..+.|++.++|.+
T Consensus       649 ALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi---~i~~e~L~~Ia~~s~GDl  725 (846)
T PRK04132        649 ALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL---ELTEEGLQAILYIAEGDM  725 (846)
T ss_pred             HHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCH
Confidence            5555554444456666665544332            8889988888887776644331   122557889999999988


Q ss_pred             HHHH
Q 038724          161 LALT  164 (483)
Q Consensus       161 lal~  164 (483)
                      ....
T Consensus       726 R~AI  729 (846)
T PRK04132        726 RRAI  729 (846)
T ss_pred             HHHH
Confidence            5443

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.31  E-value=0.0023  Score=65.27  Aligned_cols=42  Identities=19%  Similarity=0.257  Sum_probs=35.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ||.+..++.+...+.......|.|+|++|+|||++|+.+++.
T Consensus        68 iGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        68 IGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             eCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            578888888888877666667899999999999999999764

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK06921 hypothetical protein; Provisional

Probab=97.30  E-value=0.00038  Score=64.25  Aligned_cols=67  Identities=24%  Similarity=0.305  Sum_probs=41.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc-----cchhHHhhhcCCcEEEEEcCCC
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL-----ETSQDDMILSTKKFLLLLDDLW   86 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~-----~~~~~~i~l~~~~~LlvlDdv~   86 (483)
                      ....+.++|.+|+|||.||.++++.. . +.+...++|++...-...     ......+..-.+.=||||||+.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l-~-~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~~~dlLiIDDl~  187 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANEL-M-RKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVEVLFIDDLF  187 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH-h-hhcCceEEEEEHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEeccc
Confidence            34679999999999999999999987 2 221345677775432111     0001111112345689999993

>PRK09183 transposase/IS protein; Provisional

Probab=97.29  E-value=0.00019  Score=66.01  Aligned_cols=65  Identities=23%  Similarity=0.244  Sum_probs=38.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-------ccchhHHh-hhcCCcEEEEEcCCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-------LETSQDDM-ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-------~~~~~~~i-~l~~~~~LlvlDdv~~   87 (483)
                      ..+.|+|++|+|||+||.+++....  ... ..+.|++...-..       ...+...+ ......-++|+||+..
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~--~~G-~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiDdlg~  175 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAV--RAG-IKVRFTTAADLLLQLSTAQRQGRYKTTLQRGVMAPRLLIIDEIGY  175 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHH--HcC-CeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEccccc
Confidence            4688999999999999999987752  122 2344554321110       00011111 1123456999999964

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.29  E-value=0.0042  Score=59.05  Aligned_cols=113  Identities=12%  Similarity=0.103  Sum_probs=62.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccC--------------------CCCCCEEEEEEeCC----------CcCc---c
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSE--------------------RPGFDVVIWVVVSK----------ELKL---E   65 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~--------------------~~~f~~~~~v~~~~----------~~~~---~   65 (483)
                      ..-+.++|+.|+|||++|..+++..--.                    ..|.| ..++....          ...+   +
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD-~~~~~p~~~~~~~g~~~~~I~id~iR   99 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPD-FYEITPLSDEPENGRKLLQIKIDAVR   99 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCC-EEEEecccccccccccCCCcCHHHHH
Confidence            4568899999999999999998775210                    01223 23333211          1122   2


Q ss_pred             chhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHH
Q 038724           66 TSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQ  128 (483)
Q Consensus        66 ~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~  128 (483)
                      ++...+   ...+++-++|+|+++..+  ....+...+.....+..+|++|.+....            +.+++.+++.+
T Consensus       100 ~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~  179 (325)
T PRK08699        100 EIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALA  179 (325)
T ss_pred             HHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHH
Confidence            322233   223455556678887553  2233333332222346566676665432            78888888887


Q ss_pred             HHHH
Q 038724          129 VFQM  132 (483)
Q Consensus       129 l~~~  132 (483)
                      .+..
T Consensus       180 ~L~~  183 (325)
T PRK08699        180 YLRE  183 (325)
T ss_pred             HHHh
Confidence            7754

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.29  E-value=0.00091  Score=59.22  Aligned_cols=141  Identities=13%  Similarity=0.179  Sum_probs=79.7

Q ss_pred             HHHHHhcC------CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC-----cCccchhHHh---hhcC
Q 038724           10 VWRFLVKK------DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE-----LKLETSQDDM---ILST   75 (483)
Q Consensus        10 l~~~l~~~------~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~-----~~~~~~~~~i---~l~~   75 (483)
                      |.+.|.+.      .++-|.++|++|.|||-+|+++++..   +..|   +.|...+-     .+-.+-.+++   +-+.
T Consensus       136 i~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~---kvp~---l~vkat~liGehVGdgar~Ihely~rA~~~  209 (368)
T COG1223         136 IMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA---KVPL---LLVKATELIGEHVGDGARRIHELYERARKA  209 (368)
T ss_pred             HHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc---CCce---EEechHHHHHHHhhhHHHHHHHHHHHHHhc
Confidence            44555542      47889999999999999999999977   3333   22211100     0111111112   6677


Q ss_pred             CcEEEEEcCCCCc--------------cccccccCCCCC--CCCCCEEEEecCChhhh-------------hccCChHHH
Q 038724           76 KKFLLLLDDLWET--------------IDLSKIGVPLPS--QKIVSKVVFTTHSEEVC-------------VDCFTPQES  126 (483)
Q Consensus        76 ~~~LlvlDdv~~~--------------~~~~~l~~~~~~--~~~gs~ilvTtR~~~~~-------------l~~L~~~~a  126 (483)
                      .+|.+++|.++..              +.+.+++..+..  .+.|..-|..|-.....             ..--++++-
T Consensus       210 aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr  289 (368)
T COG1223         210 APCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRFEEEIEFKLPNDEER  289 (368)
T ss_pred             CCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHhhhhheeeeeCCChHHH
Confidence            8999999998633              112333333322  23455555555555443             334567777


Q ss_pred             HHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          127 WQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       127 ~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      .+++..++..-..    ......+.++++.+|+-
T Consensus       290 ~~ile~y~k~~Pl----pv~~~~~~~~~~t~g~S  319 (368)
T COG1223         290 LEILEYYAKKFPL----PVDADLRYLAAKTKGMS  319 (368)
T ss_pred             HHHHHHHHHhCCC----ccccCHHHHHHHhCCCC
Confidence            7777777643331    12222566666666643

>PRK06526 transposase; Provisional

Probab=97.27  E-value=6.6e-05  Score=68.63  Aligned_cols=25  Identities=24%  Similarity=0.315  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+.|+|++|+|||+||.+++...
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHH
Confidence            3578999999999999999998876

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.27  E-value=0.0014  Score=69.99  Aligned_cols=81  Identities=15%  Similarity=0.149  Sum_probs=50.5

Q ss_pred             CCChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC----Cc-
Q 038724            1 IENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK----EL-   62 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~----~~-   62 (483)
                      +|.++.++++.+.+.-             ...+-+.++|++|+|||++|+++++..   ...|   +.+..+.    .. 
T Consensus       181 ~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~---~~~~---i~i~~~~i~~~~~g  254 (733)
T TIGR01243       181 GGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA---GAYF---ISINGPEIMSKYYG  254 (733)
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh---CCeE---EEEecHHHhccccc
Confidence            3778888888777642             234578999999999999999999876   2222   2222111    00 


Q ss_pred             CccchhHHh---hhcCCcEEEEEcCCCC
Q 038724           63 KLETSQDDM---ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        63 ~~~~~~~~i---~l~~~~~LlvlDdv~~   87 (483)
                      ....-...+   .....+.+|+||+++.
T Consensus       255 ~~~~~l~~lf~~a~~~~p~il~iDEid~  282 (733)
T TIGR01243       255 ESEERLREIFKEAEENAPSIIFIDEIDA  282 (733)
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence            001111111   4456778999999864

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.26  E-value=0.0015  Score=69.75  Aligned_cols=132  Identities=15%  Similarity=0.183  Sum_probs=70.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC----CcC-ccchhHHh---hhcCCcEEEEEcCCCCccc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK----ELK-LETSQDDM---ILSTKKFLLLLDDLWETID   90 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~----~~~-~~~~~~~i---~l~~~~~LlvlDdv~~~~~   90 (483)
                      .+-+.++|++|+|||++|+++++..   ...|   +.+..+.    ... ......++   +-+..+++|++|+++....
T Consensus       487 ~~giLL~GppGtGKT~lakalA~e~---~~~f---i~v~~~~l~~~~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~  560 (733)
T TIGR01243       487 PKGVLLFGPPGTGKTLLAKAVATES---GANF---IAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAP  560 (733)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhc---CCCE---EEEehHHHhhcccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhc
Confidence            4458899999999999999999976   2232   2222111    010 11112222   4456789999999964310


Q ss_pred             --------------cccccCCCCC--CCCCCEEEEecCChhhh---------------hccCChHHHHHHHHHHhcCCcc
Q 038724           91 --------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC---------------VDCFTPQESWQVFQMKVGNETL  139 (483)
Q Consensus        91 --------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~---------------l~~L~~~~a~~l~~~~~~~~~~  139 (483)
                                    ...+...+..  ...+..||.||......               +...+.++-.++|..+......
T Consensus       561 ~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~  640 (733)
T TIGR01243       561 ARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPL  640 (733)
T ss_pred             cCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCC
Confidence                          1112222221  12234455566444332               4556677777777665543321


Q ss_pred             cCCCCchhHHHHHHhHcCCch
Q 038724          140 VSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       140 ~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      ..    ....+.+++.+.|.-
T Consensus       641 ~~----~~~l~~la~~t~g~s  657 (733)
T TIGR01243       641 AE----DVDLEELAEMTEGYT  657 (733)
T ss_pred             Cc----cCCHHHHHHHcCCCC
Confidence            11    112566777777654

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.26  E-value=0.0008  Score=60.93  Aligned_cols=77  Identities=19%  Similarity=0.267  Sum_probs=46.5

Q ss_pred             HHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc------------CccchhHHh
Q 038724            6 QFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL------------KLETSQDDM   71 (483)
Q Consensus         6 ~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~------------~~~~~~~~i   71 (483)
                      .+..+.+...+  .+...+.++|.+|+|||+||.++++...   .....++++++++-.            ...++.+. 
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~---~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~-  159 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELL---LRGKSVLIITVADIMSAMKDTFSNSETSEEQLLND-  159 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHH-
Confidence            34444444443  2235789999999999999999999872   223456677653311            11122222 


Q ss_pred             hhcCCcEEEEEcCCCCc
Q 038724           72 ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ~l~~~~~LlvlDdv~~~   88 (483)
                       +. +.=+|||||+...
T Consensus       160 -l~-~~dlLvIDDig~~  174 (244)
T PRK07952        160 -LS-NVDLLVIDEIGVQ  174 (244)
T ss_pred             -hc-cCCEEEEeCCCCC
Confidence             22 3448888999654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.25  E-value=0.00071  Score=72.95  Aligned_cols=43  Identities=23%  Similarity=0.345  Sum_probs=33.9

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|-++.++.|.+++...         ....+.++|+.|+|||+||+.+++..
T Consensus       512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            57778888888877531         13467789999999999999999876

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

Probab=97.24  E-value=0.0033  Score=63.06  Aligned_cols=118  Identities=15%  Similarity=0.175  Sum_probs=66.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEE-------EEEEeCCCcCccchhHHhhhcCCcEEEEEcCCCCccc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVV-------IWVVVSKELKLETSQDDMILSTKKFLLLLDDLWETID   90 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~-------~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDdv~~~~~   90 (483)
                      ..+=|.++|++|+|||++|+++++..   .-.|=.+       -||--|+ ..++++..+ +-+-.+++|+||.++....
T Consensus       467 ppkGVLlyGPPGC~KT~lAkalAne~---~~nFlsvkgpEL~sk~vGeSE-r~ir~iF~k-AR~~aP~IiFfDEiDsi~~  541 (693)
T KOG0730|consen  467 PPKGVLLYGPPGCGKTLLAKALANEA---GMNFLSVKGPELFSKYVGESE-RAIREVFRK-ARQVAPCIIFFDEIDALAG  541 (693)
T ss_pred             CCceEEEECCCCcchHHHHHHHhhhh---cCCeeeccCHHHHHHhcCchH-HHHHHHHHH-HhhcCCeEEehhhHHhHhh
Confidence            46779999999999999999999976   3344211       1221110 112222221 4556679999999964411


Q ss_pred             -------------cccccCCCCCCCCCCEEEE---ecCChhhh--------------hccCChHHHHHHHHHHhcCCccc
Q 038724           91 -------------LSKIGVPLPSQKIVSKVVF---TTHSEEVC--------------VDCFTPQESWQVFQMKVGNETLV  140 (483)
Q Consensus        91 -------------~~~l~~~~~~~~~gs~ilv---TtR~~~~~--------------l~~L~~~~a~~l~~~~~~~~~~~  140 (483)
                                   +..++..+........|+|   |-|...+-              ++.-+.+.-.++|+.++......
T Consensus       542 ~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~  621 (693)
T KOG0730|consen  542 SRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFS  621 (693)
T ss_pred             ccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCC
Confidence                         2222333333222223333   44443332              55556677788898888665533

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.20  E-value=0.00055  Score=68.96  Aligned_cols=81  Identities=22%  Similarity=0.265  Sum_probs=54.2

Q ss_pred             CChhHHHHHHHHHhc------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh----
Q 038724            2 ENPKQFYQVWRFLVK------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM----   71 (483)
Q Consensus         2 gr~~~~~~l~~~l~~------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i----   71 (483)
                      |.++.-++|.+.+.-      .+-++++++||+|||||.+|+.+++...  +.+|    -+++++-.+..++.-.-    
T Consensus       415 gm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALn--RkFf----RfSvGG~tDvAeIkGHRRTYV  488 (906)
T KOG2004|consen  415 GMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALN--RKFF----RFSVGGMTDVAEIKGHRRTYV  488 (906)
T ss_pred             chHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhC--CceE----EEeccccccHHhhcccceeee
Confidence            556667777777642      2457999999999999999999999872  3333    24555555554433221    


Q ss_pred             ------------hhcCCcEEEEEcCCCCc
Q 038724           72 ------------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ------------~l~~~~~LlvlDdv~~~   88 (483)
                                  ..+...=|+.||.|+..
T Consensus       489 GAMPGkiIq~LK~v~t~NPliLiDEvDKl  517 (906)
T KOG2004|consen  489 GAMPGKIIQCLKKVKTENPLILIDEVDKL  517 (906)
T ss_pred             ccCChHHHHHHHhhCCCCceEEeehhhhh
Confidence                        34445558889999754

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.00053  Score=71.04  Aligned_cols=85  Identities=19%  Similarity=0.311  Sum_probs=55.7

Q ss_pred             CCChhHHHHHHHHHhc---------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh
Q 038724            1 IENPKQFYQVWRFLVK---------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      ||-++.++.+.+++..         ....+..+.||.|||||.||++++...   .+.=+..+-++.|+--.-..+-+-|
T Consensus       494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~L---fg~e~aliR~DMSEy~EkHsVSrLI  570 (786)
T COG0542         494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL---FGDEQALIRIDMSEYMEKHSVSRLI  570 (786)
T ss_pred             eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHh---cCCCccceeechHHHHHHHHHHHHh
Confidence            5778888888888863         245678889999999999999999877   1111333444443322211222222


Q ss_pred             -----------------hhcCCcE-EEEEcCCCCc
Q 038724           72 -----------------ILSTKKF-LLLLDDLWET   88 (483)
Q Consensus        72 -----------------~l~~~~~-LlvlDdv~~~   88 (483)
                                       +.+.++| +|.||+|...
T Consensus       571 GaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKA  605 (786)
T COG0542         571 GAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKA  605 (786)
T ss_pred             CCCCCCceeccccchhHhhhcCCCeEEEechhhhc
Confidence                             6677877 8889999765

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.18  E-value=0.00079  Score=72.37  Aligned_cols=43  Identities=23%  Similarity=0.338  Sum_probs=34.3

Q ss_pred             CCChhHHHHHHHHHhc---------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK---------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|-++.++.+.+++..         ....++.++|++|+|||.+|+++++..
T Consensus       569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            5777888888888742         123478999999999999999998876

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK12377 putative replication protein; Provisional

Probab=97.17  E-value=0.00055  Score=62.14  Aligned_cols=66  Identities=26%  Similarity=0.200  Sum_probs=40.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc-------cchh-HHhhhcCCcEEEEEcCCCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL-------ETSQ-DDMILSTKKFLLLLDDLWE   87 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~-------~~~~-~~i~l~~~~~LlvlDdv~~   87 (483)
                      ...+.|+|++|+|||.||.++++...   .....+.++++.+-...       .... ..+..-.+.=||||||+..
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~  174 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGI  174 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCC
Confidence            35799999999999999999999882   23334577765421110       0000 0111113555899999943

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.16  E-value=0.0006  Score=61.58  Aligned_cols=133  Identities=15%  Similarity=0.128  Sum_probs=80.8

Q ss_pred             cccceEEEEccccccccccCC--CCCCcccEEEecCCccccc-cchhhhcCCCccEEEccCCccCccCC--ccc------
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDI-KNGFFQFMPCLKVLNLSYNRFLTKLP--SGI------  362 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~-~~~~~~~l~~L~~L~l~~n~~~~~~p--~~~------  362 (483)
                      .++.++.|+++.|.+......  ...++|++|.|.+..+... ..+++..+|.++.|.++.|+.-...-  ..+      
T Consensus        95 ~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~n~Dd~c~e~~s~~  174 (418)
T KOG2982|consen   95 QLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQLNLDDNCIEDWSTE  174 (418)
T ss_pred             cCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhhccccccccccchh
Confidence            567888899999887654332  3567888998888876643 23345667777788777774211000  000      


Q ss_pred             ---------------------ccCcCCCEEeccCCCCCccCcc--ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhh
Q 038724          363 ---------------------SKLVSLQHLDISFTSTLELPEE--LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKE  419 (483)
Q Consensus       363 ---------------------~~l~~L~~L~l~~~~i~~lp~~--~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~  419 (483)
                                           .-++|+..+-+..|++++....  ...++.+..|+|+.|++-          ++...++
T Consensus       175 v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~id----------swasvD~  244 (418)
T KOG2982|consen  175 VLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANNID----------SWASVDA  244 (418)
T ss_pred             hhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccCCCCCcchhhhhcccccc----------cHHHHHH
Confidence                                 1123444444444544444322  344455556666665543          5667778


Q ss_pred             hccccccccceeeccCc
Q 038724          420 MLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       420 l~~l~~L~~L~l~~~~l  436 (483)
                      +..+++|+-|+++++++
T Consensus       245 Ln~f~~l~dlRv~~~Pl  261 (418)
T KOG2982|consen  245 LNGFPQLVDLRVSENPL  261 (418)
T ss_pred             HcCCchhheeeccCCcc
Confidence            88888888888888886

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.16  E-value=0.00048  Score=65.24  Aligned_cols=43  Identities=14%  Similarity=0.284  Sum_probs=36.6

Q ss_pred             CCChhHHHHHHHHHhc------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.++.++++.+++..      ...++++++|++|.||||||+++++..
T Consensus        54 ~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       54 FGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             cCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4788888888888864      235789999999999999999999887

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.14  E-value=0.0023  Score=63.46  Aligned_cols=109  Identities=15%  Similarity=0.193  Sum_probs=65.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc--------CccchhHHh--hhcCCcEEEEEcCCCCc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL--------KLETSQDDM--ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~--------~~~~~~~~i--~l~~~~~LlvlDdv~~~   88 (483)
                      ..=|.++|++|+|||-||++|++..   .-.|     +++-++-        ..+.+..-+  +-...+|.|++|.++..
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEa---g~NF-----isVKGPELlNkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL  616 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEA---GANF-----ISVKGPELLNKYVGESERAVRQVFQRARASAPCVIFFDEIDAL  616 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhc---cCce-----EeecCHHHHHHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhc
Confidence            4458899999999999999999976   3343     3332211        111111111  66789999999999643


Q ss_pred             c-------------ccccccCCCCC--CCCCCEEEEecCChhhh---------------hccCChHHHHHHHHHHhc
Q 038724           89 I-------------DLSKIGVPLPS--QKIVSKVVFTTHSEEVC---------------VDCFTPQESWQVFQMKVG  135 (483)
Q Consensus        89 ~-------------~~~~l~~~~~~--~~~gs~ilvTtR~~~~~---------------l~~L~~~~a~~l~~~~~~  135 (483)
                      -             .+.+++..+..  ...|.-||..|-.+++.               ++.-+.+|-.++++...-
T Consensus       617 ~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  617 VPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITK  693 (802)
T ss_pred             CcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhc
Confidence            1             12333333332  23445555544443332               666677788888877765

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

Probab=97.13  E-value=0.00025  Score=62.96  Aligned_cols=108  Identities=29%  Similarity=0.237  Sum_probs=75.2

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCC--ccCccCCcccccCcCCCEEeccCCCCCccC--ccccCCcCC
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN--RFLTKLPSGISKLVSLQHLDISFTSTLELP--EELKALEKL  391 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n--~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp--~~~~~l~~L  391 (483)
                      .+..|+.|.+.+..++.+..  |..+++|+.|.++.|  +....++-....+++|++|++++|+|+.+.  ..+..+.+|
T Consensus        41 ~~~~le~ls~~n~gltt~~~--~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL  118 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTLTN--FPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENL  118 (260)
T ss_pred             cccchhhhhhhccceeeccc--CCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcch
Confidence            46677777777776666544  667889999999999  666666666667799999999999866431  125777888


Q ss_pred             CEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeec
Q 038724          392 KYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTS  433 (483)
Q Consensus       392 ~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~  433 (483)
                      ..|++.+|.....        ....-..+.-+++|..|+-..
T Consensus       119 ~~Ldl~n~~~~~l--------~dyre~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen  119 KSLDLFNCSVTNL--------DDYREKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             hhhhcccCCcccc--------ccHHHHHHHHhhhhccccccc
Confidence            9999999875433        122223355566777666433

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

Probab=97.12  E-value=0.00083  Score=61.39  Aligned_cols=49  Identities=29%  Similarity=0.487  Sum_probs=33.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCC-CEEEEEEeCCCc-CccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGF-DVVIWVVVSKEL-KLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f-~~~~~v~~~~~~-~~~~~~~~i   71 (483)
                      ..++|.|.+|+|||+|++.++++.   +.+| +.++++-+++.. ...++.+++
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~  120 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEM  120 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHH
Confidence            478999999999999999999987   3344 345555555433 244444444

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.

>PRK06547 hypothetical protein; Provisional

Probab=97.10  E-value=0.00079  Score=57.68  Aligned_cols=37  Identities=22%  Similarity=0.179  Sum_probs=30.7

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.+...+......+|+|.|++|.||||+|+.+++..
T Consensus         3 ~~~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          3 VALIAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3455566667778899999999999999999998865

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.09  E-value=0.0018  Score=68.95  Aligned_cols=43  Identities=23%  Similarity=0.340  Sum_probs=34.1

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|-++.++.+.+.+...         ...++.++|++|+|||++|+.+++..
T Consensus       457 ~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       457 FGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             eCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            46777788887777631         23467899999999999999999876

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=97.07  E-value=0.0017  Score=60.13  Aligned_cols=75  Identities=23%  Similarity=0.345  Sum_probs=47.8

Q ss_pred             HHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-------------hhcCC
Q 038724           10 VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-------------ILSTK   76 (483)
Q Consensus        10 l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-------------~l~~~   76 (483)
                      +.+.+...+ +.|.++|++|+|||++++...... . ...| ...-+..+...+...++.-+             ...++
T Consensus        25 ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l-~-~~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~k  100 (272)
T PF12775_consen   25 LLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSL-D-SDKY-LVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGK  100 (272)
T ss_dssp             HHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCS-T-TCCE-EEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSS
T ss_pred             HHHHHHHcC-CcEEEECCCCCchhHHHHhhhccC-C-cccc-ceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCc
Confidence            334444443 577999999999999999988765 1 1222 23445666555554444433             34578


Q ss_pred             cEEEEEcCCCCc
Q 038724           77 KFLLLLDDLWET   88 (483)
Q Consensus        77 ~~LlvlDdv~~~   88 (483)
                      ++++++||+.-+
T Consensus       101 ~lv~fiDDlN~p  112 (272)
T PF12775_consen  101 KLVLFIDDLNMP  112 (272)
T ss_dssp             EEEEEEETTT-S
T ss_pred             EEEEEecccCCC
Confidence            999999999543

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.06  E-value=3.7e-05  Score=68.48  Aligned_cols=98  Identities=21%  Similarity=0.137  Sum_probs=78.2

Q ss_pred             cCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhh
Q 038724          340 FMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKE  419 (483)
Q Consensus       340 ~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~  419 (483)
                      .+.+.+.|+..||.+.. + .-..+|+.|+.|.|+-|.|+++. .+..+++|+.|+|+.|.+.          +....+-
T Consensus        17 dl~~vkKLNcwg~~L~D-I-sic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN~I~----------sldEL~Y   83 (388)
T KOG2123|consen   17 DLENVKKLNCWGCGLDD-I-SICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKNCIE----------SLDELEY   83 (388)
T ss_pred             HHHHhhhhcccCCCccH-H-HHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhcccc----------cHHHHHH
Confidence            35667889999996433 2 23557899999999999999995 4889999999999999865          3456677


Q ss_pred             hccccccccceeeccCc----------cccCCCCCcccccc
Q 038724          420 MLCLEQLNIIRLTSCSL----------CSLCGLPTVQCLTS  450 (483)
Q Consensus       420 l~~l~~L~~L~l~~~~l----------~~l~~l~~l~~l~l  450 (483)
                      +.+|++|+.|.|..|+-          .-+.-||+|+.|+.
T Consensus        84 LknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLDn  124 (388)
T KOG2123|consen   84 LKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLDN  124 (388)
T ss_pred             HhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhccC
Confidence            89999999999999984          23566888888874

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=97.05  E-value=0.0022  Score=56.47  Aligned_cols=69  Identities=17%  Similarity=0.277  Sum_probs=45.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEE---EE--EeCCCcCccchhHHhhhcCCcEEEEEcCCCCc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVI---WV--VVSKELKLETSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~---~v--~~~~~~~~~~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      +.++=|.++|++|.|||.||++++++.   ...|--+.   ||  .+++.+.+.+-.-.++-.+.+..|++|.++..
T Consensus       187 dpprgvllygppg~gktml~kava~~t---~a~firvvgsefvqkylgegprmvrdvfrlakenapsiifideidai  260 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANHT---TAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAI  260 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhcc---chheeeeccHHHHHHHhccCcHHHHHHHHHHhccCCcEEEeehhhhH
Confidence            356789999999999999999999976   44441111   11  12333333332333467788999999998643

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.05  E-value=0.0021  Score=58.47  Aligned_cols=60  Identities=17%  Similarity=0.138  Sum_probs=40.1

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCcCccchhH
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKELKLETSQD   69 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~~~~~~~~   69 (483)
                      .|.+.|..+  .-.++.|+|++|+|||++|.+++... ....    ....++|++..+.+...++.+
T Consensus         7 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123           7 ALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             hhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            344444432  33689999999999999999997543 1111    136789999887766554433

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 .

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.04  E-value=0.0029  Score=65.26  Aligned_cols=148  Identities=17%  Similarity=0.175  Sum_probs=87.4

Q ss_pred             hHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc-------cchh
Q 038724            5 KQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL-------ETSQ   68 (483)
Q Consensus         5 ~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~-------~~~~   68 (483)
                      ++++|++..|.+.         -++=+.++|++|.|||-||++++-..   .-.|     ++++.+--+       ..-.
T Consensus       321 ~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA---gVPF-----~svSGSEFvE~~~g~~asrv  392 (774)
T KOG0731|consen  321 EELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---GVPF-----FSVSGSEFVEMFVGVGASRV  392 (774)
T ss_pred             HHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc---CCce-----eeechHHHHHHhcccchHHH
Confidence            4567777777652         24458999999999999999999876   2232     233321100       1112


Q ss_pred             HHh---hhcCCcEEEEEcCCCCccc-----------------cccccCCCCCCCCC--CEEEEecCChhhh---------
Q 038724           69 DDM---ILSTKKFLLLLDDLWETID-----------------LSKIGVPLPSQKIV--SKVVFTTHSEEVC---------  117 (483)
Q Consensus        69 ~~i---~l~~~~~LlvlDdv~~~~~-----------------~~~l~~~~~~~~~g--s~ilvTtR~~~~~---------  117 (483)
                      +++   +-...++.+.+|+++...-                 +.++..........  --++.+|....+.         
T Consensus       393 r~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allrpGR  472 (774)
T KOG0731|consen  393 RDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLRPGR  472 (774)
T ss_pred             HHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhcCCCc
Confidence            222   5667899999999864421                 22222222222222  3334456555554         


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                            ++.-+...-.++|..++.....  ..+..+..+ ++....|.+=|.
T Consensus       473 fdr~i~i~~p~~~~r~~i~~~h~~~~~~--~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  473 FDRQIQIDLPDVKGRASILKVHLRKKKL--DDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cccceeccCCchhhhHHHHHHHhhccCC--CcchhhHHH-HHhcCCCCcHHH
Confidence                  5556667788888888765542  133344555 888888887554

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

Probab=97.04  E-value=2.8e-05  Score=69.85  Aligned_cols=149  Identities=20%  Similarity=0.174  Sum_probs=97.2

Q ss_pred             cceEEEEccccccccccC---CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC--cccccCcCCCE
Q 038724          296 LGLRRMSLMNNQIKTLLN---TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP--SGISKLVSLQH  370 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~---~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p--~~~~~l~~L~~  370 (483)
                      +.++.|+++...++...-   ...|..|+.|.+.++.+.+..-..+..-.+|+.|+++.++......  --+.+++.|+.
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            347778888776653221   1467788888888887776555556666778888888876444322  23567788888


Q ss_pred             EeccCCCCCc--cCccccCC-cCCCEEecCCCCCcCCCCCCCCccchhhHhh-hccccccccceeeccCc------cccC
Q 038724          371 LDISFTSTLE--LPEELKAL-EKLKYLDMDDHQQVMEEGNCQSDDAESLLKE-MLCLEQLNIIRLTSCSL------CSLC  440 (483)
Q Consensus       371 L~l~~~~i~~--lp~~~~~l-~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~-l~~l~~L~~L~l~~~~l------~~l~  440 (483)
                      |++++|.+..  +.-.+... ++|..|+|++++..       +  .....+. -..+++|..|+++.|-.      ..+.
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrn-------l--~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~  335 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRN-------L--QKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFF  335 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhHhh-------h--hhhHHHHHHHhCCceeeeccccccccCchHHHHHH
Confidence            8888886322  11111111 47888888887521       1  1223333 35789999999999852      4578


Q ss_pred             CCCCcccccceee
Q 038724          441 GLPTVQCLTSRRL  453 (483)
Q Consensus       441 ~l~~l~~l~l~~~  453 (483)
                      +++.|+.|.++++
T Consensus       336 kf~~L~~lSlsRC  348 (419)
T KOG2120|consen  336 KFNYLQHLSLSRC  348 (419)
T ss_pred             hcchheeeehhhh
Confidence            8999999998765

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.0061  Score=63.48  Aligned_cols=132  Identities=17%  Similarity=0.218  Sum_probs=80.6

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhccc--CCCC--CCEEEEEEeC---------CCc--Ccc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCS--ERPG--FDVVIWVVVS---------KEL--KLE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~--~~~~--f~~~~~v~~~---------~~~--~~~   65 (483)
                      |||++++.++.+.|....-.--.++|.+|||||++|.-++.+...  +...  ...++-..++         ++|  .+.
T Consensus       173 IGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGakyRGeFEeRlk  252 (786)
T COG0542         173 IGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFEERLK  252 (786)
T ss_pred             cChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccccCcHHHHHH
Confidence            799999999999998754444567899999999999988887621  1111  1112222221         111  233


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCccc----------ccc-ccCCCCCCCCCCEEEEecCChhhh----------------h
Q 038724           66 TSQDDMILSTKKFLLLLDDLWETID----------LSK-IGVPLPSQKIVSKVVFTTHSEEVC----------------V  118 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~~~----------~~~-l~~~~~~~~~gs~ilvTtR~~~~~----------------l  118 (483)
                      .+.+++.-.+ ++.+++|.++..-.          ... +++.+ ..+.-..|-.||-++..-                +
T Consensus       253 ~vl~ev~~~~-~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaL-ARGeL~~IGATT~~EYRk~iEKD~AL~RRFQ~V~V  330 (786)
T COG0542         253 AVLKEVEKSK-NVILFIDEIHTIVGAGATEGGAMDAANLLKPAL-ARGELRCIGATTLDEYRKYIEKDAALERRFQKVLV  330 (786)
T ss_pred             HHHHHHhcCC-CeEEEEechhhhcCCCcccccccchhhhhHHHH-hcCCeEEEEeccHHHHHHHhhhchHHHhcCceeeC
Confidence            4455555556 99999999864411          111 22222 222223555677555432                7


Q ss_pred             ccCChHHHHHHHHHHh
Q 038724          119 DCFTPQESWQVFQMKV  134 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~  134 (483)
                      +..+.+++..++....
T Consensus       331 ~EPs~e~ti~ILrGlk  346 (786)
T COG0542         331 DEPSVEDTIAILRGLK  346 (786)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            7888888888887544

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.02  E-value=0.00072  Score=59.47  Aligned_cols=97  Identities=19%  Similarity=0.170  Sum_probs=52.5

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------------
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------------   71 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------------   71 (483)
                      .+.+...+. .+-+++.|.|++|.||||+++.+.... ... .  ..+.+..........+.++.               
T Consensus         7 ~~a~~~~l~-~~~~~~~l~G~aGtGKT~~l~~~~~~~-~~~-g--~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~   81 (196)
T PF13604_consen    7 REAVRAILT-SGDRVSVLQGPAGTGKTTLLKALAEAL-EAA-G--KRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIP   81 (196)
T ss_dssp             HHHHHHHHH-CTCSEEEEEESTTSTHHHHHHHHHHHH-HHT-T----EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEEC
T ss_pred             HHHHHHHHh-cCCeEEEEEECCCCCHHHHHHHHHHHH-HhC-C--CeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCC
Confidence            334444444 344689999999999999999988766 222 2  22333333333333333332               


Q ss_pred             --hh-----cCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEe
Q 038724           72 --IL-----STKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFT  110 (483)
Q Consensus        72 --~l-----~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvT  110 (483)
                        ..     ..+.-++|+|++....  .+..+....+.  .++++|+.
T Consensus        82 ~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilv  127 (196)
T PF13604_consen   82 NGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILV  127 (196)
T ss_dssp             CEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEE
T ss_pred             cccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEE
Confidence              00     2344599999996543  35455444443  35677765

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.02  E-value=0.0011  Score=65.29  Aligned_cols=41  Identities=17%  Similarity=0.273  Sum_probs=37.3

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +||++.++.+...+..++  .|.|.|++|+|||++|+.++...
T Consensus        23 ~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         23 YERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             cCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHh
Confidence            699999999999998774  79999999999999999999876

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.01  E-value=0.0051  Score=55.70  Aligned_cols=148  Identities=18%  Similarity=0.153  Sum_probs=80.9

Q ss_pred             CChhHHHHHHHHHh----------cC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC--------
Q 038724            2 ENPKQFYQVWRFLV----------KK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE--------   61 (483)
Q Consensus         2 gr~~~~~~l~~~l~----------~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~--------   61 (483)
                      |.+..-+.|.++..          ..  .-+-|.++|++|.|||.||++|+-.. . ..+|      ++|..        
T Consensus       137 GLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA-n-STFF------SvSSSDLvSKWmG  208 (439)
T KOG0739|consen  137 GLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA-N-STFF------SVSSSDLVSKWMG  208 (439)
T ss_pred             cchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc-C-CceE------EeehHHHHHHHhc
Confidence            44555566666552          11  24568889999999999999999876 1 2222      22221        


Q ss_pred             --cCccchhHHhhhcCCcEEEEEcCCCCc---------cccccccCC-------CCCCCCCCEEEEecCChhhh------
Q 038724           62 --LKLETSQDDMILSTKKFLLLLDDLWET---------IDLSKIGVP-------LPSQKIVSKVVFTTHSEEVC------  117 (483)
Q Consensus        62 --~~~~~~~~~i~l~~~~~LlvlDdv~~~---------~~~~~l~~~-------~~~~~~gs~ilvTtR~~~~~------  117 (483)
                        -.+..-+-+++-++++..|++|.+++.         +....+...       ......|.-|+-.|--+.+.      
T Consensus       209 ESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRR  288 (439)
T KOG0739|consen  209 ESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRR  288 (439)
T ss_pred             cHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCchhHHHHHHH
Confidence              122222333478899999999999743         111122111       22233444455556555443      


Q ss_pred             ------hccCChHHHHH-HHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ------VDCFTPQESWQ-VFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ------l~~L~~~~a~~-l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                            .=||.+..|+. +|.-+++.-.   ..-.....+.+.++..|.-
T Consensus       289 RFekRIYIPLPe~~AR~~MF~lhlG~tp---~~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  289 RFEKRIYIPLPEAHARARMFKLHLGDTP---HVLTEQDFKELARKTEGYS  335 (439)
T ss_pred             HhhcceeccCCcHHHhhhhheeccCCCc---cccchhhHHHHHhhcCCCC
Confidence                  33566666554 3444444332   2233344566666665543

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.00  E-value=0.0019  Score=61.61  Aligned_cols=66  Identities=18%  Similarity=0.253  Sum_probs=42.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCE-EEEEEeCCCc-CccchhHHh--------------------------
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDV-VIWVVVSKEL-KLETSQDDM--------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~-~~~v~~~~~~-~~~~~~~~i--------------------------   71 (483)
                      ..+.|+|.+|+|||||++.+++...  .++-+. ++|+.+++.. ...++.+.+                          
T Consensus       134 QR~LIvG~pGtGKTTLl~~la~~i~--~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~~~~~v~~~~~~~  211 (380)
T PRK12608        134 QRGLIVAPPRAGKTVLLQQIAAAVA--ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVLER  211 (380)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHHHHHHHHHHHHHH
Confidence            4679999999999999999988762  223233 3454433222 222222222                          


Q ss_pred             ----hhcCCcEEEEEcCCCC
Q 038724           72 ----ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        72 ----~l~~~~~LlvlDdv~~   87 (483)
                          .-++++++||+|++..
T Consensus       212 Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        212 AKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHcCCCEEEEEeCcHH
Confidence                4569999999999853

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.00084  Score=67.63  Aligned_cols=67  Identities=30%  Similarity=0.273  Sum_probs=48.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC--CcCccchhHHh------hhcCCcEEEEEcCCCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK--ELKLETSQDDM------ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~--~~~~~~~~~~i------~l~~~~~LlvlDdv~~   87 (483)
                      ..-|.|.|+.|+|||+||+++++...  +...-.+.+++.+.  ...+..++.-+      ++...+.+|||||++.
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~--k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiIvLDdld~  505 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS--KDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSIIVLDDLDC  505 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc--cccceEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEEEEcchhh
Confidence            34789999999999999999999883  44444455565543  22344444433      7889999999999963

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.99  E-value=0.0014  Score=70.74  Aligned_cols=43  Identities=26%  Similarity=0.369  Sum_probs=34.2

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.+..++.|.+.+...         ...++.++|+.|+|||++|+++++..
T Consensus       571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            47778888888877631         12478899999999999999999865

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.98  E-value=0.0015  Score=56.39  Aligned_cols=39  Identities=26%  Similarity=0.305  Sum_probs=27.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS   59 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~   59 (483)
                      ...-+.++|++|+|||.||.++++....   +-..+.|++.+
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~---~g~~v~f~~~~   84 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIR---KGYSVLFITAS   84 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHH---TT--EEEEEHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhcc---CCcceeEeecC
Confidence            3457999999999999999999988732   22336677543

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.

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.97  E-value=0.00093  Score=59.25  Aligned_cols=77  Identities=17%  Similarity=0.254  Sum_probs=52.8

Q ss_pred             ChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEe----------C
Q 038724            3 NPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVV----------S   59 (483)
Q Consensus         3 r~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~----------~   59 (483)
                      =++.++++++-.+-             +.++=|.++|++|.|||-+|++++++.   ..     +|+.+          +
T Consensus       182 ckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt---da-----cfirvigselvqkyvg  253 (435)
T KOG0729|consen  182 CKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT---DA-----CFIRVIGSELVQKYVG  253 (435)
T ss_pred             hHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc---Cc-----eEEeehhHHHHHHHhh
Confidence            35667777666542             245668899999999999999999976   33     33332          2


Q ss_pred             CCcCccchhHHhhhcCCcEEEEEcCCCC
Q 038724           60 KELKLETSQDDMILSTKKFLLLLDDLWE   87 (483)
Q Consensus        60 ~~~~~~~~~~~i~l~~~~~LlvlDdv~~   87 (483)
                      +...+.+-+-+|+-..+.|+|++|.++.
T Consensus       254 egarmvrelf~martkkaciiffdeida  281 (435)
T KOG0729|consen  254 EGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             hhHHHHHHHHHHhcccceEEEEeecccc
Confidence            3333333344457778999999999853

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.96  E-value=0.00088  Score=54.96  Aligned_cols=24  Identities=38%  Similarity=0.510  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-|+|+||+|+||||+++.+++..
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHH
Confidence            468999999999999999999887

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.93  E-value=0.00049  Score=65.33  Aligned_cols=38  Identities=21%  Similarity=0.291  Sum_probs=29.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      ..+.++|++|+|||.||.++++...   ..-..++|+++..
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~---~~g~~V~y~t~~~  221 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELL---DRGKSVIYRTADE  221 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH---HCCCeEEEEEHHH
Confidence            6799999999999999999999872   2223567776543

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

Probab=96.93  E-value=0.0035  Score=56.66  Aligned_cols=59  Identities=19%  Similarity=0.126  Sum_probs=39.4

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCcCccchh
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKELKLETSQ   68 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~~~~~~~   68 (483)
                      .+.+.|..+  .-.++.|+|++|+|||++|.+++... ...+    .-..++|++....++...+.
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~-~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEA-QLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHh-hcccccCCCcceEEEEecCCCCCHHHHH
Confidence            444555432  23599999999999999999997764 1111    11567899887766654443

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.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.92  E-value=0.0019  Score=59.16  Aligned_cols=67  Identities=25%  Similarity=0.322  Sum_probs=41.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-------ccchhHHh-hhcCCcEEEEEcCCCC
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-------LETSQDDM-ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-------~~~~~~~i-~l~~~~~LlvlDdv~~   87 (483)
                      +..-+.++|.+|+|||.||.+++++..  +.. ..+.++++.+-..       ......++ ..-.+-=||||||+..
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~--~~g-~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~  178 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL--KAG-ISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGY  178 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH--HcC-CeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEecccC
Confidence            456799999999999999999999982  322 3366665443211       00111111 1123344889999854

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=96.91  E-value=0.0021  Score=67.86  Aligned_cols=43  Identities=26%  Similarity=0.319  Sum_probs=34.8

Q ss_pred             CCChhHHHHHHHHHhc---------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK---------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||-++.++.|.+++..         .....+.++|++|+|||++|+.+++..
T Consensus       461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            5777888888888762         123578999999999999999999876

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.91  E-value=0.0018  Score=55.03  Aligned_cols=38  Identities=32%  Similarity=0.448  Sum_probs=28.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      ++.|+|++|+|||+++..++...   ...-..++|++....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~   38 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEE   38 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcc
Confidence            36899999999999999998876   223345667765544

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.

>PHA00729 NTP-binding motif containing protein

Probab=96.91  E-value=0.0014  Score=58.01  Aligned_cols=35  Identities=20%  Similarity=0.251  Sum_probs=28.9

Q ss_pred             HHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            9 QVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         9 ~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.+.+...+...|.|+|.+|+||||||.+++++.
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            44555666666789999999999999999999875

>TIGR00763 lon ATP-dependent protease La

Probab=96.90  E-value=0.0036  Score=67.18  Aligned_cols=43  Identities=28%  Similarity=0.328  Sum_probs=33.6

Q ss_pred             CCChhHHHHHHHHHhc------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.++..++|.+++..      ...+++.++|++|+|||++|+++++..
T Consensus       323 ~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       323 YGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             CChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3667777777776531      133579999999999999999999976

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.88  E-value=0.0056  Score=53.95  Aligned_cols=64  Identities=16%  Similarity=0.243  Sum_probs=45.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCcc-------chhHH---hhhcCCcEEEEEcCCC
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE-------TSQDD---MILSTKKFLLLLDDLW   86 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~-------~~~~~---i~l~~~~~LlvlDdv~   86 (483)
                      .++.=|.++|++|.|||-||+++|++.        .+.|+.+|+..-+.       +..++   ++-...+..|+.|.++
T Consensus       179 aQPKGvlLygppgtGktLlaraVahht--------~c~firvsgselvqk~igegsrmvrelfvmarehapsiifmdeid  250 (404)
T KOG0728|consen  179 AQPKGVLLYGPPGTGKTLLARAVAHHT--------DCTFIRVSGSELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEID  250 (404)
T ss_pred             CCCcceEEecCCCCchhHHHHHHHhhc--------ceEEEEechHHHHHHHhhhhHHHHHHHHHHHHhcCCceEeeeccc
Confidence            366778999999999999999999865        24556776543211       11111   2667889999999997


Q ss_pred             Cc
Q 038724           87 ET   88 (483)
Q Consensus        87 ~~   88 (483)
                      +.
T Consensus       251 si  252 (404)
T KOG0728|consen  251 SI  252 (404)
T ss_pred             cc
Confidence            55

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.88  E-value=0.007  Score=59.53  Aligned_cols=48  Identities=27%  Similarity=0.551  Sum_probs=37.5

Q ss_pred             hhHHHHHHHHHh-----cC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724            4 PKQFYQVWRFLV-----KK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus         4 ~~~~~~l~~~l~-----~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      ++.+++|..||.     ..  +.+++.|+|++|+||||.++.++...     .+..+-|.
T Consensus        88 kkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel-----g~~~~Ew~  142 (634)
T KOG1970|consen   88 KKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL-----GYQLIEWS  142 (634)
T ss_pred             HHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh-----Cceeeeec
Confidence            345778888887     22  56799999999999999999998876     44445565

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.86  E-value=0.0098  Score=60.84  Aligned_cols=60  Identities=20%  Similarity=0.282  Sum_probs=42.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC-----------cCccchhHHhhhcCCcEEEEEcCCCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE-----------LKLETSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~-----------~~~~~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      .=|.+||++|.|||-+|++|+-..   .     .-|+++-++           .+++++.++ +-+.++|.|++|.+++.
T Consensus       706 SGILLYGPPGTGKTLlAKAVATEc---s-----L~FlSVKGPELLNMYVGqSE~NVR~VFer-AR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  706 SGILLYGPPGTGKTLLAKAVATEC---S-----LNFLSVKGPELLNMYVGQSEENVREVFER-ARSAAPCVIFFDELDSL  776 (953)
T ss_pred             ceeEEECCCCCchHHHHHHHHhhc---e-----eeEEeecCHHHHHHHhcchHHHHHHHHHH-hhccCCeEEEecccccc
Confidence            358899999999999999998865   1     234444332           233343333 66789999999999755

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.84  E-value=0.014  Score=59.18  Aligned_cols=86  Identities=17%  Similarity=0.188  Sum_probs=56.2

Q ss_pred             CChhHHHHHHHHHhc-----CCeEEEEEEcCCCCcHHHHHHHHHhhcc-----cCCCCCCEEEEEEeCCCcCccchhHHh
Q 038724            2 ENPKQFYQVWRFLVK-----KDVGIIGLFGTGGVGKTTILKQINNRFC-----SERPGFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-----~~~~~v~i~G~~GiGKTtLa~~~~~~~~-----~~~~~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      +|+.+..+|...+..     +.-+.+.|.|.+|.|||..+..|.+...     ..-..|+. +.|..-.-....++...|
T Consensus       400 cRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~y-veINgm~l~~~~~~Y~~I  478 (767)
T KOG1514|consen  400 CRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDY-VEINGLRLASPREIYEKI  478 (767)
T ss_pred             chhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccE-EEEcceeecCHHHHHHHH
Confidence            588888888877753     2345899999999999999999988552     11233432 223322223344444444


Q ss_pred             -------------------------hhcCCcEEEEEcCCCCc
Q 038724           72 -------------------------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 -------------------------~l~~~~~LlvlDdv~~~   88 (483)
                                               .-..+.+++++|+++..
T Consensus       479 ~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~L  520 (767)
T KOG1514|consen  479 WEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDIL  520 (767)
T ss_pred             HHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHH
Confidence                                     34568889999998643

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.83  E-value=0.0037  Score=56.44  Aligned_cols=53  Identities=23%  Similarity=0.195  Sum_probs=37.7

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL   64 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~   64 (483)
                      ..|.+.+..+  .-.++.|+|++|+|||++|.+++...   ......++|++.. .++.
T Consensus        10 ~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~---~~~~~~v~yi~~e-~~~~   64 (225)
T PRK09361         10 KMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEA---AKNGKKVIYIDTE-GLSP   64 (225)
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEECC-CCCH
Confidence            3455555433  24689999999999999999998766   2234668899877 4443

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.80  E-value=0.0019  Score=60.81  Aligned_cols=92  Identities=18%  Similarity=0.235  Sum_probs=51.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC-------cCccchhHHhhhcCCcEEEEEcCCCCc--c
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE-------LKLETSQDDMILSTKKFLLLLDDLWET--I   89 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~-------~~~~~~~~~i~l~~~~~LlvlDdv~~~--~   89 (483)
                      .+-+.|+|..|+|||.||.++++...  ...+. +.|++++.-       .........+..-.+.=||||||+...  .
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~--~~g~~-v~~~~~~~l~~~lk~~~~~~~~~~~l~~l~~~dlLiIDDiG~e~~s  232 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELA--KKGVS-STLLHFPEFIRELKNSISDGSVKEKIDAVKEAPVLMLDDIGAEQMS  232 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH--HcCCC-EEEEEHHHHHHHHHHHHhcCcHHHHHHHhcCCCEEEEecCCCcccc
Confidence            45789999999999999999999882  22333 556654310       000011111222235558899999543  2


Q ss_pred             cccc--ccCCC-CCC-CCCCEEEEecCC
Q 038724           90 DLSK--IGVPL-PSQ-KIVSKVVFTTHS  113 (483)
Q Consensus        90 ~~~~--l~~~~-~~~-~~gs~ilvTtR~  113 (483)
                      .|..  +...+ ... ..+..+++||--
T Consensus       233 ~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        233 SWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             HHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            3332  32222 111 234567777654

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.77  E-value=0.0045  Score=65.90  Aligned_cols=42  Identities=24%  Similarity=0.285  Sum_probs=33.5

Q ss_pred             CChhHHHHHHHHHhc------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            2 ENPKQFYQVWRFLVK------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         2 gr~~~~~~l~~~l~~------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.++..++|.+++..      ....++.++|++|+||||+|+.++...
T Consensus       326 g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l  373 (784)
T PRK10787        326 GLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT  373 (784)
T ss_pred             CHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            667777777776652      234589999999999999999999866

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.77  E-value=0.0028  Score=66.30  Aligned_cols=63  Identities=17%  Similarity=0.238  Sum_probs=39.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC------CcCccchhHHh--hhcCCcEEEEEcCCCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK------ELKLETSQDDM--ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~------~~~~~~~~~~i--~l~~~~~LlvlDdv~~~   88 (483)
                      +-|.++|++|.|||++|+.++...   ...|   +.++.+.      ......+...+  .....+++|++|+++..
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~---~~~f---~~is~~~~~~~~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l  256 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAV  256 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHc---CCCE---EEEehHHhHHhhhcccHHHHHHHHHHHHhcCCcEEEehhHhhh
Confidence            348999999999999999999876   2233   2222211      11111111111  44567899999999654

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.77  E-value=0.0025  Score=59.46  Aligned_cols=39  Identities=21%  Similarity=0.313  Sum_probs=30.5

Q ss_pred             ChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHh
Q 038724            3 NPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus         3 r~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      |..+..--..+|.++++..|.+.|.+|.|||.||.+..-
T Consensus       229 rn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgl  267 (436)
T COG1875         229 RNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGL  267 (436)
T ss_pred             ccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHH
Confidence            444444445777888899999999999999999977643

>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=96.76  E-value=0.0011  Score=53.80  Aligned_cols=21  Identities=52%  Similarity=0.813  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038724           22 IGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      |+|.|++|+||||+|+++.++
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999887

...

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.73  E-value=0.041  Score=51.59  Aligned_cols=151  Identities=12%  Similarity=0.018  Sum_probs=88.3

Q ss_pred             HHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcc-------cCCCCCCEEEEEEe-CCCcCccchhHH---h--
Q 038724            6 QFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFC-------SERPGFDVVIWVVV-SKELKLETSQDD---M--   71 (483)
Q Consensus         6 ~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~-------~~~~~f~~~~~v~~-~~~~~~~~~~~~---i--   71 (483)
                      .++.+.+.+..+.. ++..++|..|+||+++|.++++..-       ....|-+...++.. +......++...   +  
T Consensus         4 ~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~~~   83 (299)
T PRK07132          4 WIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKLYF   83 (299)
T ss_pred             HHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHhcc
Confidence            45667777777654 5667999999999999999988751       11122223344432 233333344333   3  


Q ss_pred             -h-hcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhh-h-----------hccCChHHHHHHHHHHhc
Q 038724           72 -I-LSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEV-C-----------VDCFTPQESWQVFQMKVG  135 (483)
Q Consensus        72 -~-l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~-~-----------l~~L~~~~a~~l~~~~~~  135 (483)
                       . .++.+-++|+||++....  ...+...+.+....+.+|++|.+..- .           +.++++++..+.+... +
T Consensus        84 ~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~~-~  162 (299)
T PRK07132         84 SSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSK-N  162 (299)
T ss_pred             CCcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHHc-C
Confidence             2 225888999999976643  44555556555556666665544322 1           7778888887666543 1


Q ss_pred             CCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          136 NETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       136 ~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                       .       ..+.++.++...+|.-.|+..
T Consensus       163 -~-------~~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        163 -K-------EKEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             -C-------ChhHHHHHHHHcCCHHHHHHH
Confidence             1       123355566666663345544

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.72  E-value=0.0042  Score=56.70  Aligned_cols=52  Identities=15%  Similarity=0.204  Sum_probs=36.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcc-cCCCCCCEEEEEEeCCCc-CccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFC-SERPGFDVVIWVVVSKEL-KLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~-~~~~~f~~~~~v~~~~~~-~~~~~~~~i   71 (483)
                      ..++|.|-.|+|||+|+..++++.. ..+++-+.++++-+++.. ...++.+++
T Consensus        70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~  123 (276)
T cd01135          70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDF  123 (276)
T ss_pred             CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHh
Confidence            4789999999999999999988761 012334677888776544 355555555

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.

>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=96.69  E-value=0.0042  Score=53.17  Aligned_cols=69  Identities=22%  Similarity=0.235  Sum_probs=44.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCC-CCCCEEEEEEeCCCcC---ccchhHHh-------hhcCCcEEEEEcCCCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSER-PGFDVVIWVVVSKELK---LETSQDDM-------ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~-~~f~~~~~v~~~~~~~---~~~~~~~i-------~l~~~~~LlvlDdv~~   87 (483)
                      ..++.+.|+.|+|||.+|+++++..   . +.....+-++.+.-..   ........       ......-+|+||+++.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l---~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidK   79 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELL---FVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDK   79 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHH---T-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGG
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHh---ccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhh
Confidence            3578899999999999999999988   3 3445566666654444   12222222       0111122999999976


Q ss_pred             ccc
Q 038724           88 TID   90 (483)
Q Consensus        88 ~~~   90 (483)
                      ...
T Consensus        80 a~~   82 (171)
T PF07724_consen   80 AHP   82 (171)
T ss_dssp             CSH
T ss_pred             ccc
Confidence            644

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 ....

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.65  E-value=0.0078  Score=55.48  Aligned_cols=94  Identities=16%  Similarity=0.110  Sum_probs=56.4

Q ss_pred             cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE---EeCCCcCccchh------------------------
Q 038724           16 KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV---VVSKELKLETSQ------------------------   68 (483)
Q Consensus        16 ~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v---~~~~~~~~~~~~------------------------   68 (483)
                      .+....++|.|+.|.|||||.+.++....   . ..+.+++   .+.......++.                        
T Consensus       108 ~~~~~~~~i~g~~g~GKttl~~~l~~~~~---~-~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~  183 (270)
T TIGR02858       108 NNRVLNTLIISPPQCGKTTLLRDLARILS---T-GISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKA  183 (270)
T ss_pred             CCCeeEEEEEcCCCCCHHHHHHHHhCccC---C-CCceEEECCEEeecchhHHHHHHHhcccccccccccccccccchHH
Confidence            44557899999999999999999988662   1 1222222   110000000110                        


Q ss_pred             ---HHhhhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhh
Q 038724           69 ---DDMILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEV  116 (483)
Q Consensus        69 ---~~i~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~  116 (483)
                         ..+.....+-++++|.+...+.+..+...+.   .|..+|+||.+..+
T Consensus       184 ~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~  231 (270)
T TIGR02858       184 EGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDV  231 (270)
T ss_pred             HHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHH
Confidence               0113335788999999877665655544442   46789999887544

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

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

Probab=96.64  E-value=0.0015  Score=57.49  Aligned_cols=23  Identities=43%  Similarity=0.749  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|++|+||||+|++++...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L   23 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQIL   23 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999887

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 ....

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.63  E-value=0.0024  Score=63.86  Aligned_cols=43  Identities=16%  Similarity=0.311  Sum_probs=36.8

Q ss_pred             CCChhHHHHHHHHHh------cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLV------KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~------~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.++.+++|.+.+.      ...-+++.++||+|+|||+||+.+++-.
T Consensus        79 yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         79 YGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             cCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            478899999998882      3455799999999999999999999876

>PRK08233 hypothetical protein; Provisional

Probab=96.61  E-value=0.0019  Score=56.19  Aligned_cols=25  Identities=28%  Similarity=0.517  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|++|+||||+|+.++...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999999876

>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=96.58  E-value=0.0019  Score=53.62  Aligned_cols=23  Identities=39%  Similarity=0.671  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.++|++|+||||+|+.++...
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            58899999999999999998766

...

>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=96.58  E-value=0.0018  Score=46.03  Aligned_cols=23  Identities=35%  Similarity=0.694  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++|.|.+|.||||+|+.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998874

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.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.58  E-value=0.0058  Score=54.21  Aligned_cols=47  Identities=32%  Similarity=0.625  Sum_probs=33.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC-cCccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE-LKLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~-~~~~~~~~~i   71 (483)
                      ..++|.|.+|+|||+|+..+++..     .-+.++++-+++. ....++.+++
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~-----~~d~~V~~~iGer~~Ev~~~~~~~   63 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQ-----DADVVVYALIGERGREVTEFIEEL   63 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHC-----TTTEEEEEEESECHHHHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhcc-----cccceeeeeccccchhHHHHHHHH
Confidence            478999999999999999999876     2344477766644 3344444444

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.56  E-value=0.0035  Score=56.70  Aligned_cols=27  Identities=26%  Similarity=0.511  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+++|.|++|.|||||++.++...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999998876

>PTZ00301 uridine kinase; Provisional

Probab=96.55  E-value=0.002  Score=57.00  Aligned_cols=25  Identities=28%  Similarity=0.603  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.+|+|.|++|.||||+|+++.++.
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999998765

>PRK07667 uridine kinase; Provisional

Probab=96.53  E-value=0.0038  Score=54.82  Aligned_cols=36  Identities=22%  Similarity=0.388  Sum_probs=27.7

Q ss_pred             HHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            8 YQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         8 ~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++...+..  +...+|+|.|.+|.||||+|..+....
T Consensus         4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            344444443  344799999999999999999998876

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.53  E-value=0.0028  Score=54.79  Aligned_cols=35  Identities=34%  Similarity=0.509  Sum_probs=28.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      ..+|.+.|++|.||||+|+.+++..   ...+....++
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            4589999999999999999999987   3445555555

>PRK06762 hypothetical protein; Provisional

Probab=96.52  E-value=0.0023  Score=54.78  Aligned_cols=25  Identities=44%  Similarity=0.647  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|.|+|++|+||||+|+.+++..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998865

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.50  E-value=0.0058  Score=54.81  Aligned_cols=45  Identities=27%  Similarity=0.374  Sum_probs=29.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      ++..+|+|+|+||+|||||..++.... ..+++--+++-|+-+.++
T Consensus        27 g~a~~iGiTG~PGaGKSTli~~l~~~~-~~~g~~VaVlAVDPSSp~   71 (266)
T PF03308_consen   27 GRAHVIGITGPPGAGKSTLIDALIREL-RERGKRVAVLAVDPSSPF   71 (266)
T ss_dssp             T-SEEEEEEE-TTSSHHHHHHHHHHHH-HHTT--EEEEEE-GGGGC
T ss_pred             CCceEEEeeCCCCCcHHHHHHHHHHHH-hhcCCceEEEEECCCCCC
Confidence            467899999999999999999998877 333433445555544444

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=96.50  E-value=0.0049  Score=60.45  Aligned_cols=43  Identities=19%  Similarity=0.178  Sum_probs=31.8

Q ss_pred             CCChhHHHHHHHHHhc-------C---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK-------K---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.++..+.+..++.+       .         ..+.+.++|++|+|||++|+.++...
T Consensus        74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            5667777766555421       0         12568999999999999999999866

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.49  E-value=0.0027  Score=56.67  Aligned_cols=27  Identities=41%  Similarity=0.577  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|.|++|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998865

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.49  E-value=0.005  Score=58.83  Aligned_cols=43  Identities=19%  Similarity=0.244  Sum_probs=34.2

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+...+.++.+.+..  .....|.|+|..|+||+++|+.+++.-
T Consensus         2 iG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         2 IGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            5777777777777764  233578999999999999999998755

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.46  E-value=0.0041  Score=62.76  Aligned_cols=48  Identities=33%  Similarity=0.563  Sum_probs=39.0

Q ss_pred             hhHHHHHHHHHhcC-----CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724            4 PKQFYQVWRFLVKK-----DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus         4 ~~~~~~l~~~l~~~-----~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      ++.+++|.+||.+.     ..+++.++||+|+||||.++.+++..     .|+.+-|.
T Consensus        25 kkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~   77 (519)
T PF03215_consen   25 KKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWI   77 (519)
T ss_pred             HHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEec
Confidence            45678999999752     35789999999999999999999977     56666675

>TIGR02012 tigrfam_recA protein RecA

Probab=96.42  E-value=0.0066  Score=57.18  Aligned_cols=52  Identities=17%  Similarity=0.134  Sum_probs=35.6

Q ss_pred             HHHHHHhcC---CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724            9 QVWRFLVKK---DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus         9 ~l~~~l~~~---~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      .|..+|..+   .-+++-|+|++|+||||||.+++...   ...-..++|++..+.++
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~---~~~g~~v~yId~E~~~~   96 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALD   96 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEcccchhH
Confidence            445555412   34689999999999999999987765   22234567887655444

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.42  E-value=0.0066  Score=55.29  Aligned_cols=46  Identities=26%  Similarity=0.410  Sum_probs=35.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      ++..+|+|+|.||+|||||..++...+ ..+++--.++-|+-|.+++
T Consensus        49 G~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~T   94 (323)
T COG1703          49 GNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFT   94 (323)
T ss_pred             CCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCC
Confidence            466799999999999999999998888 5555555566666665554

>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=96.41  E-value=0.0038  Score=52.01  Aligned_cols=24  Identities=38%  Similarity=0.564  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|.|+|.+|.||||+|+++.++.
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L   26 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRL   26 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999988

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 ....

>PRK03839 putative kinase; Provisional

Probab=96.37  E-value=0.0028  Score=54.99  Aligned_cols=23  Identities=48%  Similarity=0.755  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|+||||+|+.++++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999976

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.02  Score=53.70  Aligned_cols=65  Identities=23%  Similarity=0.207  Sum_probs=42.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC----CCcCc----cchhHHhhhcCCcEEEEEcCCCCc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS----KELKL----ETSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~----~~~~~----~~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      .++-|.++||+|.|||-+|++++.+.   ...|-.   |.++    +.+..    ....-.++-+=.++.|.+|.|++.
T Consensus       126 p~kGiLL~GPpG~GKTmlAKA~Akea---ga~fIn---v~~s~lt~KWfgE~eKlv~AvFslAsKl~P~iIFIDEvds~  198 (386)
T KOG0737|consen  126 PPKGILLYGPPGTGKTMLAKAIAKEA---GANFIN---VSVSNLTSKWFGEAQKLVKAVFSLASKLQPSIIFIDEVDSF  198 (386)
T ss_pred             CCccceecCCCCchHHHHHHHHHHHc---CCCcce---eeccccchhhHHHHHHHHHHHHhhhhhcCcceeehhhHHHH
Confidence            45678899999999999999999987   444532   2222    22211    111111255668999999999643

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

Probab=96.34  E-value=0.0024  Score=50.00  Aligned_cols=22  Identities=32%  Similarity=0.727  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|+|++|+|||++|..++.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999988776

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

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.33  E-value=0.013  Score=53.85  Aligned_cols=60  Identities=18%  Similarity=0.145  Sum_probs=39.6

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccC----CCCCCEEEEEEeCCCcCccchhH
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSE----RPGFDVVIWVVVSKELKLETSQD   69 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~----~~~f~~~~~v~~~~~~~~~~~~~   69 (483)
                      .|.+.|..+  .-.+.=|+|++|+|||.|+.+++-.. ..    .+.-..++|++....+...++.+
T Consensus        26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~-~l~~~~~g~~~~vvyidTe~~f~~~Rl~~   91 (256)
T PF08423_consen   26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNV-QLPEEIGGLGGKVVYIDTEGTFSPERLQQ   91 (256)
T ss_dssp             HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHT-TSGGCTTSSSSEEEEEESSSSS-HHHHHH
T ss_pred             HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHh-hcccccccCCCceEEEeCCCCCCHHHHHH
Confidence            344455322  22488999999999999998876543 11    12235699999888887666554

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 ....

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.32  E-value=0.0039  Score=54.63  Aligned_cols=26  Identities=42%  Similarity=0.714  Sum_probs=23.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.+|+|.|.+|.||||+|+.++..+
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999999987

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.32  E-value=0.012  Score=52.28  Aligned_cols=82  Identities=16%  Similarity=0.205  Sum_probs=51.4

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCE-----EEEEEeCCCcC
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDV-----VIWVVVSKELK   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~-----~~~v~~~~~~~   63 (483)
                      |-++.++++.+++--             ..++=|..+|++|.|||-+|++.+.+.   ..-|-.     .+-...++...
T Consensus       175 GldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT---~aTFLKLAgPQLVQMfIGdGAk  251 (424)
T KOG0652|consen  175 GLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT---NATFLKLAGPQLVQMFIGDGAK  251 (424)
T ss_pred             cHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc---cchHHHhcchHHHhhhhcchHH
Confidence            557778888887731             134568899999999999999988765   333311     01111222222


Q ss_pred             ccchhHHhhhcCCcEEEEEcCCC
Q 038724           64 LETSQDDMILSTKKFLLLLDDLW   86 (483)
Q Consensus        64 ~~~~~~~i~l~~~~~LlvlDdv~   86 (483)
                      +.+-.-.++-...+..|++|.++
T Consensus       252 LVRDAFaLAKEkaP~IIFIDElD  274 (424)
T KOG0652|consen  252 LVRDAFALAKEKAPTIIFIDELD  274 (424)
T ss_pred             HHHHHHHHhhccCCeEEEEechh
Confidence            22222223556789999999985

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.31  E-value=0.0055  Score=54.60  Aligned_cols=46  Identities=22%  Similarity=0.232  Sum_probs=35.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ   68 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~   68 (483)
                      -+++.|+|++|+|||++|.+++...   ......++|++... +...++.
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~   57 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFK   57 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHH
Confidence            4689999999999999999988766   23346789998875 4444433

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

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.31  E-value=0.0094  Score=57.71  Aligned_cols=51  Identities=25%  Similarity=0.281  Sum_probs=35.6

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      .++.+.|..+  .-.++.|.|.+|+|||||+.+++...   ......++|++..+.
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~---a~~g~~VlYvs~EEs  121 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARL---AKRGGKVLYVSGEES  121 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCcC
Confidence            3455555432  23689999999999999999998876   222346788876543

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.31  E-value=0.0064  Score=49.22  Aligned_cols=40  Identities=23%  Similarity=0.234  Sum_probs=30.4

Q ss_pred             hhHHHHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            4 PKQFYQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         4 ~~~~~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++++++.+.+...  .-.+|.+.|.-|.||||+++.+++..
T Consensus         5 ~~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         5 EKAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34555565555542  33589999999999999999999986

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.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.30  E-value=0.0084  Score=56.51  Aligned_cols=53  Identities=19%  Similarity=0.108  Sum_probs=36.8

Q ss_pred             HHHHHHhcC---CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc
Q 038724            9 QVWRFLVKK---DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL   64 (483)
Q Consensus         9 ~l~~~l~~~---~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~   64 (483)
                      .|..+|..+   .-+++-|+|++|+||||||.+++...   ...-..++|++....++.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~   97 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDP   97 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHH
Confidence            444555522   34689999999999999999987765   223345778877665543

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09354 recA recombinase A; Provisional

Probab=96.29  E-value=0.009  Score=56.78  Aligned_cols=53  Identities=15%  Similarity=0.111  Sum_probs=38.0

Q ss_pred             HHHHHHh-cC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc
Q 038724            9 QVWRFLV-KK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL   64 (483)
Q Consensus         9 ~l~~~l~-~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~   64 (483)
                      .|..+|. .+  .-+++-|+|++|+||||||.+++...   ...-..++|++....++.
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~  102 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDP  102 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHH
Confidence            4455555 22  34689999999999999999987765   223456788887776654

>PF13245 AAA_19: Part of AAA domain

Probab=96.28  E-value=0.0054  Score=44.46  Aligned_cols=32  Identities=31%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             HHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           10 VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        10 l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.+.+.  +.+++.|.|++|.|||+++.+.....
T Consensus         3 v~~al~--~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    3 VRRALA--GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             HHHHHh--hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            334455  34688899999999996655544443

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.27  E-value=0.01  Score=57.96  Aligned_cols=36  Identities=31%  Similarity=0.505  Sum_probs=26.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      ..++|.|..|+|||||++.++...     ..+.++++-+++
T Consensus       163 qrigI~G~sG~GKSTLL~~I~~~~-----~~dv~Vi~lIGE  198 (444)
T PRK08972        163 QRMGLFAGSGVGKSVLLGMMTRGT-----TADVIVVGLVGE  198 (444)
T ss_pred             CEEEEECCCCCChhHHHHHhccCC-----CCCEEEEEEEcC
Confidence            478999999999999999998754     224445554443

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.26  E-value=0.011  Score=54.48  Aligned_cols=36  Identities=22%  Similarity=0.287  Sum_probs=30.7

Q ss_pred             HHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            8 YQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         8 ~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.++.+.+.+..+|.|.|.+|.|||||+..+.+..
T Consensus        93 ~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         93 ERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            345666666788999999999999999999999876

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.26  E-value=0.0036  Score=54.70  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|.|++|+||||+|+.+++..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998765

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.25  E-value=0.015  Score=59.77  Aligned_cols=43  Identities=26%  Similarity=0.203  Sum_probs=33.3

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||....+.++.+.+..  .....|.|+|..|+|||++|+.+++..
T Consensus       199 iG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       199 IGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             EECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            4666777777776653  233478899999999999999998865

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.25  E-value=0.017  Score=48.40  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|-|++..|.||||+|...+-+.
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra   26 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRA   26 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            477888888999999998887766

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.24  E-value=0.0051  Score=57.18  Aligned_cols=27  Identities=30%  Similarity=0.335  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.+|+|.|+.|+||||+|+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999998876544

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.23  E-value=0.0091  Score=52.64  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|.|+|+.|.||||++.++....
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999887765

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>TIGR00235 udk uridine kinase

Probab=96.23  E-value=0.0046  Score=55.02  Aligned_cols=26  Identities=38%  Similarity=0.569  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|+|++|+||||||+.++...
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998866

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

>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=96.22  E-value=0.0053  Score=54.88  Aligned_cols=24  Identities=29%  Similarity=0.703  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+|+|.|-||+||||++..++...
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            478999999999999999888766

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=96.21  E-value=0.16  Score=48.72  Aligned_cols=41  Identities=22%  Similarity=0.391  Sum_probs=33.8

Q ss_pred             ChhHHHHHHHHHhc---CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            3 NPKQFYQVWRFLVK---KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         3 r~~~~~~l~~~l~~---~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+...+.|.+.+.+   ....+|+|.|.=|.|||++.+.+.+..
T Consensus         1 ~~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L   44 (325)
T PF07693_consen    1 RKPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEEL   44 (325)
T ss_pred             ChHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45556777777775   356799999999999999999998877

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

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

Probab=96.21  E-value=0.012  Score=55.48  Aligned_cols=66  Identities=20%  Similarity=0.169  Sum_probs=42.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC----CCcCccchhHHhhhcCCcEEEEEcCCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS----KELKLETSQDDMILSTKKFLLLLDDLWE   87 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~----~~~~~~~~~~~i~l~~~~~LlvlDdv~~   87 (483)
                      +-|..+|++|.|||-||++||..-  ...+|....-.-+|    +.-.+.+++-+|+-...+..|+||.+++
T Consensus       246 kgvLm~GPPGTGKTlLAKAvATEc--~tTFFNVSsstltSKwRGeSEKlvRlLFemARfyAPStIFiDEIDs  315 (491)
T KOG0738|consen  246 KGVLMVGPPGTGKTLLAKAVATEC--GTTFFNVSSSTLTSKWRGESEKLVRLLFEMARFYAPSTIFIDEIDS  315 (491)
T ss_pred             ceeeeeCCCCCcHHHHHHHHHHhh--cCeEEEechhhhhhhhccchHHHHHHHHHHHHHhCCceeehhhHHH
Confidence            458889999999999999999864  11222111111111    2234555666667777888999999863

>cd01394 radB RadB

Probab=96.20  E-value=0.012  Score=52.91  Aligned_cols=53  Identities=17%  Similarity=0.103  Sum_probs=36.9

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      +.|.+.+..+  .-+++.|+|.+|+||||+|.+++...   ...-..++|++....+.
T Consensus         6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~~   60 (218)
T cd01394           6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             hHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCCH
Confidence            4455555432  34689999999999999999998766   22334577887654443

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

>PRK04040 adenylate kinase; Provisional

Probab=96.19  E-value=0.0044  Score=54.02  Aligned_cols=24  Identities=33%  Similarity=0.589  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|+|++|+||||+++.+++..
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998876

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.19  E-value=0.0083  Score=59.31  Aligned_cols=50  Identities=24%  Similarity=0.387  Sum_probs=34.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-CccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-KLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-~~~~~~~~i   71 (483)
                      ..++|.|.+|+|||||+.++++...  +.+-+.++++-+++.. ...++.+++
T Consensus       144 QR~gIfa~~G~GKt~Ll~~~~~~~~--~~~~dv~V~~liGER~rEv~ef~~~~  194 (461)
T PRK12597        144 GKTGLFGGAGVGKTVLMMELIFNIS--KQHSGSSVFAGVGERSREGHELYHEM  194 (461)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHH--hhCCCEEEEEcCCcchHHHHHHHHHH
Confidence            4789999999999999999888762  2345677777655432 244444444

>PRK00625 shikimate kinase; Provisional

Probab=96.18  E-value=0.0039  Score=53.41  Aligned_cols=23  Identities=35%  Similarity=0.314  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.++||+|+||||+++.++++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999876

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=96.18  E-value=0.0067  Score=50.80  Aligned_cols=36  Identities=19%  Similarity=0.319  Sum_probs=30.5

Q ss_pred             hHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            5 KQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         5 ~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +-+++|.+.+..   ++++++|.+|+|||||...+....
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            457788888876   589999999999999999998764

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.17  E-value=0.018  Score=54.16  Aligned_cols=38  Identities=21%  Similarity=0.221  Sum_probs=30.6

Q ss_pred             hhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            4 PKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         4 ~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++....+..++..+  +.|.|.|++|+||||+|++++...
T Consensus        51 ~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l   88 (327)
T TIGR01650        51 KATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARL   88 (327)
T ss_pred             HHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHH
Confidence            34556677777654  469999999999999999999977

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.16  E-value=0.013  Score=55.91  Aligned_cols=52  Identities=29%  Similarity=0.388  Sum_probs=37.9

Q ss_pred             HHHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724            7 FYQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus         7 ~~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      +.++.+.|..+  .-.++.|-|-+|||||||..+++.+. ..+.   .++||+-.+..
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~l-A~~~---~vLYVsGEES~  132 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARL-AKRG---KVLYVSGEESL  132 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHH-HhcC---cEEEEeCCcCH
Confidence            34566666554  33689999999999999999999988 2222   68888765543

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.13  E-value=0.0038  Score=54.34  Aligned_cols=23  Identities=30%  Similarity=0.482  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.|+|++|+||||+|+.+++..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999998866

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.

>TIGR01287 nifH nitrogenase iron protein

Probab=96.13  E-value=0.0057  Score=57.15  Aligned_cols=24  Identities=33%  Similarity=0.714  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|+|+|-||+||||++..++...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~L   24 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAAL   24 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHH
Confidence            468999999999999999988776

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.13  E-value=0.0098  Score=54.37  Aligned_cols=47  Identities=23%  Similarity=0.298  Sum_probs=28.5

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhcccCCCCCCEE-EEEEeCCC-cCccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCSERPGFDVV-IWVVVSKE-LKLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~~~~~f~~~-~~v~~~~~-~~~~~~~~~i   71 (483)
                      ..++|.|.+|+|||+|| ..+++..     +-+.+ +++-+++. ....++.+++
T Consensus        70 Qr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~  119 (274)
T cd01132          70 QRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTL  119 (274)
T ss_pred             CEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHH
Confidence            47899999999999996 5565543     22333 45544443 2344444444

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 alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=96.10  E-value=0.0061  Score=55.02  Aligned_cols=82  Identities=18%  Similarity=0.172  Sum_probs=53.5

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEE---E--EeCCCcC
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIW---V--VVSKELK   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~---v--~~~~~~~   63 (483)
                      |-+..+++|.+..+-             ..+.=|.++|.+|.|||-||++|+++.   ..-|=-++=   +  ..++.+.
T Consensus       189 Gle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT---SATFlRvvGseLiQkylGdGpk  265 (440)
T KOG0726|consen  189 GLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT---SATFLRVVGSELIQKYLGDGPK  265 (440)
T ss_pred             cHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc---chhhhhhhhHHHHHHHhccchH
Confidence            456778888887752             145568899999999999999999976   444411100   0  1233333


Q ss_pred             ccchhHHhhhcCCcEEEEEcCCC
Q 038724           64 LETSQDDMILSTKKFLLLLDDLW   86 (483)
Q Consensus        64 ~~~~~~~i~l~~~~~LlvlDdv~   86 (483)
                      +.+-+-.++-...+..+++|.++
T Consensus       266 lvRqlF~vA~e~apSIvFiDEId  288 (440)
T KOG0726|consen  266 LVRELFRVAEEHAPSIVFIDEID  288 (440)
T ss_pred             HHHHHHHHHHhcCCceEEeehhh
Confidence            33333333667788899999985

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=0.027  Score=57.13  Aligned_cols=85  Identities=16%  Similarity=0.150  Sum_probs=49.3

Q ss_pred             CChhHH---HHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCC--EEEEEEeCCCcCccch
Q 038724            2 ENPKQF---YQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFD--VVIWVVVSKELKLETS   67 (483)
Q Consensus         2 gr~~~~---~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~--~~~~v~~~~~~~~~~~   67 (483)
                      |.++..   .+++..|.+.         -++=|.++|++|.|||.||++++... .+ .+|.  +.-||..--.....++
T Consensus       154 G~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA-~V-PFf~iSGS~FVemfVGvGAsRV  231 (596)
T COG0465         154 GVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-GV-PFFSISGSDFVEMFVGVGASRV  231 (596)
T ss_pred             CcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc-CC-CceeccchhhhhhhcCCCcHHH
Confidence            445544   4555555542         13458899999999999999999877 22 2221  1122221111222222


Q ss_pred             hHHh--hhcCCcEEEEEcCCCCc
Q 038724           68 QDDM--ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        68 ~~~i--~l~~~~~LlvlDdv~~~   88 (483)
                      ..-.  +.+..+|.+++|.++..
T Consensus       232 RdLF~qAkk~aP~IIFIDEiDAv  254 (596)
T COG0465         232 RDLFEQAKKNAPCIIFIDEIDAV  254 (596)
T ss_pred             HHHHHHhhccCCCeEEEehhhhc
Confidence            2111  56667899999998644

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=96.08  E-value=0.0085  Score=51.12  Aligned_cols=43  Identities=16%  Similarity=0.184  Sum_probs=32.3

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||....+.++.+.+..  .....|.|+|..|+||+.+|+.+++.-
T Consensus         2 iG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             EeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            6777788887777764  233578899999999999999999865

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PRK06217 hypothetical protein; Validated

Probab=96.08  E-value=0.0051  Score=53.55  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|.||||+|+++++..
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999876

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.08  E-value=0.0081  Score=50.92  Aligned_cols=24  Identities=38%  Similarity=0.483  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.||+|+||||+++++..+.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            588999999999999999998854

>PRK04296 thymidine kinase; Provisional

Probab=96.07  E-value=0.006  Score=53.39  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++.|+|+.|.||||+|...+.+.
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~   26 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY   26 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH
Confidence            478899999999999999998877

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.07  E-value=0.0052  Score=53.16  Aligned_cols=25  Identities=24%  Similarity=0.404  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|-||=|+||||||+.++++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999988

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=96.07  E-value=0.015  Score=56.79  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.++|++|+|||++|+.++...
T Consensus       117 ~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382       117 SNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             ceEEEECCCCcCHHHHHHHHHHhc
Confidence            479999999999999999999866

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.07  E-value=0.012  Score=57.68  Aligned_cols=24  Identities=38%  Similarity=0.607  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|++|+|||||++.++...
T Consensus       166 qri~I~G~SGsGKTTLL~~Ia~l~  189 (450)
T PRK06002        166 QRIGIFAGSGVGKSTLLAMLARAD  189 (450)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999987654

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.05  E-value=0.0054  Score=53.18  Aligned_cols=24  Identities=33%  Similarity=0.574  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|++|+||||+++.++...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998876

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.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.05  E-value=0.024  Score=53.56  Aligned_cols=62  Identities=15%  Similarity=0.118  Sum_probs=40.8

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCC----CCCCEEEEEEeCCCcCccchhHHh
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSER----PGFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~----~~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      .|.+.|..+  .-+++-|+|++|+|||+++.+++-.. ...    ..-..++|++....+...++.+..
T Consensus        84 ~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~-~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a  151 (313)
T TIGR02238        84 ALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTA-QLPREMGGGNGKVAYIDTEGTFRPDRIRAIA  151 (313)
T ss_pred             HHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHH-hcchhhcCCCCeEEEEEcCCCCCHHHHHHHH
Confidence            344444432  33688999999999999998876433 111    112468999998887776655433

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.04  E-value=0.011  Score=50.19  Aligned_cols=24  Identities=38%  Similarity=0.493  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.++|++|.||||+.+-+|...
T Consensus        29 ef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          29 EFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhh
Confidence            478999999999999999999876

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.04  E-value=0.012  Score=50.12  Aligned_cols=92  Identities=18%  Similarity=0.243  Sum_probs=51.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC--CcCccch---------------hHHh----hhcCCcE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK--ELKLETS---------------QDDM----ILSTKKF   78 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~--~~~~~~~---------------~~~i----~l~~~~~   78 (483)
                      .+++|.|+.|.|||||.+.++...    ....+.+++.-..  ..+..+.               .+.+    .+...+-
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p~  102 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLY----KPDSGEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARALARNAR  102 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCCC
Confidence            489999999999999999998754    2234444442111  0000000               0111    5667788


Q ss_pred             EEEEcCCCCccc---cccccCCCCCC-CCCCEEEEecCChh
Q 038724           79 LLLLDDLWETID---LSKIGVPLPSQ-KIVSKVVFTTHSEE  115 (483)
Q Consensus        79 LlvlDdv~~~~~---~~~l~~~~~~~-~~gs~ilvTtR~~~  115 (483)
                      ++++|+..+.-+   ...+...+... .++..||++|.+..
T Consensus       103 illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  143 (163)
T cd03216         103 LLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD  143 (163)
T ss_pred             EEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence            899999864422   12222222111 23567788877753

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.03  E-value=0.0057  Score=56.42  Aligned_cols=24  Identities=33%  Similarity=0.353  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|.|+|.+|.||||+|+++...+
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            478999999999999999998877

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.02  E-value=0.0053  Score=52.86  Aligned_cols=24  Identities=38%  Similarity=0.465  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|.|+|++|+||||+|+++++..
T Consensus         5 ~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999976

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.02  E-value=0.016  Score=50.17  Aligned_cols=24  Identities=33%  Similarity=0.638  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+.|.|||||++.++...
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC
Confidence            489999999999999999998765

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.02  E-value=0.009  Score=56.33  Aligned_cols=28  Identities=25%  Similarity=0.585  Sum_probs=24.4

Q ss_pred             cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           16 KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        16 ~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++..|++.+.|=||+||||.|..++.-.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~L   30 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAM   30 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHH
Confidence            4567999999999999999998887766

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

Probab=96.01  E-value=0.0088  Score=56.37  Aligned_cols=48  Identities=31%  Similarity=0.380  Sum_probs=32.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhH
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQD   69 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~   69 (483)
                      .+++.+.|.|||||||+|.+.+-.. ...+  ..++-|+..+..++.++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~l-A~~g--~kvLlvStDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKL-AESG--KKVLLVSTDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHH-HHcC--CcEEEEEeCCCCchHhhhc
Confidence            4789999999999999999977665 2222  3355555555444444433

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.01  E-value=0.0051  Score=51.31  Aligned_cols=20  Identities=50%  Similarity=0.775  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 038724           21 IIGLFGTGGVGKTTILKQIN   40 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~   40 (483)
                      .|+|+|.||+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999997

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.01  E-value=0.013  Score=57.59  Aligned_cols=66  Identities=29%  Similarity=0.470  Sum_probs=47.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-CccchhHHh---------------------------
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-KLETSQDDM---------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-~~~~~~~~i---------------------------   71 (483)
                      ..++|.|.+|+|||+|+.++.+.. . +.+-+.++|+-+++.. ...++.+++                           
T Consensus       139 Qr~~Ifg~~G~GKt~l~~~~~~~~-~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       139 GKAGLFGGAGVGKTVLLTEMIHNM-V-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHH-H-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            478999999999999999998875 2 2234677777665443 244444444                           


Q ss_pred             ----------hh-cCCcEEEEEcCCCC
Q 038724           72 ----------IL-STKKFLLLLDDLWE   87 (483)
Q Consensus        72 ----------~l-~~~~~LlvlDdv~~   87 (483)
                                .- +++.+|+++||+-.
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecChHH
Confidence                      23 68999999999843

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.00  E-value=0.0091  Score=57.78  Aligned_cols=43  Identities=26%  Similarity=0.238  Sum_probs=33.6

Q ss_pred             CCChhHHHHHHHHHhcC--------------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK--------------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~--------------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.++....+..++...              ..+.|.++|++|+|||++|++++...
T Consensus        15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            56777777776555531              23678999999999999999999977

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.

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

Probab=96.00  E-value=0.0049  Score=53.41  Aligned_cols=23  Identities=35%  Similarity=0.580  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|.+|.||||+|+.++...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998865

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.

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

Probab=96.00  E-value=0.011  Score=49.57  Aligned_cols=33  Identities=24%  Similarity=0.381  Sum_probs=27.3

Q ss_pred             HHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           11 WRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        11 ~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +..+......+|.++|.+|.||||+|.++++..
T Consensus        15 r~~~~~~~~~viW~TGLSGsGKSTiA~ale~~L   47 (197)
T COG0529          15 REALKGQKGAVIWFTGLSGSGKSTIANALEEKL   47 (197)
T ss_pred             HHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHH
Confidence            344444556799999999999999999999887

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.99  E-value=0.0092  Score=51.92  Aligned_cols=36  Identities=31%  Similarity=0.406  Sum_probs=28.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEE
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVV   57 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~   57 (483)
                      .++++|+|++|+|||||++++....   ...|...+..+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeec
Confidence            4689999999999999999999977   56675444443

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.99  E-value=0.022  Score=51.49  Aligned_cols=52  Identities=19%  Similarity=0.134  Sum_probs=35.7

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      ..+.+.+..+  .-..+.|.|.+|.|||++|.+++... .  ..-+.++|++.....
T Consensus         7 ~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~-~--~~g~~~~~is~e~~~   60 (229)
T TIGR03881         7 EGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKG-L--RDGDPVIYVTTEESR   60 (229)
T ss_pred             hhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHH-H--hcCCeEEEEEccCCH
Confidence            3445555432  34689999999999999999877654 1  224567888875544

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.99  E-value=0.0057  Score=52.81  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|.+.|++|.||||+|+++.+..
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998865

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

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

Probab=95.99  E-value=0.008  Score=55.60  Aligned_cols=42  Identities=19%  Similarity=0.162  Sum_probs=35.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      .-+++.|+|.+|+|||++|.++....   ....+.++||+..+..
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~~   63 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEESP   63 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCCH
Confidence            34699999999999999999998876   4558889999887655

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=95.99  E-value=0.16  Score=47.30  Aligned_cols=109  Identities=13%  Similarity=0.113  Sum_probs=64.0

Q ss_pred             hhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccC-------------------CCCCCEEEEEEeC-CCc
Q 038724            4 PKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSE-------------------RPGFDVVIWVVVS-KEL   62 (483)
Q Consensus         4 ~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~-------------------~~~f~~~~~v~~~-~~~   62 (483)
                      +..++.+.+.+..++. ..+.++|  |+||+++|..++...-..                   ..|.| ..|+.-. ...
T Consensus         8 ~~~~~~L~~~~~~~rl~hAyLf~G--~~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD-~~~i~p~~~~I   84 (290)
T PRK07276          8 PKVFQRFQTILEQDRLNHAYLFSG--DFASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSD-VTVIEPQGQVI   84 (290)
T ss_pred             HHHHHHHHHHHHcCCcceeeeeeC--CccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCC-eeeecCCCCcC
Confidence            3456677777777754 4567788  589999999887644110                   12333 3455322 222


Q ss_pred             Cccchh---HHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChh
Q 038724           63 KLETSQ---DDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEE  115 (483)
Q Consensus        63 ~~~~~~---~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~  115 (483)
                      .+.++.   ..+   ...+++-++|+||++...  ....+...+-+...++.+|++|.+..
T Consensus        85 ~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~  145 (290)
T PRK07276         85 KTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDEN  145 (290)
T ss_pred             CHHHHHHHHHHHhhCcccCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChh
Confidence            233322   222   455777899999998664  35556666655555566666665543

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.99  E-value=0.03  Score=56.95  Aligned_cols=129  Identities=16%  Similarity=0.152  Sum_probs=73.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-----------CccchhHHhhhcCCcEEEEEcCCCCcc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-----------KLETSQDDMILSTKKFLLLLDDLWETI   89 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-----------~~~~~~~~i~l~~~~~LlvlDdv~~~~   89 (483)
                      =|.++|++|+|||.||.+++...     .   .-++++-++-           .++++..+ +-.-++|.+++|..++..
T Consensus       703 giLLyGppGcGKT~la~a~a~~~-----~---~~fisvKGPElL~KyIGaSEq~vR~lF~r-A~~a~PCiLFFDEfdSiA  773 (952)
T KOG0735|consen  703 GILLYGPPGCGKTLLASAIASNS-----N---LRFISVKGPELLSKYIGASEQNVRDLFER-AQSAKPCILFFDEFDSIA  773 (952)
T ss_pred             ceEEECCCCCcHHHHHHHHHhhC-----C---eeEEEecCHHHHHHHhcccHHHHHHHHHH-hhccCCeEEEeccccccC
Confidence            47899999999999999998754     2   2345554321           12222211 556799999999997552


Q ss_pred             -------------ccccccCCCC--CCCCCCEEEE-ecCChhhh--------------hccCChHHHHHHHHHHhcCCcc
Q 038724           90 -------------DLSKIGVPLP--SQKIVSKVVF-TTHSEEVC--------------VDCFTPQESWQVFQMKVGNETL  139 (483)
Q Consensus        90 -------------~~~~l~~~~~--~~~~gs~ilv-TtR~~~~~--------------l~~L~~~~a~~l~~~~~~~~~~  139 (483)
                                   ...++...+.  .+-.|.-|+. |||-..+-              -+.-++.+-.++++....... 
T Consensus       774 PkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~-  852 (952)
T KOG0735|consen  774 PKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLL-  852 (952)
T ss_pred             cccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccC-
Confidence                         1333443432  2234555554 55654332              112345566666665553222 


Q ss_pred             cCCCCchhHHHHHHhHcCCchHH
Q 038724          140 VSHPAIHKPAKMVAKDCGGLPLA  162 (483)
Q Consensus       140 ~~~~~~~~~~~~i~~~c~g~Pla  162 (483)
                         .+.....+.++.+.+|..-|
T Consensus       853 ---~~~~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  853 ---KDTDVDLECLAQKTDGFTGA  872 (952)
T ss_pred             ---CccccchHHHhhhcCCCchh
Confidence               11233356777777776644

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=95.99  E-value=0.02  Score=53.98  Aligned_cols=47  Identities=23%  Similarity=0.369  Sum_probs=35.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-CccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-KLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-~~~~~~~~i   71 (483)
                      ..++|.|..|+|||+|+.+++++.     +-+.++++-+++.. .+.++++++
T Consensus       158 qr~~I~G~~G~GKT~L~~~Iak~~-----~~dvvVyv~iGERg~Ev~e~l~ef  205 (369)
T cd01134         158 GTAAIPGPFGCGKTVIQQSLSKYS-----NSDIVIYVGCGERGNEMTEVLEEF  205 (369)
T ss_pred             CEEEEECCCCCChHHHHHHHHhCC-----CCCEEEEEEeCCChHHHHHHHHHH
Confidence            478999999999999999999865     33567777776543 355556554

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.

>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=95.98  E-value=0.0044  Score=49.35  Aligned_cols=27  Identities=37%  Similarity=0.524  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhcccCCCCCC
Q 038724           22 IGLFGTGGVGKTTILKQINNRFCSERPGFD   51 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~   51 (483)
                      |.|.|.+|+|||++|++++...   ...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCcee
Confidence            6899999999999999999977   44553

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.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.97  E-value=0.099  Score=49.50  Aligned_cols=46  Identities=15%  Similarity=0.110  Sum_probs=32.1

Q ss_pred             hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          118 VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       118 l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      +++++.+|+..++..+............+...+++.-..+|+|.-+
T Consensus       261 v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  261 VPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            6678999999999888765543322344455667777779999654

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK08149 ATP synthase SpaL; Validated

Probab=95.97  E-value=0.018  Score=56.45  Aligned_cols=24  Identities=25%  Similarity=0.591  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|.+|+|||||+..++...
T Consensus       152 q~i~I~G~sG~GKTTLl~~i~~~~  175 (428)
T PRK08149        152 QRMGIFASAGCGKTSLMNMLIEHS  175 (428)
T ss_pred             CEEEEECCCCCChhHHHHHHhcCC
Confidence            478999999999999999998754

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=95.97  E-value=0.0096  Score=49.49  Aligned_cols=90  Identities=24%  Similarity=0.290  Sum_probs=50.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEe------CCCcC---ccchhHHhhhcCCcEEEEEcCCCCccc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVV------SKELK---LETSQDDMILSTKKFLLLLDDLWETID   90 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~------~~~~~---~~~~~~~i~l~~~~~LlvlDdv~~~~~   90 (483)
                      .+++|.|+.|.|||||++.++....    ...+.+++.-      ..+.+   .+.+.-...+..++-++++|+....-+
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~~~~~i~~~~~lS~G~~~rv~laral~~~p~illlDEP~~~LD  102 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELE----PDEGIVTWGSTVKIGYFEQLSGGEKMRLALAKLLLENPNLLLLDEPTNHLD  102 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCC----CCceEEEECCeEEEEEEccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCC
Confidence            4899999999999999999987652    2233333311      01011   111111116667888999999854422


Q ss_pred             ---cccccCCCCCCCCCCEEEEecCChh
Q 038724           91 ---LSKIGVPLPSQKIVSKVVFTTHSEE  115 (483)
Q Consensus        91 ---~~~l~~~~~~~~~gs~ilvTtR~~~  115 (483)
                         ...+...+...  +..|+++|.+..
T Consensus       103 ~~~~~~l~~~l~~~--~~til~~th~~~  128 (144)
T cd03221         103 LESIEALEEALKEY--PGTVILVSHDRY  128 (144)
T ss_pred             HHHHHHHHHHHHHc--CCEEEEEECCHH
Confidence               22222222211  246777776653

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>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=95.97  E-value=0.008  Score=52.70  Aligned_cols=25  Identities=40%  Similarity=0.686  Sum_probs=22.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++++.++|+.|+||||.+.+++.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~   25 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL   25 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH
Confidence            4689999999999999999998887

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 ....

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=95.97  E-value=0.0072  Score=53.91  Aligned_cols=99  Identities=22%  Similarity=0.253  Sum_probs=54.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcc-cCCCCCCE----------EEEEEeCCCcCc----cchhHHh-------hhcCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFC-SERPGFDV----------VIWVVVSKELKL----ETSQDDM-------ILSTK   76 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~-~~~~~f~~----------~~~v~~~~~~~~----~~~~~~i-------~l~~~   76 (483)
                      .+.+.|+|+.|.||||+.+.+..... ...+.|-.          .++.......++    ..+..++       .....
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~a~~~~~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l~~~~~  108 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPADSATIGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKALRLATR  108 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeEcCCcEEeeeeeeeeeeCCccChhhccchHHHHHHHHHHHHHhCCC
Confidence            38899999999999999999873210 11122210          111222222111    1122222       55688


Q ss_pred             cEEEEEcCCCCcccc-------ccccCCCCCC-CCCCEEEEecCChhhh
Q 038724           77 KFLLLLDDLWETIDL-------SKIGVPLPSQ-KIVSKVVFTTHSEEVC  117 (483)
Q Consensus        77 ~~LlvlDdv~~~~~~-------~~l~~~~~~~-~~gs~ilvTtR~~~~~  117 (483)
                      +.|+++|+.....+.       ..+...+... ..+..++++|.+....
T Consensus       109 ~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~  157 (213)
T cd03281         109 RSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELF  157 (213)
T ss_pred             CcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHH
Confidence            999999998654321       1122223222 2235789999887664

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.96  E-value=0.0057  Score=50.35  Aligned_cols=23  Identities=30%  Similarity=0.615  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.|.|++|.||||+|+.++++.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~   24 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL   24 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh
Confidence            68999999999999999999987

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.95  E-value=0.0058  Score=52.57  Aligned_cols=23  Identities=30%  Similarity=0.608  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|.||||+|+.++++.
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999976

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.93  E-value=0.016  Score=57.13  Aligned_cols=65  Identities=26%  Similarity=0.466  Sum_probs=43.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-CccchhHHh---------------------------
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-KLETSQDDM---------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-~~~~~~~~i---------------------------   71 (483)
                      ..++|.|.+|+|||||+..++.... . .+-+.++++-+++.. .+.++.+++                           
T Consensus       145 QR~gIfa~~GvGKt~Ll~~i~~~~~-~-~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~  222 (463)
T PRK09280        145 GKIGLFGGAGVGKTVLIQELINNIA-K-EHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA  222 (463)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHH-h-cCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            4789999999999999999876651 1 112345555554332 233333333                           


Q ss_pred             ----------hh-cCCcEEEEEcCCC
Q 038724           72 ----------IL-STKKFLLLLDDLW   86 (483)
Q Consensus        72 ----------~l-~~~~~LlvlDdv~   86 (483)
                                .- +++.+|+++|++-
T Consensus       223 ~~a~tiAEyfrd~~G~~VLll~DslT  248 (463)
T PRK09280        223 LTGLTMAEYFRDVEGQDVLLFIDNIF  248 (463)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecchH
Confidence                      34 8899999999984

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.93  E-value=0.0053  Score=54.23  Aligned_cols=23  Identities=43%  Similarity=0.751  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|++|+||||+|+.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999997754

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.

>PRK04328 hypothetical protein; Provisional

Probab=95.93  E-value=0.018  Score=52.75  Aligned_cols=52  Identities=15%  Similarity=0.081  Sum_probs=36.7

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      .|.+.|..+  .-.++.|.|.+|.|||+||.++....   ...-+.++|++..+.+.
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee~~~   64 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEEHPV   64 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeCCHH
Confidence            444555433  34689999999999999999987654   22345688898776543

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

Probab=95.92  E-value=0.0023  Score=33.91  Aligned_cols=16  Identities=31%  Similarity=0.451  Sum_probs=6.4

Q ss_pred             CCEEeccCCCCCccCc
Q 038724          368 LQHLDISFTSTLELPE  383 (483)
Q Consensus       368 L~~L~l~~~~i~~lp~  383 (483)
                      |++|++++|+++.+|.
T Consensus         2 L~~Ldls~n~l~~ip~   17 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPS   17 (22)
T ss_dssp             ESEEEETSSEESEEGT
T ss_pred             ccEEECCCCcCEeCCh
Confidence            3344444444334433

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 ....

>PRK05439 pantothenate kinase; Provisional

Probab=95.92  E-value=0.012  Score=55.22  Aligned_cols=27  Identities=33%  Similarity=0.411  Sum_probs=23.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.+.+|+|.|.+|+||||+|+.+....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999998755

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=95.91  E-value=0.022  Score=55.96  Aligned_cols=25  Identities=28%  Similarity=0.534  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -..++|+|..|+|||||++.+++..
T Consensus       158 Gqri~I~G~sG~GKTtLL~~I~~~~  182 (442)
T PRK08927        158 GQRMGIFAGSGVGKSVLLSMLARNA  182 (442)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3578999999999999999998765

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

Probab=95.91  E-value=0.0057  Score=51.25  Aligned_cols=23  Identities=39%  Similarity=0.671  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.|+|++|+||||+|+.+.+..
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998864

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

>PRK06936 type III secretion system ATPase; Provisional

Probab=95.89  E-value=0.02  Score=56.12  Aligned_cols=36  Identities=25%  Similarity=0.510  Sum_probs=28.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      ..++|.|.+|+|||||...+++..     .-+.++++-+++
T Consensus       163 q~~~I~G~sG~GKStLl~~Ia~~~-----~~dv~V~~liGE  198 (439)
T PRK06936        163 QRMGIFAAAGGGKSTLLASLIRSA-----EVDVTVLALIGE  198 (439)
T ss_pred             CEEEEECCCCCChHHHHHHHhcCC-----CCCEEEEEEEcc
Confidence            478999999999999999998865     234566665543

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

Probab=95.89  E-value=0.011  Score=52.94  Aligned_cols=156  Identities=23%  Similarity=0.238  Sum_probs=104.1

Q ss_pred             ccccceEEEEccccccccccCC------CCCCcccEEEecCCccccccchhh-------------hcCCCccEEEccCCc
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNT------PSCPHLLTLFLNDNYLQDIKNGFF-------------QFMPCLKVLNLSYNR  353 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~------~~~~~L~~L~l~~n~~~~~~~~~~-------------~~l~~L~~L~l~~n~  353 (483)
                      ..++.++.++++.|.+..-.+.      +.-..|.+|.+++|++..+...-+             ..-|.|++.....|+
T Consensus        89 lkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNR  168 (388)
T COG5238          89 LKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNR  168 (388)
T ss_pred             hcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccch
Confidence            3677889999999987644332      466788999999997764433222             234778999888886


Q ss_pred             cCccCCc-----ccccCcCCCEEeccCCCCCccC------ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhcc
Q 038724          354 FLTKLPS-----GISKLVSLQHLDISFTSTLELP------EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLC  422 (483)
Q Consensus       354 ~~~~~p~-----~~~~l~~L~~L~l~~~~i~~lp------~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~  422 (483)
                       +..-|.     .+..-.+|.++.+..|.|..=.      .++..+.+|+.|||..|.++..       .+...-..+..
T Consensus       169 -lengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~-------gS~~La~al~~  240 (388)
T COG5238         169 -LENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLE-------GSRYLADALCE  240 (388)
T ss_pred             -hccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhh-------hHHHHHHHhcc
Confidence             444332     2333467888888888765311      1256788999999999976533       12334455677


Q ss_pred             ccccccceeeccCccc---------c--CCCCCcccccceeeeee
Q 038724          423 LEQLNIIRLTSCSLCS---------L--CGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       423 l~~L~~L~l~~~~l~~---------l--~~l~~l~~l~l~~~~~~  456 (483)
                      .+.|+.|++..|-++.         +  ...|+|..|...|+...
T Consensus       241 W~~lrEL~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~  285 (388)
T COG5238         241 WNLLRELRLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERR  285 (388)
T ss_pred             cchhhhccccchhhccccHHHHHHHhhhhcCCCccccccchhhhc
Confidence            7789999999886532         1  34577778877777654

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.89  E-value=0.008  Score=52.72  Aligned_cols=25  Identities=36%  Similarity=0.279  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|.|.|++|+||||+|+.++++.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999865

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.86  E-value=0.011  Score=56.31  Aligned_cols=43  Identities=16%  Similarity=0.298  Sum_probs=34.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.++.++.+.-.+.+.+..-+.+.|.+|+||||+|+.++.-.
T Consensus        11 ~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407         11 VGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            5778888877765654444579999999999999999997755

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=95.85  E-value=0.01  Score=55.45  Aligned_cols=24  Identities=25%  Similarity=0.603  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|-||+||||+|..++.-.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~L   25 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGL   25 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHH
Confidence            478888999999999999988766

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=95.85  E-value=0.019  Score=56.34  Aligned_cols=24  Identities=38%  Similarity=0.627  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|..|+|||||++.++...
T Consensus       156 qrigI~G~sG~GKSTLL~~I~~~~  179 (433)
T PRK07594        156 QRVGIFSAPGVGKSTLLAMLCNAP  179 (433)
T ss_pred             CEEEEECCCCCCccHHHHHhcCCC
Confidence            488999999999999999998754

>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=95.85  E-value=0.0057  Score=54.82  Aligned_cols=23  Identities=35%  Similarity=0.580  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|++|.||||+|+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>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=95.84  E-value=0.0075  Score=52.18  Aligned_cols=23  Identities=39%  Similarity=0.816  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|.+|.||||+|+.++...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.83  E-value=0.02  Score=55.08  Aligned_cols=25  Identities=40%  Similarity=0.656  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++++|+.|+||||++.+++...
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999999875

>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=95.81  E-value=0.0096  Score=51.95  Aligned_cols=38  Identities=24%  Similarity=0.132  Sum_probs=28.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      ++.|.|++|+|||++|.+++....   ..-..++|++...+
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~---~~g~~v~~~s~e~~   38 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL---ARGEPGLYVTLEES   38 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCCC
Confidence            367999999999999999877651   22345778876544

A related protein is found in archaea.

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.81  E-value=0.0075  Score=55.36  Aligned_cols=25  Identities=32%  Similarity=0.545  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|.++||+|.|||+|.++++++.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL  201 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL  201 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh
Confidence            4799999999999999999999987

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.80  E-value=0.0082  Score=49.37  Aligned_cols=23  Identities=48%  Similarity=0.800  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++|+|++|+|||||++.+++..
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998865

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.80  E-value=0.031  Score=53.41  Aligned_cols=53  Identities=17%  Similarity=0.117  Sum_probs=37.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcc--cCCCC-CCEEEEEEeCCCcCccchhHHh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFC--SERPG-FDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~--~~~~~-f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      -+++-|+|.+|+|||+|+.+++-...  ...+. -..++|++....+...++.+..
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia  181 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIA  181 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHH
Confidence            36888999999999999998864330  11111 2468999999888777665543

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.79  E-value=0.014  Score=48.13  Aligned_cols=39  Identities=23%  Similarity=0.503  Sum_probs=27.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      ++|.|+|..|+|||||++.+.+.. . +..+...+......
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~-~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-K-RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-H-HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-h-HcCCceEEEEEccC
Confidence            479999999999999999999988 2 23455444555444

>PRK13947 shikimate kinase; Provisional

Probab=95.78  E-value=0.008  Score=51.63  Aligned_cols=23  Identities=39%  Similarity=0.489  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|+|++|+||||+|+.+++..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999976

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.78  E-value=0.016  Score=51.48  Aligned_cols=33  Identities=21%  Similarity=0.430  Sum_probs=28.6

Q ss_pred             HHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           11 WRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        11 ~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.+...++++|+++|..|+|||||..++.+..
T Consensus        14 ~~~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        14 RERLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HHHhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            445566789999999999999999999998875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=95.78  E-value=0.013  Score=56.81  Aligned_cols=43  Identities=26%  Similarity=0.235  Sum_probs=34.0

Q ss_pred             CCChhHHHHHHHHHhcC--------------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK--------------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~--------------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.++....+..++...              ..+.+.++|++|+|||++|+.++...
T Consensus        18 iGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         18 IGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             CCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            57777777777776430              13678999999999999999999876

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.78  E-value=0.027  Score=53.80  Aligned_cols=51  Identities=12%  Similarity=0.141  Sum_probs=36.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccC---CC-CCCEEEEEEeCCCcCccchhHH
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSE---RP-GFDVVIWVVVSKELKLETSQDD   70 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~---~~-~f~~~~~v~~~~~~~~~~~~~~   70 (483)
                      -.++-|+|.+|+|||+++..++-.. ..   .+ .-..++|++....+...++.+-
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~-~~~~~~gg~~g~vlyIdtE~~f~~eRl~qi  177 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTC-QLPLDQGGGEGKAMYIDTEGTFRPQRLIQI  177 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHh-hcchhhCCCCceEEEEECCCCccHHHHHHH
Confidence            4688899999999999998887543 11   11 1136899999988876665443

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=95.77  E-value=0.011  Score=55.19  Aligned_cols=24  Identities=29%  Similarity=0.708  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|-||+||||+|..++.-.
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            478888999999999999988766

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.76  E-value=0.0074  Score=48.86  Aligned_cols=44  Identities=23%  Similarity=0.348  Sum_probs=31.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHH
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDD   70 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~   70 (483)
                      .+-|.|+|.+|+||||+|.+++...     .|   -|+++|+-.....+...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~-----~~---~~i~isd~vkEn~l~~g   50 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT-----GL---EYIEISDLVKENNLYEG   50 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh-----CC---ceEehhhHHhhhcchhc
Confidence            3568999999999999999998754     33   36666654444444333

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.76  E-value=0.018  Score=52.41  Aligned_cols=52  Identities=17%  Similarity=0.072  Sum_probs=36.6

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      +.|.+.|..+  .-.++.|.|++|.|||++|.++....   -..-+.++|++...+.
T Consensus         8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyvs~ee~~   61 (237)
T TIGR03877         8 PGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYVALEEHP   61 (237)
T ss_pred             HhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEEeeCCH
Confidence            3455555443  34689999999999999999976654   1234568888876643

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>CHL00206 ycf2 Ycf2; Provisional

Probab=95.76  E-value=0.036  Score=62.89  Aligned_cols=26  Identities=19%  Similarity=0.270  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++=|.++|++|.|||.||+++|.+.
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhc
Confidence            34568899999999999999999976

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.75  E-value=0.026  Score=52.15  Aligned_cols=36  Identities=33%  Similarity=0.372  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.+.+++. ....+|.|.|+.|.||||++.++....
T Consensus        69 ~~~l~~~~~-~~~GlilisG~tGSGKTT~l~all~~i  104 (264)
T cd01129          69 LEIFRKLLE-KPHGIILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             HHHHHHHHh-cCCCEEEEECCCCCcHHHHHHHHHhhh
Confidence            344444444 334689999999999999999887655

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>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=95.74  E-value=0.0076  Score=51.38  Aligned_cols=22  Identities=45%  Similarity=0.673  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|.+|+||||+++.+++..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            7899999999999999999877

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.

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

Probab=95.74  E-value=0.015  Score=51.14  Aligned_cols=23  Identities=48%  Similarity=0.713  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|+|-||+||||+|..++.+.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l   24 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRL   24 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHH
Confidence            58999999999999999977666

>PHA02774 E1; Provisional

Probab=95.74  E-value=0.026  Score=56.75  Aligned_cols=67  Identities=21%  Similarity=0.264  Sum_probs=44.2

Q ss_pred             HHHHHHHHhcCC-eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEcCC
Q 038724            7 FYQVWRFLVKKD-VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDL   85 (483)
Q Consensus         7 ~~~l~~~l~~~~-~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDdv   85 (483)
                      +..+..++.... ...+.|+|++|.|||.+|-++.+-.     ....+.|+.....+-+.      .+.+.+ ++|+||+
T Consensus       421 l~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L-----~G~vi~fvN~~s~FwLq------pl~d~k-i~vlDD~  488 (613)
T PHA02774        421 LTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL-----KGKVISFVNSKSHFWLQ------PLADAK-IALLDDA  488 (613)
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEEECccccccc------hhccCC-EEEEecC
Confidence            455556654332 3589999999999999999998865     23345667654333221      233444 6889999

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.73  E-value=0.011  Score=51.49  Aligned_cols=26  Identities=19%  Similarity=0.309  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|+|++|+|||||++++.++.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998765

>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=95.73  E-value=0.0074  Score=50.24  Aligned_cols=23  Identities=35%  Similarity=0.651  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.|.|++|+||||+|+.+++..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999876

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

Probab=95.71  E-value=0.024  Score=50.90  Aligned_cols=138  Identities=17%  Similarity=0.120  Sum_probs=67.8

Q ss_pred             ccccccceEEEEccccccccccC---------------CCCCCcccEEEecCCccccccch----hhhcCCCccEEEccC
Q 038724          291 DALKWLGLRRMSLMNNQIKTLLN---------------TPSCPHLLTLFLNDNYLQDIKNG----FFQFMPCLKVLNLSY  351 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~~~~---------------~~~~~~L~~L~l~~n~~~~~~~~----~~~~l~~L~~L~l~~  351 (483)
                      ++.....+..|.+++|.+-.+..               ...-+.|++.+...|.+..-+..    .+....+|+++.+..
T Consensus       115 ~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~sh~~lk~vki~q  194 (388)
T COG5238         115 LISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLESHENLKEVKIQQ  194 (388)
T ss_pred             HHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHhhcCceeEEeee
Confidence            33344556666666665432211               12345666666666665543322    233344666666666


Q ss_pred             CccCcc-----CCcccccCcCCCEEeccCCCCCccC-----ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhc
Q 038724          352 NRFLTK-----LPSGISKLVSLQHLDISFTSTLELP-----EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEML  421 (483)
Q Consensus       352 n~~~~~-----~p~~~~~l~~L~~L~l~~~~i~~lp-----~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~  421 (483)
                      |.+-..     +-..+..+.+|+.||+..|-.+...     ..+...+.|+.|++..|.+...       .....+..+.
T Consensus       195 NgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDClls~~-------G~~~v~~~f~  267 (388)
T COG5238         195 NGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCLLSNE-------GVKSVLRRFN  267 (388)
T ss_pred             cCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchhhccc-------cHHHHHHHhh
Confidence            643211     0113345566777777666543322     2234445566676666653321       1122333333


Q ss_pred             c--ccccccceeeccC
Q 038724          422 C--LEQLNIIRLTSCS  435 (483)
Q Consensus       422 ~--l~~L~~L~l~~~~  435 (483)
                      .  .++|..|....|.
T Consensus       268 e~~~p~l~~L~~~Yne  283 (388)
T COG5238         268 EKFVPNLMPLPGDYNE  283 (388)
T ss_pred             hhcCCCccccccchhh
Confidence            2  3456666666554

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=95.71  E-value=0.033  Score=52.66  Aligned_cols=24  Identities=38%  Similarity=0.624  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|..|.|||||++.++...
T Consensus        70 qri~I~G~sG~GKTtLl~~Ia~~~   93 (326)
T cd01136          70 QRLGIFAGSGVGKSTLLGMIARGT   93 (326)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCC
Confidence            478999999999999999998755

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>TIGR00416 sms DNA repair protein RadA

Probab=95.70  E-value=0.026  Score=56.40  Aligned_cols=51  Identities=24%  Similarity=0.257  Sum_probs=35.1

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      .++.+.|..+  .-.++.|.|.+|+|||||+.+++... .  ..-..++|++..+.
T Consensus        81 ~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~-a--~~g~kvlYvs~EEs  133 (454)
T TIGR00416        81 GELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQL-A--KNQMKVLYVSGEES  133 (454)
T ss_pred             HHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHH-H--hcCCcEEEEECcCC
Confidence            3455555432  33689999999999999999998766 2  12235788876544

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=95.70  E-value=0.024  Score=56.19  Aligned_cols=51  Identities=14%  Similarity=0.184  Sum_probs=32.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCC--CEEEEEEeCCCc-CccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGF--DVVIWVVVSKEL-KLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f--~~~~~v~~~~~~-~~~~~~~~i   71 (483)
                      ..++|.|..|+|||+|+..++++. ...+.+  ..++++-+++.. ...++.+++
T Consensus       142 QR~gIfgg~G~GKs~L~~~ia~~~-~ad~~~~~~v~V~~~iGERgrEv~efi~~~  195 (458)
T TIGR01041       142 QKLPIFSGSGLPHNELAAQIARQA-TVRGEESEFAVVFAAMGITYEEANFFMKDF  195 (458)
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHhh-cccCCCCceEEEEEEccccchHHHHHHHHH
Confidence            478999999999999999999876 222111  145555554332 344444444

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.67  E-value=0.036  Score=52.55  Aligned_cols=58  Identities=16%  Similarity=0.192  Sum_probs=38.1

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccC---CC-CCCEEEEEEeCCCcCccch
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSE---RP-GFDVVIWVVVSKELKLETS   67 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~---~~-~f~~~~~v~~~~~~~~~~~   67 (483)
                      .+.+.|..+  .-.++.|+|.+|+|||+|+..++... ..   .+ .-..++|++..+.+...++
T Consensus        84 ~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~-~~~~~~Gg~~~~vvyIdtE~~f~~~Rl  147 (316)
T TIGR02239        84 ELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTC-QLPIDQGGGEGKALYIDTEGTFRPERL  147 (316)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHH-hhhhhcCCCCceEEEEECCCCCCHHHH
Confidence            344444432  34689999999999999999887532 11   11 1235789988877665544

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=95.67  E-value=0.023  Score=60.34  Aligned_cols=43  Identities=23%  Similarity=0.373  Sum_probs=32.6

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+...+.++.+.+..  .....|.|+|..|+|||++|+.+++..
T Consensus       379 iG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        379 IGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             eecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            4666667766655553  233589999999999999999998865

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=95.67  E-value=0.064  Score=49.75  Aligned_cols=108  Identities=9%  Similarity=0.066  Sum_probs=65.2

Q ss_pred             HHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhccc-----------CCCCCCEEEEEEeCCC--cCcc---chhH
Q 038724            7 FYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCS-----------ERPGFDVVIWVVVSKE--LKLE---TSQD   69 (483)
Q Consensus         7 ~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~-----------~~~~f~~~~~v~~~~~--~~~~---~~~~   69 (483)
                      -+++.+.+..+.. .-+.++|+.|+||+++|.+++...-.           ...|-|.......+..  ..++   ++..
T Consensus         6 ~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~   85 (290)
T PRK05917          6 WEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKK   85 (290)
T ss_pred             HHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHH
Confidence            4567777777654 46779999999999999998876621           1124443322222221  2233   2333


Q ss_pred             Hh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCCh
Q 038724           70 DM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSE  114 (483)
Q Consensus        70 ~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~  114 (483)
                      .+   ...++.-++|+|+++...  ....+...+-+...+..+|++|.+.
T Consensus        86 ~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~  135 (290)
T PRK05917         86 QIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKP  135 (290)
T ss_pred             HHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCCh
Confidence            33   444777788999998663  3555555555444556666655554

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=95.66  E-value=0.022  Score=56.05  Aligned_cols=67  Identities=25%  Similarity=0.451  Sum_probs=44.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-CccchhHHh---------------------------
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-KLETSQDDM---------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-~~~~~~~~i---------------------------   71 (483)
                      ..++|.|.+|+|||+|+..++....  +.+-..++++-+++.. .+.++.+++                           
T Consensus       144 Qr~~If~~~G~GKt~L~~~~~~~~~--~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~  221 (461)
T TIGR01039       144 GKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVA  221 (461)
T ss_pred             CEEEeecCCCCChHHHHHHHHHHHH--hcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            4789999999999999999887651  1222356666554432 234444444                           


Q ss_pred             ----------hh-cCCcEEEEEcCCCCc
Q 038724           72 ----------IL-STKKFLLLLDDLWET   88 (483)
Q Consensus        72 ----------~l-~~~~~LlvlDdv~~~   88 (483)
                                .- +++.+|+++||+-.-
T Consensus       222 ~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       222 LTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence                      23 688999999998543

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.66  E-value=0.011  Score=50.90  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|+|++|+||||+|++++...
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999999876

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.65  E-value=0.0092  Score=51.74  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++++|+|++|+||||+|+.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            479999999999999999998854

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.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=95.65  E-value=0.014  Score=54.68  Aligned_cols=24  Identities=29%  Similarity=0.607  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++++|+|-||+||||+|..++...
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~L   25 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAAL   25 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            468888999999999999988876

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.64  E-value=0.016  Score=59.13  Aligned_cols=68  Identities=18%  Similarity=0.166  Sum_probs=41.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC-CcC-ccchhHHh---hhcCCcEEEEEcCCCCc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK-ELK-LETSQDDM---ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~-~~~-~~~~~~~i---~l~~~~~LlvlDdv~~~   88 (483)
                      ..+.+.++|++|.|||.||+++++..   ...|-.+..-.... ... ......++   +.+..++.|++|+++..
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v~~~~l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~  347 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALES---RSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSL  347 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEeeCHHHhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhh
Confidence            45589999999999999999999955   33443222111111 000 01111111   56789999999999644

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

Probab=95.63  E-value=0.015  Score=54.11  Aligned_cols=24  Identities=29%  Similarity=0.744  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|-||+||||++..++...
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~~l   26 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSAAF   26 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688888999999999999988876

>PRK13949 shikimate kinase; Provisional

Probab=95.63  E-value=0.0096  Score=50.94  Aligned_cols=23  Identities=39%  Similarity=0.433  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|+|++|.||||+++.+++..
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999977

>PRK14530 adenylate kinase; Provisional

Probab=95.62  E-value=0.0093  Score=53.41  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|.|+|++|+||||+|+.+++..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999998876

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=95.61  E-value=0.028  Score=55.03  Aligned_cols=24  Identities=33%  Similarity=0.588  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|..|+|||||+..++...
T Consensus       138 q~~~I~G~sG~GKTtLl~~I~~~~  161 (411)
T TIGR03496       138 QRMGIFAGSGVGKSTLLGMMARYT  161 (411)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999998755

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=95.61  E-value=0.03  Score=57.12  Aligned_cols=43  Identities=19%  Similarity=0.200  Sum_probs=33.5

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+...+.++.+.+..  .....|.|+|..|+||+++|+.+++..
T Consensus       190 ig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s  234 (509)
T PRK05022        190 IGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAAS  234 (509)
T ss_pred             eecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            4666677777666654  233578999999999999999998865

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=95.60  E-value=0.021  Score=54.77  Aligned_cols=41  Identities=20%  Similarity=0.251  Sum_probs=34.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+++.+..+..++..++  .+.+.|++|+|||+||++++...
T Consensus        27 ~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l   67 (329)
T COG0714          27 VGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARAL   67 (329)
T ss_pred             eccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHh
Confidence            467777777777777664  78999999999999999999987

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=95.59  E-value=0.019  Score=51.97  Aligned_cols=64  Identities=22%  Similarity=0.212  Sum_probs=36.1

Q ss_pred             HHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccC----CCCCCEEEEEEeCCCcCccchhHHh
Q 038724            6 QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSE----RPGFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus         6 ~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~----~~~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      ..+.+..++....  +..|+|++|.|||+++.++.......    ...-...+-+....+..+..+...+
T Consensus         6 Q~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l   73 (236)
T PF13086_consen    6 QREAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERL   73 (236)
T ss_dssp             HHHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHH
Confidence            4455555555443  78999999999998777776655110    1233334555555555566665554

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.59  E-value=0.024  Score=55.52  Aligned_cols=24  Identities=33%  Similarity=0.642  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|..|+|||||++.++...
T Consensus       141 q~i~I~G~sG~GKTtLl~~I~~~~  164 (418)
T TIGR03498       141 QRLGIFAGSGVGKSTLLSMLARNT  164 (418)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCC
Confidence            578999999999999999988754

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK05922 type III secretion system ATPase; Validated

Probab=95.58  E-value=0.032  Score=54.74  Aligned_cols=24  Identities=33%  Similarity=0.566  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|..|+|||||.+.++...
T Consensus       158 qrigI~G~nG~GKSTLL~~Ia~~~  181 (434)
T PRK05922        158 QRIGVFSEPGSGKSSLLSTIAKGS  181 (434)
T ss_pred             cEEEEECCCCCChHHHHHHHhccC
Confidence            478999999999999999998754

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.57  E-value=0.024  Score=47.57  Aligned_cols=21  Identities=38%  Similarity=0.517  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038724           22 IGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      |+|+|.+|+|||||.+.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999775

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.56  E-value=0.018  Score=54.99  Aligned_cols=43  Identities=14%  Similarity=0.310  Sum_probs=34.7

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||-++....+.-.+.+....-|.|.|.+|+||||+++.++.-.
T Consensus         7 vgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         7 VGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            5777788777777766556678899999999999999997544

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.55  E-value=0.029  Score=55.23  Aligned_cols=25  Identities=28%  Similarity=0.513  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -..++|.|..|+|||||++.++...
T Consensus       163 Gq~~~I~G~sG~GKTtLl~~ia~~~  187 (441)
T PRK09099        163 GQRMGIFAPAGVGKSTLMGMFARGT  187 (441)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3588999999999999999998754

>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=95.54  E-value=0.01  Score=49.82  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|+|++|.||||+|+.+++..
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6899999999999999998866

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.54  E-value=0.013  Score=49.93  Aligned_cols=26  Identities=27%  Similarity=0.461  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++++|+|..|.|||||++.+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            45799999999999999999999877

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.54  E-value=0.0089  Score=50.89  Aligned_cols=22  Identities=36%  Similarity=0.650  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+|+|++|+||||+|+.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998875

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=95.53  E-value=0.019  Score=50.86  Aligned_cols=24  Identities=25%  Similarity=0.511  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -+++|+|.+|.|||||++.++--.
T Consensus        34 e~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhccc
Confidence            489999999999999999998754

>PLN02200 adenylate kinase family protein

Probab=95.49  E-value=0.013  Score=52.97  Aligned_cols=26  Identities=31%  Similarity=0.316  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.+|.|.|++|+||||+|+.+++..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45688999999999999999998865

>PRK14527 adenylate kinase; Provisional

Probab=95.49  E-value=0.012  Score=51.51  Aligned_cols=26  Identities=19%  Similarity=0.400  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|.|+|++|.||||+|+.++++.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998866

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.47  E-value=0.12  Score=48.11  Aligned_cols=42  Identities=14%  Similarity=0.217  Sum_probs=31.4

Q ss_pred             CChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            2 ENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         2 gr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |-.++...+.+++..    +....|.|+|+.|.|||+|...+..+.
T Consensus        28 g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~   73 (408)
T KOG2228|consen   28 GVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDI   73 (408)
T ss_pred             ehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhH
Confidence            445566666666643    455688999999999999998887764

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.47  E-value=0.019  Score=50.70  Aligned_cols=27  Identities=19%  Similarity=0.346  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|+|++|.||||+|+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999998866

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.45  E-value=0.032  Score=55.94  Aligned_cols=24  Identities=33%  Similarity=0.299  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-.+|+|++|+|||||++.+++..
T Consensus       417 QR~LIvgpp~aGKTtLL~~IAn~i  440 (672)
T PRK12678        417 QRGLIVSPPKAGKTTILQNIANAI  440 (672)
T ss_pred             CEeEEeCCCCCCHHHHHHHHHHHH
Confidence            367999999999999999999865

>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=95.44  E-value=0.011  Score=55.88  Aligned_cols=24  Identities=38%  Similarity=0.524  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |++.+.|-||+||||+|.+.+-..
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~   25 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALAL   25 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHH
Confidence            588999999999999998887766

...

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

Probab=95.44  E-value=0.017  Score=53.69  Aligned_cols=24  Identities=29%  Similarity=0.714  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|-||+||||++..++...
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~L   25 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAAL   25 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHH
Confidence            467778999999999999988876

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.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.43  E-value=0.018  Score=53.77  Aligned_cols=24  Identities=29%  Similarity=0.642  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|-||+||||+|..++.-.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~L   26 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAM   26 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Confidence            688888999999999999887765

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.42  E-value=0.027  Score=51.15  Aligned_cols=59  Identities=17%  Similarity=0.057  Sum_probs=39.4

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      ..+.+.|..+  .-+++.|+|.+|+|||++|.+++...   ...-..++|++..+.+  .++...+
T Consensus        12 ~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~---~~~g~~~~y~~~e~~~--~~~~~~~   72 (234)
T PRK06067         12 EELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGA---LKQGKKVYVITTENTS--KSYLKQM   72 (234)
T ss_pred             HHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHH---HhCCCEEEEEEcCCCH--HHHHHHH
Confidence            3445555433  34689999999999999999997654   1234568888886543  3444443

>PRK05973 replicative DNA helicase; Provisional

Probab=95.42  E-value=0.021  Score=51.40  Aligned_cols=39  Identities=13%  Similarity=0.093  Sum_probs=30.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      .++.|.|.+|+|||++|.+++... . + .-..++|++...+
T Consensus        65 sl~LIaG~PG~GKT~lalqfa~~~-a-~-~Ge~vlyfSlEes  103 (237)
T PRK05973         65 DLVLLGARPGHGKTLLGLELAVEA-M-K-SGRTGVFFTLEYT  103 (237)
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHH-H-h-cCCeEEEEEEeCC
Confidence            589999999999999999987765 2 2 2355778877665

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.41  E-value=0.013  Score=51.17  Aligned_cols=24  Identities=33%  Similarity=0.585  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|++|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            378999999999999999997754

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.41  E-value=0.012  Score=50.59  Aligned_cols=24  Identities=38%  Similarity=0.506  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|.++|++|+||||+|+++++..
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHH
Confidence            468899999999999999998876

>PRK06820 type III secretion system ATPase; Validated

Probab=95.41  E-value=0.035  Score=54.65  Aligned_cols=24  Identities=38%  Similarity=0.621  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|.+|+|||||+..++...
T Consensus       164 qri~I~G~sG~GKStLl~~I~~~~  187 (440)
T PRK06820        164 QRIGIFAAAGVGKSTLLGMLCADS  187 (440)
T ss_pred             CEEEEECCCCCChHHHHHHHhccC
Confidence            478999999999999999988754

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=95.41  E-value=0.066  Score=47.00  Aligned_cols=105  Identities=20%  Similarity=0.158  Sum_probs=62.5

Q ss_pred             HHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCE--EEEEEeCC-------CcCccchhHHh---------
Q 038724           10 VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDV--VIWVVVSK-------ELKLETSQDDM---------   71 (483)
Q Consensus        10 l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~--~~~v~~~~-------~~~~~~~~~~i---------   71 (483)
                      +.+.+-..+..-..|.|++|+|||||.+.+++-.....+.|-+  +.-++-+.       ......+...+         
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~  207 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKA  207 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHH
Confidence            4444444555557899999999999999999877433344532  22222111       01111122222         


Q ss_pred             ------hhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh
Q 038724           72 ------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC  117 (483)
Q Consensus        72 ------~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~  117 (483)
                            --...+=.+|+|.+-..++..++...+   ..|.+++.|..--.+.
T Consensus       208 ~gmmmaIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG~~ie  256 (308)
T COG3854         208 EGMMMAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHGNGIE  256 (308)
T ss_pred             HHHHHHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeeccccHH
Confidence                  233567789999998887766655554   3478888887655443

>PRK13948 shikimate kinase; Provisional

Probab=95.41  E-value=0.015  Score=50.30  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=23.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.|.++|+.|+||||+++.++++.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999876

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=95.40  E-value=0.032  Score=55.18  Aligned_cols=64  Identities=20%  Similarity=0.364  Sum_probs=43.1

Q ss_pred             EEEEEEcCCCCcHHHHHH-HHHhhcccCCCCCCEE-EEEEeCCCc-CccchhHHh-------------------------
Q 038724           20 GIIGLFGTGGVGKTTILK-QINNRFCSERPGFDVV-IWVVVSKEL-KLETSQDDM-------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~-~~~~~~~~~~~~f~~~-~~v~~~~~~-~~~~~~~~i-------------------------   71 (483)
                      ..++|.|..|+|||+||. .+.++.     .-+.+ +++-+++.. ...++.+.+                         
T Consensus       142 QR~~I~g~~g~GKt~Lal~~I~~q~-----~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~  216 (485)
T CHL00059        142 QRELIIGDRQTGKTAVATDTILNQK-----GQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYL  216 (485)
T ss_pred             CEEEeecCCCCCHHHHHHHHHHhcc-----cCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHH
Confidence            478999999999999964 455543     22333 666665433 344454444                         


Q ss_pred             ------------hhcCCcEEEEEcCCCCc
Q 038724           72 ------------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ------------~l~~~~~LlvlDdv~~~   88 (483)
                                  .-+|+.+|+|+||+...
T Consensus       217 ap~~a~aiAEyfr~~G~~VLlv~DdlTr~  245 (485)
T CHL00059        217 APYTGAALAEYFMYRGRHTLIIYDDLSKQ  245 (485)
T ss_pred             HHHHHhhHHHHHHHcCCCEEEEEcChhHH
Confidence                        45689999999998543

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.39  E-value=0.012  Score=50.12  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038724           22 IGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      |+|+|..|+|||||++++++.
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999874

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.38  E-value=0.023  Score=52.63  Aligned_cols=26  Identities=35%  Similarity=0.641  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++.++|++|+||||.+..++...
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999998876

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.38  E-value=0.013  Score=52.01  Aligned_cols=25  Identities=36%  Similarity=0.442  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++|+|++|+||||||+.++...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998865

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.37  E-value=0.046  Score=53.91  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|..|+|||||++.++...
T Consensus       169 qrigI~G~sG~GKSTLl~~I~g~~  192 (451)
T PRK05688        169 QRLGLFAGTGVGKSVLLGMMTRFT  192 (451)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999997744

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.37  E-value=0.042  Score=52.41  Aligned_cols=52  Identities=17%  Similarity=0.193  Sum_probs=38.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCcCccchhHHh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      -.++-|+|++|+|||+++.+++... ....    .-..++|++..+.++..++.+..
T Consensus       102 g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~  157 (317)
T PRK04301        102 QSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQMA  157 (317)
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHHHH
Confidence            4688999999999999999998664 1111    11468999998888777665543

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=95.35  E-value=0.049  Score=51.81  Aligned_cols=52  Identities=19%  Similarity=0.184  Sum_probs=37.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCC---C-CCCEEEEEEeCCCcCccchhHHh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSER---P-GFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~---~-~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      -.++-|+|++|+|||+++.+++... ...   + .-..++||+....+...++.+.+
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~-~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~  150 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNV-QLPEEKGGLGGKAVYIDTENTFRPERIMQMA  150 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh-cCCcccCCCcceEEEEECCCCCCHHHHHHHH
Confidence            4688999999999999999998764 111   0 11268999988887776655443

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.35  E-value=0.035  Score=44.13  Aligned_cols=38  Identities=16%  Similarity=0.279  Sum_probs=28.4

Q ss_pred             HHHHHHHHHhc---CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            6 QFYQVWRFLVK---KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         6 ~~~~l~~~l~~---~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+..|...+.+   ..+-|+.++|++|+|||.+++.+++..
T Consensus        37 v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   37 VVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            34445555543   245688999999999999999998885

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.34  E-value=0.015  Score=51.55  Aligned_cols=25  Identities=28%  Similarity=0.547  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ..+.++|+|++|+|||||++++.+.
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            5678999999999999999999754

>PRK13975 thymidylate kinase; Provisional

Probab=95.33  E-value=0.015  Score=51.18  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|.|+.|+||||+|+.+++..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999987

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=95.33  E-value=0.048  Score=57.87  Aligned_cols=86  Identities=13%  Similarity=0.200  Sum_probs=57.2

Q ss_pred             CCChhHHHHHHHHHhcC--------CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC--------CcCc
Q 038724            1 IENPKQFYQVWRFLVKK--------DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK--------ELKL   64 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~--------~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~--------~~~~   64 (483)
                      +|-++.+..|.+++...        ...++.+.|+.|+|||.||++++.-.   .+..+..+-++.+.        ....
T Consensus       565 ~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~---Fgse~~~IriDmse~~evskligsp~  641 (898)
T KOG1051|consen  565 IGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYV---FGSEENFIRLDMSEFQEVSKLIGSPP  641 (898)
T ss_pred             cchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHH---cCCccceEEechhhhhhhhhccCCCc
Confidence            46677778888887641        35688999999999999999999876   55555566666654        1111


Q ss_pred             ----cchhHHh--hhcCCcE-EEEEcCCCCcc
Q 038724           65 ----ETSQDDM--ILSTKKF-LLLLDDLWETI   89 (483)
Q Consensus        65 ----~~~~~~i--~l~~~~~-LlvlDdv~~~~   89 (483)
                          .+....+  .++.++| +|+||||+..+
T Consensus       642 gyvG~e~gg~LteavrrrP~sVVLfdeIEkAh  673 (898)
T KOG1051|consen  642 GYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAH  673 (898)
T ss_pred             ccccchhHHHHHHHHhcCCceEEEEechhhcC
Confidence                1111122  5566665 67789997663

>PRK13946 shikimate kinase; Provisional

Probab=95.33  E-value=0.014  Score=50.86  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=22.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.|.++|++|+||||+++.++++.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999999976

>PTZ00035 Rad51 protein; Provisional

Probab=95.32  E-value=0.077  Score=50.82  Aligned_cols=58  Identities=21%  Similarity=0.217  Sum_probs=37.4

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccC---CC-CCCEEEEEEeCCCcCccch
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSE---RP-GFDVVIWVVVSKELKLETS   67 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~---~~-~f~~~~~v~~~~~~~~~~~   67 (483)
                      .|.+.|..+  .-.++.|+|.+|+|||+|+..++-.. ..   .+ .-..++|++....+...++
T Consensus       106 ~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~-qlp~~~gg~~g~vvyIdtE~~f~~eri  169 (337)
T PTZ00035        106 QLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTC-QLPIEQGGGEGKVLYIDTEGTFRPERI  169 (337)
T ss_pred             HHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHh-ccccccCCCCceEEEEEccCCCCHHHH
Confidence            344444432  34689999999999999999887543 11   11 2234679988776655443

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=95.32  E-value=0.031  Score=55.49  Aligned_cols=51  Identities=12%  Similarity=0.163  Sum_probs=33.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCC--CCCEEEEEEeCCCc-CccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERP--GFDVVIWVVVSKEL-KLETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~--~f~~~~~v~~~~~~-~~~~~~~~i   71 (483)
                      ..++|.|..|+|||+|+..++++. ...+  .--.++++-+++.. .+.++.+++
T Consensus       144 QR~gIfgg~G~GKs~L~~~ia~~~-~~d~~~~~~v~V~~~iGeRgrEv~e~~~~~  197 (460)
T PRK04196        144 QKLPIFSGSGLPHNELAAQIARQA-KVLGEEENFAVVFAAMGITFEEANFFMEDF  197 (460)
T ss_pred             CEEEeeCCCCCCccHHHHHHHHhh-hhccCCCceEEEEEEeccccHHHHHHHHHH
Confidence            478999999999999999998875 2111  11145666655433 345555555

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.32  E-value=0.19  Score=51.88  Aligned_cols=154  Identities=18%  Similarity=0.143  Sum_probs=80.9

Q ss_pred             ChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh--
Q 038724            3 NPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM--   71 (483)
Q Consensus         3 r~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i--   71 (483)
                      ++..+-.+...+...         -..++.++|.+|+||||++++++......--.++|.-.++-+...+...+..-.  
T Consensus       406 ~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~  485 (953)
T KOG0736|consen  406 LEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSR  485 (953)
T ss_pred             chHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHH
Confidence            344455566666532         245889999999999999999999872111112333333333333322222222  


Q ss_pred             hhcCCcEEEEEcCCCCc-------cc------cccccC--CCCCCCCCCEEEEecCC-hhhh------------hccCCh
Q 038724           72 ILSTKKFLLLLDDLWET-------ID------LSKIGV--PLPSQKIVSKVVFTTHS-EEVC------------VDCFTP  123 (483)
Q Consensus        72 ~l~~~~~LlvlDdv~~~-------~~------~~~l~~--~~~~~~~gs~ilvTtR~-~~~~------------l~~L~~  123 (483)
                      +..-.+..|.+-|++--       ++      ...+..  .++...++--++.|+.+ +.+-            ++.+++
T Consensus       486 a~~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i~~~f~~ei~~~~lse  565 (953)
T KOG0736|consen  486 ARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADIQSLFLHEIEVPALSE  565 (953)
T ss_pred             HhhcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHHHHhhhhhccCCCCCH
Confidence            34446677777776411       11      111111  12222333444444433 2222            888999


Q ss_pred             HHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          124 QESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       124 ~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      ++-.++|+.+........    ....+..+.+|.|.-
T Consensus       566 ~qRl~iLq~y~~~~~~n~----~v~~k~~a~~t~gfs  598 (953)
T KOG0736|consen  566 EQRLEILQWYLNHLPLNQ----DVNLKQLARKTSGFS  598 (953)
T ss_pred             HHHHHHHHHHHhccccch----HHHHHHHHHhcCCCC
Confidence            999999988875544211    222445566665543

>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=95.30  E-value=0.018  Score=44.62  Aligned_cols=21  Identities=24%  Similarity=0.344  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 038724           20 GIIGLFGTGGVGKTTILKQIN   40 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~   40 (483)
                      ..++|.|++|.|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            589999999999999999985

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

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=95.30  E-value=0.033  Score=49.31  Aligned_cols=95  Identities=22%  Similarity=0.234  Sum_probs=51.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcc-cCCC-----------CCCEEEEEEeCCCcC----ccchhHHh-------hhcCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFC-SERP-----------GFDVVIWVVVSKELK----LETSQDDM-------ILSTK   76 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~-~~~~-----------~f~~~~~v~~~~~~~----~~~~~~~i-------~l~~~   76 (483)
                      .+++|+|+.|.||||+.+.++.... ...+           .++. .+.......+    ...+..++       .....
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~~~~~~~~g~~~~~~~~~i~~~dq-i~~~~~~~d~i~~~~s~~~~e~~~l~~i~~~~~~  108 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGLAVLLAQIGCFVPAESASIPLVDR-IFTRIGAEDSISDGRSTFMAELLELKEILSLATP  108 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHHHHHHHHcCCCccccccccCCcCE-EEEEecCcccccCCceeHHHHHHHHHHHHHhccC
Confidence            6899999999999999999983210 0011           1121 2222222111    11112222       55578


Q ss_pred             cEEEEEcCCCCcccc-------ccccCCCCCCCCCCEEEEecCChhhh
Q 038724           77 KFLLLLDDLWETIDL-------SKIGVPLPSQKIVSKVVFTTHSEEVC  117 (483)
Q Consensus        77 ~~LlvlDdv~~~~~~-------~~l~~~~~~~~~gs~ilvTtR~~~~~  117 (483)
                      +-++++|+.-..-+.       ..+...+.  ..++.+|++|.+....
T Consensus       109 ~~llllDEp~~gld~~~~~~l~~~ll~~l~--~~~~~vi~~tH~~~~~  154 (202)
T cd03243         109 RSLVLIDELGRGTSTAEGLAIAYAVLEHLL--EKGCRTLFATHFHELA  154 (202)
T ss_pred             CeEEEEecCCCCCCHHHHHHHHHHHHHHHH--hcCCeEEEECChHHHH
Confidence            999999998543221       11122222  2357788888876554

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.29  E-value=0.017  Score=52.15  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|.+|.||||+++.+..-.
T Consensus        40 e~~glVGESG~GKSTlgr~i~~L~   63 (268)
T COG4608          40 ETLGLVGESGCGKSTLGRLILGLE   63 (268)
T ss_pred             CEEEEEecCCCCHHHHHHHHHcCc
Confidence            489999999999999999998755

>PRK06851 hypothetical protein; Provisional

Probab=95.28  E-value=0.026  Score=54.13  Aligned_cols=47  Identities=32%  Similarity=0.355  Sum_probs=35.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCcc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE   65 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~   65 (483)
                      +--+++.|.|++|+||||++++++...  .+..++..++-|.+.+-.++
T Consensus       212 ~~~~~~~i~G~pG~GKstl~~~i~~~a--~~~G~~v~~~hC~~dPdslD  258 (367)
T PRK06851        212 GVKNRYFLKGRPGTGKSTMLKKIAKAA--EERGFDVEVYHCGFDPDSLD  258 (367)
T ss_pred             ccceEEEEeCCCCCcHHHHHHHHHHHH--HhCCCeEEEEeCCCCCCCcc
Confidence            345789999999999999999999987  24567776666666554433

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.28  E-value=0.015  Score=49.95  Aligned_cols=24  Identities=38%  Similarity=0.480  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|+|+.|.||||+|+.+++..
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHc
Confidence            469999999999999999999875

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=95.28  E-value=0.035  Score=54.51  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|-+|+|||+|+..++++.
T Consensus       142 QRigIfagsGvGKs~L~~~i~~~~  165 (466)
T TIGR01040       142 QKIPIFSAAGLPHNEIAAQICRQA  165 (466)
T ss_pred             CeeeeecCCCCCHHHHHHHHHHhh
Confidence            478999999999999999999876

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.27  E-value=0.017  Score=52.88  Aligned_cols=27  Identities=30%  Similarity=0.523  Sum_probs=23.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|.|.+|.||||+|+++++.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999998765

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.27  E-value=0.03  Score=58.05  Aligned_cols=55  Identities=11%  Similarity=0.180  Sum_probs=43.3

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS   59 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~   59 (483)
                      +|.++.++.|..++...  +.+.++|++|+||||+|+.+++...  ..+++..+|..-+
T Consensus        34 igq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~np   88 (637)
T PRK13765         34 IGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPNP   88 (637)
T ss_pred             CChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeCC
Confidence            57788888888878766  4799999999999999999998762  3345677787543

>PTZ00185 ATPase alpha subunit; Provisional

Probab=95.26  E-value=0.049  Score=54.01  Aligned_cols=68  Identities=19%  Similarity=0.199  Sum_probs=45.0

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhccc----CCCCCCEEEEEEeCCCcC-ccchhHHh----------------------
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCS----ERPGFDVVIWVVVSKELK-LETSQDDM----------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~----~~~~f~~~~~v~~~~~~~-~~~~~~~i----------------------   71 (483)
                      ..++|.|..|+|||+|| ..+.++...    ....-+.++++-+++... ..++.+.+                      
T Consensus       190 QR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~  269 (574)
T PTZ00185        190 QRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGL  269 (574)
T ss_pred             CEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHH
Confidence            46899999999999997 556665410    112345677777766543 33333333                      


Q ss_pred             ---------------hhcCCcEEEEEcCCCC
Q 038724           72 ---------------ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        72 ---------------~l~~~~~LlvlDdv~~   87 (483)
                                     .-+++.+|+|+||+..
T Consensus       270 r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        270 QYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence                           3468999999999853

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.25  E-value=0.026  Score=52.05  Aligned_cols=39  Identities=21%  Similarity=0.337  Sum_probs=30.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      -+++.|+|++|+|||++|.+++...   ...-+.++|++...
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~---a~~Ge~vlyis~Ee   74 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQ---ASRGNPVLFVTVES   74 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH---HhCCCcEEEEEecC
Confidence            4689999999999999999987654   12245678888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>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=95.24  E-value=0.017  Score=46.10  Aligned_cols=22  Identities=32%  Similarity=0.631  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|.|..|+|||||.+.++...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999998766

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.

>PRK12338 hypothetical protein; Provisional

Probab=95.24  E-value=0.018  Score=54.03  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.+|.|.|.+|+||||+|.+++.+.
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l   28 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTL   28 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999999976

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.22  E-value=0.033  Score=57.77  Aligned_cols=53  Identities=17%  Similarity=0.209  Sum_probs=39.1

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEE
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVV   57 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~   57 (483)
                      +|.++.++.+..++....  .+.++|++|+|||++|+++++...  ...|...+++.
T Consensus        21 iG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l~--~~~~~~~~~~~   73 (608)
T TIGR00764        21 IGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELLP--DEELEDILVYP   73 (608)
T ss_pred             cCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHcC--chhheeEEEEe
Confidence            577788888888777663  666999999999999999998772  22344444443

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>smart00072 GuKc Guanylate kinase homologues

Probab=95.21  E-value=0.022  Score=49.59  Aligned_cols=25  Identities=36%  Similarity=0.465  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++.|+|++|+||+|++..+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            3689999999999999999998865

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=95.20  E-value=0.042  Score=54.62  Aligned_cols=64  Identities=22%  Similarity=0.341  Sum_probs=44.9

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhcccCCCCCCE-EEEEEeCCCc-CccchhHHh-------------------------
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCSERPGFDV-VIWVVVSKEL-KLETSQDDM-------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~~~~~f~~-~~~v~~~~~~-~~~~~~~~i-------------------------   71 (483)
                      ..++|.|..|+|||+|| ..+.++.     .-+. ++++-+++.. ...++.+.+                         
T Consensus       163 QR~~Ifg~~g~GKT~Lal~~I~~q~-----~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~~  237 (497)
T TIGR03324       163 QRELILGDRQTGKTAIAIDTILNQK-----GRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYI  237 (497)
T ss_pred             CEEEeecCCCCCHHHHHHHHHHHhc-----CCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHHH
Confidence            47899999999999996 5777754     2343 5667666543 344455444                         


Q ss_pred             ------------hhcCCcEEEEEcCCCCc
Q 038724           72 ------------ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ------------~l~~~~~LlvlDdv~~~   88 (483)
                                  .-+++.+|+|+||+...
T Consensus       238 ap~~a~aiAEyfrd~G~~VLlv~DdlTr~  266 (497)
T TIGR03324       238 APYAATSIGEHFMEQGRDVLIVYDDLTQH  266 (497)
T ss_pred             HHHHHHHHHHHHHhCCCCEEEEEcChhHH
Confidence                        45789999999998533

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=95.20  E-value=0.014  Score=48.76  Aligned_cols=23  Identities=35%  Similarity=0.647  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.|+|.+|.||||+|+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998876

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=95.19  E-value=0.059  Score=53.31  Aligned_cols=26  Identities=31%  Similarity=0.546  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-..++|+|..|+|||||++.++...
T Consensus       157 ~Gq~i~I~G~sG~GKStLl~~I~~~~  182 (438)
T PRK07721        157 KGQRVGIFAGSGVGKSTLMGMIARNT  182 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccc
Confidence            34589999999999999999887754

>PLN02165 adenylate isopentenyltransferase

Probab=95.19  E-value=0.011  Score=55.59  Aligned_cols=29  Identities=21%  Similarity=0.434  Sum_probs=24.8

Q ss_pred             hcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           15 VKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        15 ~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+....+++|+|+.|+|||+||..++...
T Consensus        39 ~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         39 QNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             cCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            34445689999999999999999999876

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=95.18  E-value=0.025  Score=52.58  Aligned_cols=23  Identities=26%  Similarity=0.741  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|-||+||||+|..++...
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~l   24 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVAL   24 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Confidence            57888999999999999988876

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.

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=95.17  E-value=0.05  Score=53.84  Aligned_cols=24  Identities=42%  Similarity=0.659  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|..|+|||||++.++...
T Consensus       164 q~~~I~G~sG~GKStLl~~I~~~~  187 (440)
T TIGR01026       164 QRIGIFAGSGVGKSTLLGMIARNT  187 (440)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998755

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.17  E-value=0.013  Score=53.71  Aligned_cols=23  Identities=39%  Similarity=0.629  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.++|++|+||||+|+++++..
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999876

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.

>PRK14532 adenylate kinase; Provisional

Probab=95.16  E-value=0.016  Score=50.59  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|.|++|.||||+|+.+++..
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7889999999999999998865

>PRK04182 cytidylate kinase; Provisional

Probab=95.13  E-value=0.019  Score=49.74  Aligned_cols=23  Identities=35%  Similarity=0.631  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|+.|.||||+|+.++++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~l   24 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999999876

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=95.12  E-value=0.017  Score=50.75  Aligned_cols=22  Identities=32%  Similarity=0.579  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|.|++|+||||+|+.++++.
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998865

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

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

Probab=95.12  E-value=0.075  Score=42.94  Aligned_cols=79  Identities=18%  Similarity=0.299  Sum_probs=29.8

Q ss_pred             CCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEe
Q 038724          317 CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLD  395 (483)
Q Consensus       317 ~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~  395 (483)
                      +++|+.+.+.. .+..+....|..+++|+.+.+..+ +...-...+..+.+|+++.+.. .+..++.. +..+++|+.++
T Consensus        11 ~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~   87 (129)
T PF13306_consen   11 CSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNID   87 (129)
T ss_dssp             -TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEE
T ss_pred             CCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccccccccccc
Confidence            34455555543 344455554555555555555543 2222223344444555555543 33334333 33455555555


Q ss_pred             cCC
Q 038724          396 MDD  398 (483)
Q Consensus       396 l~~  398 (483)
                      +..
T Consensus        88 ~~~   90 (129)
T PF13306_consen   88 IPS   90 (129)
T ss_dssp             ETT
T ss_pred             cCc
Confidence            544

>cd01858 NGP_1 NGP-1

Probab=95.12  E-value=0.037  Score=46.69  Aligned_cols=41  Identities=20%  Similarity=0.327  Sum_probs=28.1

Q ss_pred             ChhHHHHHHHHHh---cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            3 NPKQFYQVWRFLV---KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         3 r~~~~~~l~~~l~---~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++.++.+.+.+.   ......|+++|++|+|||||..++..+.
T Consensus        83 ~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~~~  126 (157)
T cd01858          83 KGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRSKK  126 (157)
T ss_pred             HHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhcCC
Confidence            3444555555442   1223467899999999999999997754

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=95.11  E-value=0.025  Score=53.20  Aligned_cols=24  Identities=29%  Similarity=0.655  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|-||+||||+|..++.-.
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~~L   24 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSHMM   24 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            478888999999999999998876

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.

>PLN02348 phosphoribulokinase

Probab=95.09  E-value=0.025  Score=54.44  Aligned_cols=27  Identities=30%  Similarity=0.633  Sum_probs=24.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +...+|+|.|.+|.||||+|+.+.+.+
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999877

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.09  E-value=0.054  Score=47.89  Aligned_cols=96  Identities=24%  Similarity=0.198  Sum_probs=52.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcc------------cCCCCCCEEEEEEeCCCcCc----c-------chhHHhhhcC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFC------------SERPGFDVVIWVVVSKELKL----E-------TSQDDMILST   75 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~------------~~~~~f~~~~~v~~~~~~~~----~-------~~~~~i~l~~   75 (483)
                      .++++|+|+.|.||||+.+.++--..            ..-..|+. ++.......+.    .       ++..-+....
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~vpa~~~~l~~~d~-I~~~~~~~d~~~~~~S~fs~e~~~~~~il~~~~  107 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMAQIGCFVPAEYATLPIFNR-LLSRLSNDDSMERNLSTFASEMSETAYILDYAD  107 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCCcchhhcCccChhh-eeEecCCccccchhhhHHHHHHHHHHHHHHhcC
Confidence            37899999999999999988752110            00011222 22222221111    1       1111125567


Q ss_pred             CcEEEEEcCCCCcc---c----cccccCCCCCCCCCCEEEEecCChhhh
Q 038724           76 KKFLLLLDDLWETI---D----LSKIGVPLPSQKIVSKVVFTTHSEEVC  117 (483)
Q Consensus        76 ~~~LlvlDdv~~~~---~----~~~l~~~~~~~~~gs~ilvTtR~~~~~  117 (483)
                      ++-|+++|+.....   +    ...+...+..  .++.++++|.+....
T Consensus       108 ~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~  154 (204)
T cd03282         108 GDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIA  154 (204)
T ss_pred             CCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHH
Confidence            88899999984332   1    1122222322  268899999987654

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.08  E-value=0.02  Score=49.08  Aligned_cols=23  Identities=39%  Similarity=0.634  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|+|+.|.||||+|+.+++..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998865

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.08  E-value=0.022  Score=47.22  Aligned_cols=25  Identities=36%  Similarity=0.507  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|+|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            4789999999999999998876644

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.08  E-value=0.017  Score=51.88  Aligned_cols=23  Identities=39%  Similarity=0.563  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|+||||+|+.+++..
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998876

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=95.07  E-value=0.074  Score=45.21  Aligned_cols=22  Identities=36%  Similarity=0.637  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+|+|.+|+|||||..++....
T Consensus         2 i~~vG~~~~GKstLi~~l~~~~   23 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTLF   23 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhhc
Confidence            6899999999999999987643

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PRK13768 GTPase; Provisional

Probab=95.07  E-value=0.031  Score=51.36  Aligned_cols=24  Identities=38%  Similarity=0.594  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+||+||||++..++...
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l   26 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWL   26 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHH
Confidence            578999999999999999988766

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=95.07  E-value=0.031  Score=53.35  Aligned_cols=43  Identities=14%  Similarity=0.325  Sum_probs=34.0

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||-++....|.-.+.+....-|.|.|..|.||||+|+.+++-.
T Consensus        20 vGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         20 VGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             hChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            5666666677666666667778899999999999999996554

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

Probab=95.07  E-value=0.021  Score=48.11  Aligned_cols=24  Identities=33%  Similarity=0.385  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+++||.|+||||+.+++++..
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L   26 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKAL   26 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHc
Confidence            468899999999999999999987

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=95.06  E-value=0.03  Score=52.80  Aligned_cols=25  Identities=28%  Similarity=0.591  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|+|.|-||+||||.+..++...
T Consensus         4 ~~~iai~~KGGvGKTt~~~nLa~~l   28 (295)
T PRK13234          4 LRQIAFYGKGGIGKSTTSQNTLAAL   28 (295)
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            3688888999999999998877655

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.06  E-value=0.05  Score=51.62  Aligned_cols=26  Identities=31%  Similarity=0.565  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++++|++|+||||++..++...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999998877

>PRK06761 hypothetical protein; Provisional

Probab=95.06  E-value=0.042  Score=50.80  Aligned_cols=24  Identities=33%  Similarity=0.461  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|.|.|++|+||||+++.+++..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999999999999987

>PRK06851 hypothetical protein; Provisional

Probab=95.05  E-value=0.033  Score=53.48  Aligned_cols=49  Identities=31%  Similarity=0.431  Sum_probs=36.3

Q ss_pred             cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccc
Q 038724           16 KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLET   66 (483)
Q Consensus        16 ~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~   66 (483)
                      ....+++.|.|.+|+||||+++++.+...  ...|+...+.+.+++-.++-
T Consensus        27 ~~~~~~~il~G~pGtGKStl~~~i~~~~~--~~g~~Ve~~~~~~d~~slDg   75 (367)
T PRK06851         27 DGANRIFILKGGPGTGKSTLMKKIGEEFL--EKGYDVEFLHCSSDNDSLDG   75 (367)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHHHH--HcCCeEEEEEcCCCCCceee
Confidence            34557999999999999999999999872  23577666666665544443

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

Probab=95.05  E-value=0.028  Score=52.22  Aligned_cols=23  Identities=35%  Similarity=0.826  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|++.|-||+||||++..++...
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~L   24 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAF   24 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHH
Confidence            47788999999999998887765

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.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.04  E-value=0.02  Score=51.09  Aligned_cols=24  Identities=29%  Similarity=0.584  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -.|+|.|++|+|||||.+.++--.
T Consensus        30 EfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            389999999999999999997643

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.04  E-value=0.065  Score=50.93  Aligned_cols=35  Identities=26%  Similarity=0.467  Sum_probs=27.4

Q ss_pred             HHHHHHh--cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            9 QVWRFLV--KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         9 ~l~~~l~--~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.+.+.  .+...+|+|.|++|+|||||+.++....
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l   80 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHL   80 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4444443  3467799999999999999999987776

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=95.03  E-value=0.069  Score=52.70  Aligned_cols=25  Identities=40%  Similarity=0.571  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -..++|.|..|+|||||.+.++...
T Consensus       145 Gq~~~I~G~sG~GKStLl~~I~~~~  169 (422)
T TIGR02546       145 GQRIGIFAGAGVGKSTLLGMIARGA  169 (422)
T ss_pred             CCEEEEECCCCCChHHHHHHHhCCC
Confidence            3578999999999999999998755

---

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	483
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-33
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	4e-31
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-28
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-15
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-11
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-10
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-11
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-10
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-10
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-06
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-04
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-15
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-11
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	8e-15
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	7e-12
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-10
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-14
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-11
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	7e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-14
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-11
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	5e-14
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	1e-11
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-13
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-11
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	3e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-13
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-13
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-11
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-11
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-10
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-08
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-13
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-12
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	9e-12
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-11
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	8e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	7e-04
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-07
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	5e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-12
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-11
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-08
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	8e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-13
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-12
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	2e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-07
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-04
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	7e-13
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-13
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-12
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-11
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	9e-13
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-12
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	9e-13
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	6e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-13
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-12
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-11
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-11
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-09
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-12
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-11
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-09
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	8e-07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	6e-11
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-10
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-08
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-11
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-12
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-10
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	5e-10
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-10
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-09
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	4e-12
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-11
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-11
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	9e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	6e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	6e-12
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-08
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-08
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	6e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	6e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	4e-10
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	8e-06
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-11
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-08
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-07
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	7e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	7e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-10
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-09
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	9e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-05
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-11
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	3e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	3e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	5e-10
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	9e-10
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	5e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-11
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	9e-09
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-11
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	6e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	4e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	7e-11
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-10
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	7e-09
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	3e-08
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-10
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-06
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-10
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	9e-05
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-10
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-10
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	6e-09
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	3e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	7e-10
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-08
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	4e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	8e-10
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	1e-09
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	2e-08
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	4e-05
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-09
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-09
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	4e-09
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	2e-09
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	6e-08
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	6e-07
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-09
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	9e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	9e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-09
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-08
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-06
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	9e-09
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-08
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	9e-07
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-06
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-05
3e6j_A	229	Variable lymphocyte receptor diversity region; var	2e-08
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	4e-08
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	1e-06
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	7e-08
3m19_A	251	Variable lymphocyte receptor A diversity region; a	1e-07
3m19_A	251	Variable lymphocyte receptor A diversity region; a	2e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	5e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	4e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-04
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	9e-07
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	2e-06
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	5e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	3e-06
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	1e-04
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	4e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	3e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	1e-05
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	3e-05
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	4e-05
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	6e-05
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	7e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	6e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	6e-04

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

 Score =  132 bits (332), Expect = 2e-33
 Identities = 41/317 (12%), Positives = 84/317 (26%), Gaps = 66/317 (20%)

Query: 14  LVKKDVGIIGLFGTGGVGKTTILKQI-NNRFCSERPGFDVVIWVVVSK------------ 60
           +   D   + L G  G GK+ I  Q  +         +D ++W+  S             
Sbjct: 147 MCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD 206

Query: 61  ---------------------ELKLETSQDDMILSTKKFLLLLDDLWETIDLSKIGVPLP 99
                                 + L+    + ++     L + DD+ +   +        
Sbjct: 207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI------RW 260

Query: 100 SQKIVSKVVFTTHSEEVC-----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKP 148
           +Q++  + + TT   E+            V      E +   +       +         
Sbjct: 261 AQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV--GEKEEDV 318

Query: 149 AKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSAL------QFPGINKVYYR 202
                +   G P  L +  ++    KT E+       L    L             +   
Sbjct: 319 LNKTIELSSGNPATLMMFFKSCE-PKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMA 377

Query: 203 LKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRY 262
           L+   + L  +  RS   F    P    I    L       +    ++E   ++  +R  
Sbjct: 378 LQRCVEVLSDED-RSALAFAVVMPPGVDI-PVKLWSCVIPVDICSNEEEQLDDEVADRLK 435

Query: 263 SINGDLIRASLLEEEED 279
                L +   L   + 
Sbjct: 436 ----RLSKRGALLSGKR 448

>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 =  125 bits (316), Expect = 4e-31
 Identities = 48/314 (15%), Positives = 102/314 (32%), Gaps = 78/314 (24%)

Query: 16  KKDVGIIGLFGTGGVGKTTILKQI-NNRFCSERPGFDVVIWVVVSKE------------- 61
           K + G + + G  G GK+ +  +   +    E      V WV V K+             
Sbjct: 144 KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLC 203

Query: 62  ---LKLETSQDDMILS---------------TKKFLLLLDDLWETIDLSKIGVPLPSQKI 103
               + E+    + L+                 + LL+LDD+W++  L            
Sbjct: 204 TRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQ------ 257

Query: 104 VSKVVFTTHSEEVCVDC------------FTPQESWQVFQMKVGNETLVSHPAIHKPAKM 151
             +++ TT  + V                   ++  ++  + V  +       + + A  
Sbjct: 258 -CQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK----KADLPEQAHS 312

Query: 152 VAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQF------PGINKVYYRLKF 205
           + K+C G PL ++++G  +     P  W+  ++ L     +            +   +  
Sbjct: 313 IIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSI 370

Query: 206 SFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSIN 265
           S + L  D I+  +   S    D ++  + L    W  E   ++D               
Sbjct: 371 SVEMLRED-IKDYYTDLSILQKDVKVPTKVL-CILWDMETEEVEDILQ------------ 416

Query: 266 GDLIRASLLEEEED 279
            + +  SLL  + +
Sbjct: 417 -EFVNKSLLFCDRN 429

>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 =  116 bits (292), Expect = 8e-28
 Identities = 75/510 (14%), Positives = 158/510 (30%), Gaps = 156/510 (30%)

Query: 8   YQVWRF---------LVK-KDVGIIGLFGTGGVGKTT----------------------- 34
           Y V R          L++ +    + + G  G GKT                        
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188

Query: 35  ---------ILKQINNRFCSERPGFDVVIWVVVSKELKLETSQD--DMILSTKKF---LL 80
                    +L+ +        P +        + +L++ + Q     +L +K +   LL
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 81  LLDDLW--ETIDLSKIGVPLPSQKIVSKVVFTT------------HSEEVCVD----CFT 122
           +L ++   +  +   +           K++ TT             +  + +D      T
Sbjct: 249 VLLNVQNAKAWNAFNLS---------CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299

Query: 123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMA-YKKTPEEWKD 181
           P E   +    +            +P  +  +     P  L+I+  ++     T + WK 
Sbjct: 300 PDEVKSLLLKYLD----------CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH 349

Query: 182 AIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYW 241
                          +K+   ++ S + L   + R  F   S FP    I    L +  W
Sbjct: 350 ------------VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL-IW 396

Query: 242 ID----EGIILDDEFDRNKAINRR-----YSINGDLIRASLLEEEED------ILEK--L 284
            D    + +++ ++  +   + ++      SI   +     ++ E +      I++   +
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP-SIYLELKVKLENEYALHRSIVDHYNI 455

Query: 285 RDVVPSDAL----------KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQD-I 333
                SD L            +G   +  + +  +  L          +FL+  +L+  I
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIG-HHLKNIEHPERMTL-------FRMVFLDFRFLEQKI 507

Query: 334 KNGFFQFMPCLKVLNL-----SYNRFLTKLPSGISKLVSLQHLDI-SFTSTLELPEELKA 387
           ++    +     +LN       Y  ++        +LV+     I  F   L   EE   
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN----AILDF---LPKIEE--N 558

Query: 388 LEKLKYLD------MDDHQQVMEEGNCQSD 411
           L   KY D      M + + + EE + Q  
Sbjct: 559 LICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588

>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 = 48.7 bits (115), Expect = 4e-06
 Identities = 54/420 (12%), Positives = 119/420 (28%), Gaps = 143/420 (34%)

Query: 178 EWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLF----CSPFPGDYRIHK 233
           + KD ++ + +S L    I+ +                 +  LF            +  +
Sbjct: 34  DCKD-VQDMPKSILSKEEIDHII--------MSKDAVSGTLRLFWTLLSKQEEMVQKFVE 84

Query: 234 RDLVVNY-WIDEGI--------ILDDEFD--RNKAIN-----RRYSINGDLIRASLLEEE 277
             L +NY ++   I        ++   +   R++  N      +Y+++    R     + 
Sbjct: 85  EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS----RLQPYLKL 140

Query: 278 EDILEKLRD---------------VVPSDALK-------------WLGLRRMSLMNNQIK 309
              L +LR                 V  D                WL L+  +     ++
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200

Query: 310 TLLN---------TPSCPHLLTLFLNDNYLQDIKNGFFQFMP---CL------------- 344
            L           T    H   + L  + +Q       +  P   CL             
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260

Query: 345 ------KVLNLSYNRFLT-KLPSGISKLVSLQHLDISFT--------------STLELPE 383
                 K+L  +  + +T  L +  +  +SL H  ++ T                 +LP 
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320

Query: 384 ELKA-------------------LEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLE 424
           E+                      +  K+++ D    ++E      + AE   ++    +
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE--YRK--MFD 376

Query: 425 QLNIIR----LTSCSLCSL-CGLPT------VQCLTSRRLNLEVEDWHKCTGEVHKVLQS 473
           +L++      + +  L  +   +        V  L    L +E +   + T  +  +   
Sbjct: 377 RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL-VE-KQPKESTISIPSIYLE 434

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 77.8 bits (192), Expect = 1e-15
 Identities = 27/113 (23%), Positives = 47/113 (41%), Gaps = 3/113 (2%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVL 347
           V         L  + L +N +       + P L+ + L+ N L+ I    F  M  L+ L
Sbjct: 220 VRGPVNV--ELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERL 277

Query: 348 NLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
            +S NR L  L      + +L+ LD+S    L +       ++L+ L +D + 
Sbjct: 278 YISNNR-LVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNS 329

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 64.3 bits (157), Expect = 2e-11
 Identities = 25/115 (21%), Positives = 47/115 (40%), Gaps = 7/115 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + + A  +   ++++ +  N I+ L      + P L  L L  N L  +  G F   P L
Sbjct: 84  IDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKL 143

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
             L++S N  L ++         SLQ+L +S      +   L  +  L + ++  
Sbjct: 144 TTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLTHVD--LSLIPSLFHANVSY 195

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 62.4 bits (152), Expect = 1e-10
 Identities = 10/100 (10%), Positives = 39/100 (39%), Gaps = 3/100 (3%)

Query: 301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           + +    +       +  +   +   ++ ++ +          +++LNL+  + + ++ +
Sbjct: 28  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDT 86

Query: 361 GI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
              +   ++Q L + F +   LP    + +  L  L ++ 
Sbjct: 87  YAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLER 126

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 61.6 bits (150), Expect = 2e-10
 Identities = 25/131 (19%), Positives = 43/131 (32%), Gaps = 26/131 (19%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQ-------- 339
           V    +    L   ++  N + TL        +  L  + N +  ++             
Sbjct: 180 VDLSLIP--SLFHANVSYNLLSTL---AIPIAVEELDASHNSINVVRGPVNVELTILKLQ 234

Query: 340 -----------FMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKA 387
                        P L  ++LSYN  L K+      K+  L+ L IS    + L    + 
Sbjct: 235 HNNLTDTAWLLNYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISNNRLVALNLYGQP 293

Query: 388 LEKLKYLDMDD 398
           +  LK LD+  
Sbjct: 294 IPTLKVLDLSH 304

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 48.5 bits (116), Expect = 3e-06
 Identities = 21/103 (20%), Positives = 39/103 (37%), Gaps = 9/103 (8%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTL-LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV 346
           +         L+ + L +N +  +  N P    L  L+L+ N +  +K         LK 
Sbjct: 287 LNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLKLSTHHT---LKN 343

Query: 347 LNLSYNRF----LTKLPSGISKLVSLQHLDISFTSTLELPEEL 385
           L LS+N +    L  L   +++  ++   D       +L   L
Sbjct: 344 LTLSHNDWDCNSLRALFRNVARP-AVDDADQHCKIDYQLEHGL 385

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 9/89 (10%), Positives = 27/89 (30%), Gaps = 3/89 (3%)

Query: 312 LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQH 370
            N         + ++              +   K++    +  + KLP+ +      ++ 
Sbjct: 15  SNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNST-MRKLPAALLDSFRQVEL 73

Query: 371 LDISFTSTLELPEE-LKALEKLKYLDMDD 398
           L+++     E+          ++ L M  
Sbjct: 74  LNLNDLQIEEIDTYAFAYAHTIQKLYMGF 102

>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 = 77.3 bits (190), Expect = 3e-15
 Identities = 27/113 (23%), Positives = 47/113 (41%), Gaps = 3/113 (2%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVL 347
           V         L  + L +N +       + P L+ + L+ N L+ I    F  M  L+ L
Sbjct: 226 VRGPVNV--ELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERL 283

Query: 348 NLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
            +S NR L  L      + +L+ LD+S    L +       ++L+ L +D + 
Sbjct: 284 YISNNR-LVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNS 335

>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 = 65.7 bits (160), Expect = 1e-11
 Identities = 25/115 (21%), Positives = 47/115 (40%), Gaps = 7/115 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + + A  +   ++++ +  N I+ L      + P L  L L  N L  +  G F   P L
Sbjct: 90  IDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKL 149

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
             L++S N  L ++         SLQ+L +S      +   L  +  L + ++  
Sbjct: 150 TTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNRLTHVD--LSLIPSLFHANVSY 201

>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 = 62.3 bits (151), Expect = 2e-10
 Identities = 29/172 (16%), Positives = 55/172 (31%), Gaps = 38/172 (22%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQ-------- 339
           V    +    L   ++  N + TL        +  L  + N +  ++             
Sbjct: 186 VDLSLIP--SLFHANVSYNLLSTL---AIPIAVEELDASHNSINVVRGPVNVELTILKLQ 240

Query: 340 -----------FMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKA 387
                        P L  ++LSYN  L K+      K+  L+ L IS    + L    + 
Sbjct: 241 HNNLTDTAWLLNYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISNNRLVALNLYGQP 299

Query: 388 LEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL 439
           +  LK LD+  +                + +     ++L  + L   S+ +L
Sbjct: 300 IPTLKVLDLSHNHL------------LHVERNQPQFDRLENLYLDHNSIVTL 339

>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 = 61.9 bits (150), Expect = 2e-10
 Identities = 10/100 (10%), Positives = 39/100 (39%), Gaps = 3/100 (3%)

Query: 301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           + +    +       +  +   +   ++ ++ +          +++LNL+  + + ++ +
Sbjct: 34  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDT 92

Query: 361 GI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
              +   ++Q L + F +   LP    + +  L  L ++ 
Sbjct: 93  YAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLER 132

>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 = 47.2 bits (112), Expect = 9e-06
 Identities = 29/176 (16%), Positives = 56/176 (31%), Gaps = 11/176 (6%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTL-LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV 346
           +         L+ + L +N +  +  N P    L  L+L+ N +  +K         LK 
Sbjct: 293 LNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLKLSTH---HTLKN 349

Query: 347 LNLSYNRF----LTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
           L LS+N +    L  L   +++  ++   D       +L   L   E  K     D    
Sbjct: 350 LTLSHNDWDCNSLRALFRNVARP-AVDDADQHCKIDYQLEHGLCCKESDK--PYLDRLLQ 406

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVE 458
                   +  +         + +N ++  S  +    G+P            E+ 
Sbjct: 407 YIALTSVVEKVQRAQGRCSATDTINSVQSLSHYITQQGGVPLQGNEQLEAEVNELR 462

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 9/91 (9%), Positives = 27/91 (29%), Gaps = 3/91 (3%)

Query: 310 TLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSL 368
              N         + ++              +   K++    +  + KLP+ +      +
Sbjct: 19  IDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNST-MRKLPAALLDSFRQV 77

Query: 369 QHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           + L+++     E+          ++ L M  
Sbjct: 78  ELLNLNDLQIEEIDTYAFAYAHTIQKLYMGF 108

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

 Score = 75.9 bits (186), Expect = 8e-15
 Identities = 31/182 (17%), Positives = 67/182 (36%), Gaps = 15/182 (8%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           K++D+     LK   L+ +SL +N I  +      P L +L+L +N + DI       + 
Sbjct: 98  KIKDLSSLKDLK--KLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITV--LSRLT 153

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            L  L+L  N+ ++ +   ++ L  LQ+L +S     +L   L  L+ L  L++      
Sbjct: 154 KLDTLSLEDNQ-ISDI-VPLAGLTKLQNLYLSKNHISDL-RALAGLKNLDVLEL------ 204

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWHK 462
                   +   +    ++    +     +  +   +      +    +    E  +   
Sbjct: 205 --FSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPNVKWHLPEFTNEVS 262

Query: 463 CT 464
             
Sbjct: 263 FI 264

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

 Score = 69.0 bits (168), Expect = 1e-12
 Identities = 40/173 (23%), Positives = 70/173 (40%), Gaps = 22/173 (12%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            + D V  + L    + ++   N+ IK++      P++  LFLN N L DIK      + 
Sbjct: 32  SVTDAVTQNELN--SIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LTNLK 87

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            L  L L  N+ +  L S +  L  L+ L +      ++   L  L +L+ L +      
Sbjct: 88  NLGWLFLDENK-IKDL-SSLKDLKKLKSLSLEHNGISDI-NGLVHLPQLESLYL------ 138

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
              GN +  D   L +    L +L+ + L    +  +  L  +  L +  L L
Sbjct: 139 ---GNNKITDITVLSR----LTKLDTLSLEDNQISDIVPLAGLTKLQN--LYL 182

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

 Score = 66.7 bits (162), Expect = 7e-12
 Identities = 23/118 (19%), Positives = 53/118 (44%), Gaps = 7/118 (5%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            ++ + P DA       + +L    +   +       +  +  N++ ++ ++    Q++P
Sbjct: 10  PIKQIFPDDAFA--ETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLP 65

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
            +  L L+ N+ LT +   ++ L +L  L +      +L   LK L+KLK L ++ + 
Sbjct: 66  NVTKLFLNGNK-LTDI-KPLTNLKNLGWLFLDENKIKDL-SSLKDLKKLKSLSLEHNG 120

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

 Score = 61.7 bits (149), Expect = 3e-10
 Identities = 24/158 (15%), Positives = 55/158 (34%), Gaps = 20/158 (12%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           +     ++  IK +    +    +   L    + D        +  +  +  + +  +  
Sbjct: 1   MGETITVSTPIKQIFPDDAFAETIKDNLKKKSVTDAVT--QNELNSIDQIIANNSD-IKS 57

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLL 417
           +  GI  L ++  L ++     ++ + L  L+ L +L +            +  D  SL 
Sbjct: 58  V-QGIQYLPNVTKLFLNGNKLTDI-KPLTNLKNLGWLFL---------DENKIKDLSSLK 106

Query: 418 KEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
                L++L  + L    +  + GL  +  L S  L L
Sbjct: 107 D----LKKLKSLSLEHNGISDINGLVHLPQLES--LYL 138

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

 Score = 52.8 bits (126), Expect = 2e-07
 Identities = 30/136 (22%), Positives = 47/136 (34%), Gaps = 15/136 (11%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           K+ D+     L    L  +SL +NQI  ++       L  L+L+ N++ D++      + 
Sbjct: 142 KITDITVLSRLT--KLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRA--LAGLK 197

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLD-----------ISFTSTLELPEELKALEKL 391
            L VL L     L K  +  S LV    +            IS     E P     L + 
Sbjct: 198 NLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLVTPEIISDDGDYEKPNVKWHLPEF 257

Query: 392 KYLDMDDHQQVMEEGN 407
                    Q +  G 
Sbjct: 258 TNEVSFIFYQPVTIGK 273

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

 Score = 74.7 bits (184), Expect = 2e-14
 Identities = 40/179 (22%), Positives = 69/179 (38%), Gaps = 18/179 (10%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPS---CPHLLTLFLNDNYLQDIKNGFFQFMPC 343
           + SDA  WLG L  + L  N+I   L         ++  ++L+ N    +    F  +P 
Sbjct: 396 IESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPS 455

Query: 344 LKVLNLSYNRF--LTKLPSGISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDDH 399
           L+ L L       +   PS    L +L  LD+S    + +   + L+ LEKL+ LD+  +
Sbjct: 456 LQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANIN-DDMLEGLEKLEILDLQHN 514

Query: 400 QQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLP--TVQCLTS-RRLNL 455
                  +         LK +  L  LN+             +P    + L   + ++L
Sbjct: 515 NLARLWKHANPGGPIYFLKGLSHLHILNL------ESNGFDEIPVEVFKDLFELKIIDL 567

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

 Score = 71.2 bits (175), Expect = 2e-13
 Identities = 27/115 (23%), Positives = 49/115 (42%), Gaps = 7/115 (6%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           VP D    +    ++L +NQ++ L          L +L +  N +  ++    Q +P LK
Sbjct: 19  VPDDLPTNI--TVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLK 76

Query: 346 VLNLSYNRFLTKLPSG-ISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           VLNL +N  L++L     +   +L  L +   S  ++        + L  LD+  
Sbjct: 77  VLNLQHNE-LSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSH 130

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

 Score = 67.7 bits (166), Expect = 3e-12
 Identities = 30/166 (18%), Positives = 60/166 (36%), Gaps = 14/166 (8%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPC--LKVLNLS 350
           L  L L  + L  +  + L    +   +  L L+++ L    N  F  +    L +L+LS
Sbjct: 197 LFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLS 256

Query: 351 YNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDD--HQQVMEEGN 407
           YN          + L  L++  + + +        L  L  ++YL++     +Q +   +
Sbjct: 257 YNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLAS 316

Query: 408 CQSDDAESLLKEMLCLEQLNIIRLTSCSL-----CSLCGLPTVQCL 448
               D  S       L+ L  + +    +         GL  ++ L
Sbjct: 317 LPKIDDFSFQW----LKCLEHLNMEDNDIPGIKSNMFTGLINLKYL 358

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

 Score = 66.6 bits (163), Expect = 7e-12
 Identities = 39/194 (20%), Positives = 74/194 (38%), Gaps = 32/194 (16%)

Query: 283 KLRDVVPSDALKWLG---LRRMSLMNNQIKTLLNTP----SCPHLLTLFLNDNYLQDIKN 335
           +L   +       L    +R +SL N+Q+ T  NT        +L  L L+ N L  + N
Sbjct: 206 QLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGN 265

Query: 336 GFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD---------ISFTSTLEL-PEEL 385
             F ++P L+   L YN         +  L ++++L+         IS  S  ++     
Sbjct: 266 DSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSF 325

Query: 386 KALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQL----NIIRLTSCSLCSLCG 441
           + L+ L++L+M+         N       ++   ++ L+ L    +   L + +  +   
Sbjct: 326 QWLKCLEHLNME--------DNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVS 377

Query: 442 LPTVQCLTSRRLNL 455
           L          LNL
Sbjct: 378 LAHSPL---HILNL 388

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

 Score = 64.6 bits (158), Expect = 3e-11
 Identities = 36/182 (19%), Positives = 63/182 (34%), Gaps = 38/182 (20%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           +  +  + L  L+ ++L +N++  L +     C +L  L L  N +Q IKN  F     L
Sbjct: 64  LEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNL 123

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS------------------TLEL----- 381
             L+LS+N   +       +L +LQ L +S                      LEL     
Sbjct: 124 ITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQI 183

Query: 382 ----PEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC 437
               P    A+ +L  L ++                   L   L    +  + L++  L 
Sbjct: 184 KEFSPGCFHAIGRLFGLFLN--------NVQLGPSLTEKLCLELANTSIRNLSLSNSQLS 235

Query: 438 SL 439
           + 
Sbjct: 236 TT 237

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

 Score = 64.6 bits (158), Expect = 3e-11
 Identities = 25/120 (20%), Positives = 47/120 (39%), Gaps = 9/120 (7%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPSC------PHLLTLFLNDNYLQDIKNGFFQF 340
           + S+    L  L+ +SL N+       T           L  L L  N +  I++  F +
Sbjct: 344 IKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSW 403

Query: 341 MPCLKVLNLSYNRFLTKLPSG-ISKLVSLQHLDISFTSTLEL-PEELKALEKLKYLDMDD 398
           +  L+VL+L  N    +L       L ++  + +S+   L+L       +  L+ L +  
Sbjct: 404 LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRR 463

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

 Score = 60.4 bits (147), Expect = 7e-10
 Identities = 31/125 (24%), Positives = 51/125 (40%), Gaps = 15/125 (12%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNTP----------SCPHLLTLFLNDNYLQDIKNG 336
           +  D L+ L  L  + L +N +  L                 HL  L L  N   +I   
Sbjct: 495 INDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVE 554

Query: 337 FFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT--STLELPEELKALEKLKY 393
            F+ +  LK+++L  N  L  LP+ + +  VSL+ L++     +++E      A   L  
Sbjct: 555 VFKDLFELKIIDLGLNN-LNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTE 613

Query: 394 LDMDD 398
           LDM  
Sbjct: 614 LDMRF 618

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

 Score = 74.3 bits (183), Expect = 3e-14
 Identities = 24/117 (20%), Positives = 49/117 (41%), Gaps = 6/117 (5%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNTPS-CPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           + S+      GL+ + L    +  L +       L  L L+ N  +++        P L 
Sbjct: 269 ISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLT 328

Query: 346 VLNLSYNRFLTKLPSG-ISKLVSLQHLDISF---TSTLELPEELKALEKLKYLDMDD 398
            L++  N    +L +G +  L +L+ LD+S     ++     +L+ L  L+ L++  
Sbjct: 329 HLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSY 385

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

 Score = 68.9 bits (169), Expect = 1e-12
 Identities = 25/177 (14%), Positives = 50/177 (28%), Gaps = 15/177 (8%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           +  D  +    L  + L  N +  +  T       L  LF     +  I          L
Sbjct: 72  IHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTL 131

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVM 403
           + L L  N   +           L+ LD    +   L +E + +L++   L ++ +    
Sbjct: 132 ESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLN---- 187

Query: 404 EEGNCQSDDAESLLKEMLCLEQL----NIIRLTSCSLCSLCGLPTVQCLTSRRLNLE 456
                     E    +    + L        L          + ++   T   ++ E
Sbjct: 188 ---GNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDE 241

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

 Score = 68.5 bits (168), Expect = 2e-12
 Identities = 23/114 (20%), Positives = 39/114 (34%), Gaps = 5/114 (4%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           +P           +    N + T+ NT      +L  L L    +  I    FQ    L 
Sbjct: 27  IPGTLPNST--ECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLD 84

Query: 346 VLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
            L L+ N  +    + +S   +L+HL    T    +    L   + L+ L +  
Sbjct: 85  TLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGS 138

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

 Score = 64.7 bits (158), Expect = 3e-11
 Identities = 22/108 (20%), Positives = 43/108 (39%), Gaps = 7/108 (6%)

Query: 298 LRRMSLMNNQIKTLLNTP---SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L  + L   ++K         +   L  L L+ + L       F  +P L+ LNL  N F
Sbjct: 402 LELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHF 461

Query: 355 ---LTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
                +  + +  L  L+ L +SF     + +    +L+ + ++D+  
Sbjct: 462 PKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSH 509

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

 Score = 62.3 bits (152), Expect = 1e-10
 Identities = 20/107 (18%), Positives = 42/107 (39%), Gaps = 7/107 (6%)

Query: 298 LRRMSLMNNQIKTLLNTPS-----CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN 352
           L+ ++L  N         +        L  L L+   L  I    F  +  +  ++LS+N
Sbjct: 451 LQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHN 510

Query: 353 RFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDD 398
           R LT         +   +L+++    ++ LP  L  L + + +++  
Sbjct: 511 R-LTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQ 556

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

 Score = 61.2 bits (149), Expect = 4e-10
 Identities = 24/117 (20%), Positives = 41/117 (35%), Gaps = 6/117 (5%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTL----LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
           +   A      + ++    Q   +    L   +   L      D   +DI    F+ +  
Sbjct: 194 IEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCE 253

Query: 344 --LKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
             ++ +NL  + F     +       LQ LD++ T   ELP  L  L  LK L +  
Sbjct: 254 MSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSA 310

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

 Score = 46.5 bits (111), Expect = 1e-05
 Identities = 12/69 (17%), Positives = 26/69 (37%), Gaps = 2/69 (2%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTL-LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           +   A   L  +  + L +N++ +  +   S    + L L  N++  I       +   +
Sbjct: 491 IDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQR 550

Query: 346 VLNLSYNRF 354
            +NL  N  
Sbjct: 551 TINLRQNPL 559

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 71.6 bits (176), Expect = 5e-14
 Identities = 35/150 (23%), Positives = 68/150 (45%), Gaps = 12/150 (8%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           K++D+     LK   L+ +SL +N I  +      P L +L+L +N + DI       + 
Sbjct: 101 KVKDLSSLKDLK--KLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITV--LSRLT 156

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            L  L+L  N+ ++ +   ++ L  LQ+L +S     +L   L  L+ L  L++   + +
Sbjct: 157 KLDTLSLEDNQ-ISDI-VPLAGLTKLQNLYLSKNHISDL-RALAGLKNLDVLELFSQECL 213

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLT 432
            +  N QS+     L     ++  +   +T
Sbjct: 214 NKPINHQSN-----LVVPNTVKNTDGSLVT 238

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 64.3 bits (157), Expect = 1e-11
 Identities = 40/173 (23%), Positives = 70/173 (40%), Gaps = 22/173 (12%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            + D V  + L    + ++   N+ IK++      P++  LFLN N L DIK      + 
Sbjct: 35  SVTDAVTQNELN--SIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLK 90

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            L  L L  N+ +  L S +  L  L+ L +      ++   L  L +L+ L +      
Sbjct: 91  NLGWLFLDENK-VKDL-SSLKDLKKLKSLSLEHNGISDI-NGLVHLPQLESLYL------ 141

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
              GN +  D   L +    L +L+ + L    +  +  L  +  L +  L L
Sbjct: 142 ---GNNKITDITVLSR----LTKLDTLSLEDNQISDIVPLAGLTKLQN--LYL 185

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 71.6 bits (176), Expect = 6e-14
 Identities = 24/106 (22%), Positives = 47/106 (44%), Gaps = 5/106 (4%)

Query: 298 LRRMSLMNNQIKTLLNTP---SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L  +   ++ +K +       S  +L+ L ++  + +   NG F  +  L+VL ++ N F
Sbjct: 103 LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSF 162

Query: 355 LTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
                  I ++L +L  LD+S     +L      +L  L+ L+M  
Sbjct: 163 QENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 208

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 68.5 bits (168), Expect = 6e-13
 Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 9/117 (7%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYL--QDIKNGFFQFMPC 343
           VP+         R+ L +N++++L +        L  L L+ N L  +   +        
Sbjct: 22  VPTGIPSSA--TRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTS 79

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE--LKALEKLKYLDMDD 398
           LK L+LS+N  +  + S    L  L+HLD   ++  ++ E     +L  L YLD+  
Sbjct: 80  LKYLDLSFNG-VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH 135

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 64.3 bits (157), Expect = 2e-11
 Identities = 25/119 (21%), Positives = 44/119 (36%), Gaps = 8/119 (6%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           V  +     L  L  + +  N  +            +L  L L+   L+ +    F  + 
Sbjct: 140 VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLS 199

Query: 343 CLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEEL--KALEKLKYLDMDD 398
            L+VLN+S+N     L +     L SLQ LD S    +   ++        L +L++  
Sbjct: 200 SLQVLNMSHNN-FFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQ 257

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 4/73 (5%)

Query: 286 DVVPSDALKWL-GLRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           + +   A   L  L+ +++ +N   +L   P      L  L  + N++   K    Q  P
Sbjct: 188 EQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFP 247

Query: 343 C-LKVLNLSYNRF 354
             L  LNL+ N F
Sbjct: 248 SSLAFLNLTQNDF 260

>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 = 72.1 bits (176), Expect = 1e-13
 Identities = 30/137 (21%), Positives = 56/137 (40%), Gaps = 16/137 (11%)

Query: 295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           +  +R + L +  +  L +      +  L L+ N L+ +       + CL+VL  S N  
Sbjct: 440 YADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAA-LRCLEVLQASDNA- 497

Query: 355 LTKLPSGISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDDHQQVMEEGN--CQS 410
           L  +  G++ L  LQ L +           + L +  +L  L++        +GN  CQ 
Sbjct: 498 LENVD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNL--------QGNSLCQE 548

Query: 411 DDAESLLKEML-CLEQL 426
           +  +  L EML  +  +
Sbjct: 549 EGIQERLAEMLPSVSSI 565

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 48.6 bits (115), Expect = 3e-06
 Identities = 38/200 (19%), Positives = 71/200 (35%), Gaps = 21/200 (10%)

Query: 263 SINGDLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTL-----LNTPSC 317
           S+    +  S LE  +++ E   +         L +R +  +  + +TL     L     
Sbjct: 357 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP 416

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
                L    +      +        ++VL+L++   LT L   + +L+ + HLD+S   
Sbjct: 417 MRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKD-LTVLC-HLEQLLLVTHLDLSHNR 474

Query: 378 TLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC 437
              LP  L AL  L+ L   D        N   +     +  +  L +L  + L +  L 
Sbjct: 475 LRALPPALAALRCLEVLQASD--------NALEN-----VDGVANLPRLQELLLCNNRLQ 521

Query: 438 SLCGLPTVQCLTS-RRLNLE 456
               +  +        LNL+
Sbjct: 522 QSAAIQPLVSCPRLVLLNLQ 541

>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 = 71.8 bits (176), Expect = 1e-13
 Identities = 25/166 (15%), Positives = 52/166 (31%), Gaps = 4/166 (2%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  ++L  N I  +        L TL L+ N L  +   F      +  ++L  N+ L  
Sbjct: 171 LEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQS-AAGVTWISLRNNK-LVL 228

Query: 358 LPSGISKLVSLQHLDISF--TSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAES 415
           +   +    +L+H D+         L +     ++++ +     +++  +   +      
Sbjct: 229 IEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTL 288

Query: 416 LLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEVEDWH 461
                 C E L                  +    S    LE E  +
Sbjct: 289 GHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETERLECEREN 334

>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 = 70.3 bits (172), Expect = 4e-13
 Identities = 21/114 (18%), Positives = 43/114 (37%), Gaps = 7/114 (6%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNG-FFQFMPCL 344
           V     +  G + + L NN+I  L +        +  L L  N +  +           L
Sbjct: 114 VSCSRGQ--GKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTL 171

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           + LNL YN  +  +   +     L+ LD+S      +  E ++   + ++ + +
Sbjct: 172 EHLNLQYNF-IYDVKGQVV-FAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRN 223

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 64.1 bits (156), Expect = 3e-11
 Identities = 22/103 (21%), Positives = 43/103 (41%), Gaps = 8/103 (7%)

Query: 298 LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
            +   + ++ +K  L +   S  ++  L L+ N L  I          L++LNLS N  L
Sbjct: 12  YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV-L 70

Query: 356 TKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
            +    +  L +L+ LD++        +EL     ++ L   +
Sbjct: 71  YETLD-LESLSTLRTLDLNNNY----VQELLVGPSIETLHAAN 108

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 64.1 bits (156), Expect = 4e-11
 Identities = 23/104 (22%), Positives = 44/104 (42%), Gaps = 10/104 (9%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           LR + L NN ++ L      P + TL   +N +  +     Q     K + L+ N+ +T 
Sbjct: 82  LRTLDLNNNYVQEL---LVGPSIETLHAANNNISRVSCSRGQG---KKNIYLANNK-ITM 134

Query: 358 LPSG-ISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDD 398
           L          +Q+LD+      T+   E   + + L++L++  
Sbjct: 135 LRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY 178

>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 = 61.0 bits (148), Expect = 3e-10
 Identities = 16/103 (15%), Positives = 43/103 (41%), Gaps = 5/103 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           +  +   NN I  + +         ++L +N +  +++        ++ L+L  N  +  
Sbjct: 101 IETLHAANNNISRV-SCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNE-IDT 158

Query: 358 LPSG--ISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           +      +   +L+HL++ +    ++  ++    KLK LD+  
Sbjct: 159 VNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDLSS 200

>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 = 54.5 bits (131), Expect = 4e-08
 Identities = 17/81 (20%), Positives = 35/81 (43%), Gaps = 1/81 (1%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
                  + D+ L+       Q    +K L+LS N       + ++    L+ L++S   
Sbjct: 10  NRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV 69

Query: 378 TLELPEELKALEKLKYLDMDD 398
             E   +L++L  L+ LD+++
Sbjct: 70  LYETL-DLESLSTLRTLDLNN 89

>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 = 52.2 bits (125), Expect = 2e-07
 Identities = 17/156 (10%), Positives = 40/156 (25%), Gaps = 1/156 (0%)

Query: 292 ALKWLGLRRMSLMNNQIKTL-LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
           ALK      +S   ++ + L     +      +       + + +           L   
Sbjct: 309 ALKRKEHALLSGQGSETERLECERENQARQREIDALKEQYRTVIDQVTLRKQAKITLEQK 368

Query: 351 YNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQS 410
                 ++ +G      L          +EL    +    L+ L     +        QS
Sbjct: 369 KKALDEQVSNGRRAHAELDGTLQQAVGQIELQHATEEQSPLQLLRAIVKRYEEMYVEQQS 428

Query: 411 DDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQ 446
               ++    +   +   +   +  L  L G   + 
Sbjct: 429 VQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLA 464

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 70.4 bits (173), Expect = 2e-13
 Identities = 23/164 (14%), Positives = 55/164 (33%), Gaps = 18/164 (10%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPSCPHLLT----LFLNDNYLQDIKNGFFQFMP 342
           +          ++ + L  N+I T+ N             L L  N++ D+K        
Sbjct: 135 LRDLDEGCRSRVQYLDLKLNEIDTV-NFAELAASSDTLEHLNLQYNFIYDVKGQVV--FA 191

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            LK L+LS N+ L  +         +  + +     + + + L+  + L++ D+  +   
Sbjct: 192 KLKTLDLSSNK-LAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGF- 249

Query: 403 MEEGNCQSDDAESLLKEMLCLEQL--NIIRLTSCSLCSLCGLPT 444
                           +   ++ +    ++  +      C +PT
Sbjct: 250 ------HCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPT 287

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 68.5 bits (168), Expect = 6e-13
 Identities = 21/114 (18%), Positives = 43/114 (37%), Gaps = 7/114 (6%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNG-FFQFMPCL 344
           V     +  G + + L NN+I  L +        +  L L  N +  +           L
Sbjct: 114 VSCSRGQ--GKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTL 171

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           + LNL YN  +  +   +     L+ LD+S      +  E ++   + ++ + +
Sbjct: 172 EHLNLQYNF-IYDVKGQVV-FAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRN 223

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 65.4 bits (160), Expect = 7e-12
 Identities = 23/104 (22%), Positives = 44/104 (42%), Gaps = 10/104 (9%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           LR + L NN ++ L      P + TL   +N +  +     Q     K + L+ N+ +T 
Sbjct: 82  LRTLDLNNNYVQEL---LVGPSIETLHAANNNISRVSCSRGQG---KKNIYLANNK-ITM 134

Query: 358 LPSG-ISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDD 398
           L          +Q+LD+      T+   E   + + L++L++  
Sbjct: 135 LRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY 178

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 65.0 bits (159), Expect = 9e-12
 Identities = 16/103 (15%), Positives = 43/103 (41%), Gaps = 5/103 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           +  +   NN I  + +         ++L +N +  +++        ++ L+L  N  +  
Sbjct: 101 IETLHAANNNISRV-SCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNE-IDT 158

Query: 358 LPSG--ISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           +      +   +L+HL++ +    ++  ++    KLK LD+  
Sbjct: 159 VNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDLSS 200

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 63.9 bits (156), Expect = 2e-11
 Identities = 22/103 (21%), Positives = 42/103 (40%), Gaps = 8/103 (7%)

Query: 298 LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
            +   + ++ +K  L +   S  ++  L L+ N L  I          L++LNLS N  L
Sbjct: 12  YKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNV-L 70

Query: 356 TKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
            +    +  L +L+ LD++     EL         ++ L   +
Sbjct: 71  YETLD-LESLSTLRTLDLNNNYVQELLV----GPSIETLHAAN 108

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 56.2 bits (136), Expect = 8e-09
 Identities = 18/82 (21%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG-ISKLVSLQHLDISFT 376
                  + D+ L+       Q    +K L+LS N  L+++ +  ++    L+ L++S  
Sbjct: 10  NRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNP-LSQISAADLAPFTKLELLNLSSN 68

Query: 377 STLELPEELKALEKLKYLDMDD 398
              E   +L++L  L+ LD+++
Sbjct: 69  VLYETL-DLESLSTLRTLDLNN 89

>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 = 71.3 bits (175), Expect = 2e-13
 Identities = 28/119 (23%), Positives = 53/119 (44%), Gaps = 8/119 (6%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           +PS       ++ + L  N+I  + +    +C +L  L L  + +  I+   F  +  L+
Sbjct: 20  IPSGLTA--AMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLE 77

Query: 346 VLNLSYNRFLTKLPSG-ISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDDHQQ 401
            L+LS N  L+ L S     L SL++L++      TL +      L  L+ L + + + 
Sbjct: 78  HLDLSDNH-LSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVET 135

>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 = 69.8 bits (171), Expect = 6e-13
 Identities = 25/119 (21%), Positives = 53/119 (44%), Gaps = 8/119 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIK---NGFFQFM 341
             S     L  ++R+++ N+++  +  +       L  L L++N + +     +      
Sbjct: 301 DLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAW 360

Query: 342 PCLKVLNLSYNRF--LTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           P L+ L LS N    + K    +  L +L  LDIS  +   +P+  +  EK+++L++  
Sbjct: 361 PSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSS 419

>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 = 67.1 bits (164), Expect = 4e-12
 Identities = 25/119 (21%), Positives = 47/119 (39%), Gaps = 11/119 (9%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPS-----CPHLLTLFLNDNYLQDIKN--GFFQ 339
           VP    + L  L  + L  N +       S      P L TL L+ N+L+ ++       
Sbjct: 325 VPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILL 384

Query: 340 FMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
            +  L  L++S N     +P        ++ L++S T    +   +   + L+ LD+ +
Sbjct: 385 TLKNLTSLDISRNT-FHPMPDSCQWPEKMRFLNLSSTGIRVVKTCI--PQTLEVLDVSN 440

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 59.4 bits (144), Expect = 1e-09
 Identities = 24/173 (13%), Positives = 58/173 (33%), Gaps = 14/173 (8%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
           L+ L +            +          L  L +    L++ ++   + +  +  L L 
Sbjct: 125 LQTLRIGN----VETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLH 180

Query: 351 YNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQS 410
            +     L      L S+++L++  T+          ++++         +     +   
Sbjct: 181 LSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESF 240

Query: 411 DDAESLLKEMLCLEQLNIIRLTSCSLCSL--------CGLPTVQCLTSRRLNL 455
           ++   LL+ +L L ++     T   L             L  V+ +T RRL++
Sbjct: 241 NELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHI 293

>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 = 58.6 bits (142), Expect = 2e-09
 Identities = 23/162 (14%), Positives = 53/162 (32%), Gaps = 20/162 (12%)

Query: 302 SLMNNQIKTLLNTPS--CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP 359
               ++   +          +  L +   YL    +  +  +  +K + +  ++ +  +P
Sbjct: 268 DFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSK-VFLVP 326

Query: 360 SGI-SKLVSLQHLDISF----TSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAE 414
                 L SL+ LD+S        L+      A   L+ L +                 +
Sbjct: 327 CSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLS---------QNHLRSMQ 377

Query: 415 SLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTS-RRLNL 455
              + +L L+ L  + ++  +   +    + Q     R LNL
Sbjct: 378 KTGEILLTLKNLTSLDISRNTFHPMP--DSCQWPEKMRFLNL 417

>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 = 52.8 bits (127), Expect = 1e-07
 Identities = 23/89 (25%), Positives = 43/89 (48%), Gaps = 8/89 (8%)

Query: 287 VVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV 346
           VV +   +   L  + + NN + +   +   P L  L+++ N L+ + +      P L V
Sbjct: 424 VVKTCIPQ--TLEVLDVSNNNLDSF--SLFLPRLQELYISRNKLKTLPDASL--FPVLLV 477

Query: 347 LNLSYNRFLTKLPSGI-SKLVSLQHLDIS 374
           + +S N+ L  +P GI  +L SLQ + + 
Sbjct: 478 MKISRNQ-LKSVPDGIFDRLTSLQKIWLH 505

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 49.3 bits (118), Expect = 2e-06
 Identities = 15/57 (26%), Positives = 31/57 (54%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L+ + +  N++KTL +    P LL + ++ N L+ + +G F  +  L+ + L  N +
Sbjct: 453 LQELYISRNKLKTLPDASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIWLHTNPW 509

>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 = 47.8 bits (114), Expect = 5e-06
 Identities = 25/178 (14%), Positives = 55/178 (30%), Gaps = 23/178 (12%)

Query: 293 LKWLGLRRMSLMNNQIKTLL----NTPSCPHLLTLFLNDNYLQDIKNGFFQFMPC----- 343
           +K L  R   L +     LL           +       N L D        +       
Sbjct: 225 MKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVE 284

Query: 344 ---LKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDH 399
              ++ L++        L +  S L  ++ + +  +    +P    + L+ L++LD+ + 
Sbjct: 285 TVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSE- 343

Query: 400 QQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLP-TVQCLTS-RRLNL 455
                  N   ++             L  + L+   L S+      +  L +   L++
Sbjct: 344 -------NLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDI 394

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 41.2 bits (97), Expect = 7e-04
 Identities = 21/100 (21%), Positives = 37/100 (37%), Gaps = 17/100 (17%)

Query: 342 PCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQ 400
               V +       T +PSG++   +++ LD+SF     +    L+A   L+ L +   +
Sbjct: 5   DASGVCDGRSRS-FTSIPSGLTA--AMKSLDLSFNKITYIGHGDLRACANLQVLILKSSR 61

Query: 401 -QVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL 439
              +E     S            L  L  + L+   L SL
Sbjct: 62  INTIEGDAFYS------------LGSLEHLDLSDNHLSSL 89

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 70.4 bits (173), Expect = 4e-13
 Identities = 21/106 (19%), Positives = 43/106 (40%), Gaps = 5/106 (4%)

Query: 298 LRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L+ +   ++ +K +       S   LL L ++    +   +G F  +  L  L ++ N F
Sbjct: 401 LQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSF 460

Query: 355 LTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
                S + +   +L  LD+S     ++       L +L+ L+M  
Sbjct: 461 KDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSH 506

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 68.9 bits (169), Expect = 1e-12
 Identities = 27/119 (22%), Positives = 47/119 (39%), Gaps = 7/119 (5%)

Query: 286 DVVPSDALKWL-GLRRMSLMNNQIKTLLNTP---SCPHLLTLFLNDNYLQDIKNGFFQFM 341
            +        L  L  + +  N  K    +    +  +L  L L+   L+ I  G F  +
Sbjct: 437 KIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTL 496

Query: 342 PCLKVLNLSYNRFLTKLPSG-ISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDD 398
             L++LN+S+N  L  L S   ++L SL  LD SF              + L + ++ +
Sbjct: 497 HRLQLLNMSHNN-LLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTN 554

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 68.5 bits (168), Expect = 2e-12
 Identities = 27/105 (25%), Positives = 44/105 (41%), Gaps = 5/105 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPC--LKVLNLSYNRFL 355
           L+ ++L  N+        + P L  L L+ N L       +  +    L+ L+LS+N   
Sbjct: 330 LKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNG-A 388

Query: 356 TKLPSGISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDD 398
             + +    L  LQHLD   +    +       +LEKL YLD+  
Sbjct: 389 IIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISY 433

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 67.0 bits (164), Expect = 5e-12
 Identities = 27/115 (23%), Positives = 50/115 (43%), Gaps = 7/115 (6%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + S +      L+ + L   +I+T+ +       HL  L L  N +Q    G F  +  L
Sbjct: 47  LKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSL 106

Query: 345 KVLNLSYNRFLTKLPSG-ISKLVSLQHLDISFT--STLELPEELKALEKLKYLDM 396
           + L       L  L S  I +L++L+ L+++     + +LP     L  L ++D+
Sbjct: 107 ENLVAVET-KLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDL 160

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 65.1 bits (159), Expect = 2e-11
 Identities = 36/189 (19%), Positives = 58/189 (30%), Gaps = 39/189 (20%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV 346
                   L  +  MSL    IK L + P      +L +    L+         +P LK 
Sbjct: 276 DDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQF---PTLDLPFLKS 332

Query: 347 LNLSYNRF---------------------LTKLPSGI---SKLVSLQHLDISFTSTLELP 382
           L L+ N+                      L+             SL+HLD+SF   + + 
Sbjct: 333 LTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMS 392

Query: 383 EELKALEKLKYLDMDDHQQVMEEGNC-QSDDAESLLKEMLCLEQLNII--RLTSCSLCSL 439
                LE+L++LD           +  +     S    +  L  L+I             
Sbjct: 393 ANFMGLEELQHLDFQ--------HSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIF 444

Query: 440 CGLPTVQCL 448
            GL ++  L
Sbjct: 445 LGLTSLNTL 453

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 62.4 bits (152), Expect = 1e-10
 Identities = 28/183 (15%), Positives = 69/183 (37%), Gaps = 17/183 (9%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPS---CPHLLTLFLNDNYLQDIKNGFFQFMPC 343
           + S  +  L  L+++++ +N I +           +L+ + L+ NY+Q I     QF+  
Sbjct: 119 LESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRE 178

Query: 344 LK----VLNLSYNRFLTKLPSGISKLVSLQHLDIS--FTSTLELPEELKALEKLKYLDMD 397
                  L++S N  +  +     + + L  L +   F S+  +   L+ L  L    + 
Sbjct: 179 NPQVNLSLDMSLN-PIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLI 237

Query: 398 DHQQVMEEGNCQSDDAESLLKEMLCLEQ----LNIIRLTSCSLCSLCGLPTVQCLTSRRL 453
             +   ++         S+++ +  +      L      S  +     L  V  ++   +
Sbjct: 238 LGE--FKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGV 295

Query: 454 NLE 456
           +++
Sbjct: 296 SIK 298

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 54.3 bits (131), Expect = 5e-08
 Identities = 17/101 (16%), Positives = 35/101 (34%), Gaps = 8/101 (7%)

Query: 302 SLMNNQIKTLLNTPSC--PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP 359
             M+ ++  +   P         + L+ N L+ +K+  F     L+ L+LS    +  + 
Sbjct: 17  QCMDQKLSKV---PDDIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCE-IETIE 72

Query: 360 SG-ISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
                 L  L +L ++              L  L+ L   +
Sbjct: 73  DKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVE 113

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 51.2 bits (123), Expect = 5e-07
 Identities = 14/70 (20%), Positives = 27/70 (38%), Gaps = 3/70 (4%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           +       L  L+ +++ +N +  L ++       L TL  + N ++  K     F   L
Sbjct: 488 ISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSL 547

Query: 345 KVLNLSYNRF 354
              NL+ N  
Sbjct: 548 AFFNLTNNSV 557

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 50.4 bits (121), Expect = 9e-07
 Identities = 16/113 (14%), Positives = 29/113 (25%), Gaps = 9/113 (7%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTPSCPHL-----LTLFLNDNYLQDIKNGFFQFMPCLKVL 347
           L    L      + +   +        L         L            F  +  +  +
Sbjct: 231 LHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAM 290

Query: 348 NLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
           +L+    +  L     K    Q L I      + P     L  LK L +  ++
Sbjct: 291 SLAGVS-IKYLEDV-PKHFKWQSLSIIRCQLKQFPT--LDLPFLKSLTLTMNK 339

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

 Score = 69.8 bits (171), Expect = 5e-13
 Identities = 35/117 (29%), Positives = 56/117 (47%), Gaps = 7/117 (5%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           +  ++ K L  L  + L  N I+T+         +L TL L DN L  I NG F ++  L
Sbjct: 79  IKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKL 138

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTL-ELPEE-LKALEKLKYLDMDD 398
           K L L  N  +  +PS   +++ SL+ LD+     L  + E   + L  L+YL++  
Sbjct: 139 KELWLRNNP-IESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAM 194

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

 Score = 67.1 bits (164), Expect = 4e-12
 Identities = 29/106 (27%), Positives = 48/106 (45%), Gaps = 5/106 (4%)

Query: 297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
             R ++L  NQI+ +         HL  L L+ N+++ I+ G F  +  L  L L  NR 
Sbjct: 65  NTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNR- 123

Query: 355 LTKLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDD 398
           LT +P+G    L  L+ L +       +P      +  L+ LD+ +
Sbjct: 124 LTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGE 169

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

 Score = 64.0 bits (156), Expect = 3e-11
 Identities = 24/114 (21%), Positives = 50/114 (43%), Gaps = 4/114 (3%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV 346
           +   A + L  LR ++L    ++ + N      L  L L+ N+L  I+ G FQ +  L+ 
Sbjct: 176 ISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQK 235

Query: 347 LNLSYNRFLTKLPSG-ISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           L +  ++ +  +       L SL  ++++  +   LP +    L  L+ + +  
Sbjct: 236 LWMIQSQ-IQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHH 288

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

 Score = 59.4 bits (144), Expect = 1e-09
 Identities = 32/118 (27%), Positives = 56/118 (47%), Gaps = 7/118 (5%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLND-NYLQDIKNGFFQFMPC 343
           +P+ A  +L  L+ + L NN I+++ +      P L  L L +   L  I  G F+ +  
Sbjct: 127 IPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSN 186

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQ 400
           L+ LNL+    L ++P+ ++ L+ L  LD+S      +     + L  L+ L M   Q
Sbjct: 187 LRYLNLAMCN-LREIPN-LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQ 242

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

 Score = 53.6 bits (129), Expect = 7e-08
 Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 3/83 (3%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
            +   L L++N +Q IK   F+ +  L++L LS N  +  +  G  + L +L  L++   
Sbjct: 64  TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFDN 122

Query: 377 STLELPEE-LKALEKLKYLDMDD 398
               +P      L KLK L + +
Sbjct: 123 RLTTIPNGAFVYLSKLKELWLRN 145

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

 Score = 47.1 bits (112), Expect = 8e-06
 Identities = 12/69 (17%), Positives = 33/69 (47%), Gaps = 3/69 (4%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
            +   + + L  L+++ ++ +QI+ +      +   L+ + L  N L  + +  F  +  
Sbjct: 221 AIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHH 280

Query: 344 LKVLNLSYN 352
           L+ ++L +N
Sbjct: 281 LERIHLHHN 289

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

 Score = 70.6 bits (173), Expect = 5e-13
 Identities = 37/201 (18%), Positives = 76/201 (37%), Gaps = 15/201 (7%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + S   + L  L+ ++L  N+I  + +       +L  L L+ N L ++ +  F  +P +
Sbjct: 281 LNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKV 340

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDIS---------FTSTLELPEELKALEKLKYLD 395
             ++L  N            L  LQ LD+            S  ++      L  L  ++
Sbjct: 341 AYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKIN 400

Query: 396 MDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNII--RLTSCSLCSLC-GLPTVQCLTSRR 452
           +  +   + E   ++ D    L  +  L+ L +   R +SCS        P+++ L    
Sbjct: 401 LTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGE 460

Query: 453 LNLEVEDWHKCTGEVHKVLQS 473
             L++    +   +V + L  
Sbjct: 461 NMLQLAWETELCWDVFEGLSH 481

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

 Score = 69.4 bits (170), Expect = 1e-12
 Identities = 39/182 (21%), Positives = 68/182 (37%), Gaps = 20/182 (10%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNTPSC---PHLLTLFLNDNYLQDIKNGFFQFMPC 343
           V + +  +L  L+ + L +      ++  +    P+L  L L  + +  +    FQ +  
Sbjct: 39  VTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFH 98

Query: 344 LKVLNLSYNRFLTKL---PSGISKLVSLQHLDISF--TSTLELPEELKALEKLKYLDMDD 398
           L  L L +   L+           L +L  LD+S     +L L      L  LK +D   
Sbjct: 99  LFELRLYFCG-LSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFS- 156

Query: 399 HQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTS-RRLNLEV 457
                   N      E  L+  L  + L+   L + SL S   +   +C+   R + LE+
Sbjct: 157 -------SNQIFLVCEHELEP-LQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEI 208

Query: 458 ED 459
            D
Sbjct: 209 LD 210

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

 Score = 69.1 bits (169), Expect = 2e-12
 Identities = 34/189 (17%), Positives = 73/189 (38%), Gaps = 19/189 (10%)

Query: 267 DLIRASLLEEEEDILEKLRDVVPSDALKWL-GLRRMSLMNNQIKTLLNTP----SCPHLL 321
           D+       +             + +L     +       + IK          +   + 
Sbjct: 210 DVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVR 269

Query: 322 TLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLE 380
            L L+  ++  + +  F+ +  LKVLNL+YN+ + K+       L +LQ L++S+    E
Sbjct: 270 HLDLSHGFVFSLNSRVFETLKDLKVLNLAYNK-INKIADEAFYGLDNLQVLNLSYNLLGE 328

Query: 381 LPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL 439
           L       L K+ Y+D+        + N  +   +   K +  L+ L+   L   +L ++
Sbjct: 329 LYSSNFYGLPKVAYIDL--------QKNHIAIIQDQTFKFLEKLQTLD---LRDNALTTI 377

Query: 440 CGLPTVQCL 448
             +P++  +
Sbjct: 378 HFIPSIPDI 386

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

 Score = 59.4 bits (144), Expect = 2e-09
 Identities = 27/143 (18%), Positives = 53/143 (37%), Gaps = 16/143 (11%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
                L L+ NY++ +    F F+  L++L L        +       L +L+ LD+  +
Sbjct: 24  NTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS 83

Query: 377 STLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDA--ESLLKEMLCLEQLNIIRLTS 433
               L  +  + L  L  L +             SD    +   + +  L +L+   L+ 
Sbjct: 84  KIYFLHPDAFQGLFHLFELRLY--------FCGLSDAVLKDGYFRNLKALTRLD---LSK 132

Query: 434 CSLCSLCGLPTVQCLTS-RRLNL 455
             + SL   P+   L S + ++ 
Sbjct: 133 NQIRSLYLHPSFGKLNSLKSIDF 155

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

 Score = 58.7 bits (142), Expect = 3e-09
 Identities = 36/169 (21%), Positives = 58/169 (34%), Gaps = 15/169 (8%)

Query: 283 KLRDVVPSDALKWLG-LRRMSLMNNQIKTLLNTPSC-------PHLLTLFLNDNYLQDIK 334
           +               L ++ L  N ++    T  C        HL  L+LN NYL  + 
Sbjct: 437 RFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLP 496

Query: 335 NGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYL 394
            G F  +  L+ L+L+ NR LT L        +L+ LDIS    L    +      L  L
Sbjct: 497 PGVFSHLTALRGLSLNSNR-LTVLSHN-DLPANLEILDISRNQLLAPNPD--VFVSLSVL 552

Query: 395 DMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLP 443
           D+  ++ +     C+     + L             +      S  G+ 
Sbjct: 553 DITHNKFI---CECELSTFINWLNHTNVTIAGPPADIYCVYPDSFSGVS 598

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

 Score = 53.7 bits (129), Expect = 1e-07
 Identities = 34/189 (17%), Positives = 66/189 (34%), Gaps = 22/189 (11%)

Query: 287 VVPSDALKWL-GLRRMSLMNNQIKTLLNTPS---CPHLLTLFLNDNYLQDIKNGFFQF-- 340
           V+     + L  L R+ L  NQI++L   PS      L ++  + N +  +     +   
Sbjct: 113 VLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQ 172

Query: 341 MPCLKVLNLSYNRFLTKLPSGISKL------VSLQHLDISFTSTLELPEEL--KALEKLK 392
              L   +L+ N   +++     K       + L+ LD+S              A+ K +
Sbjct: 173 GKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQ 232

Query: 393 YLDMDDHQQVME---EGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTV-QCL 448
              +     +M      +   D  ++     L    +  + L+   + SL     V + L
Sbjct: 233 AFSLILAHHIMGAGFGFHNIKDPDQNTFAG-LARSSVRHLDLSHGFVFSL--NSRVFETL 289

Query: 449 TS-RRLNLE 456
              + LNL 
Sbjct: 290 KDLKVLNLA 298

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

 Score = 40.9 bits (96), Expect = 8e-04
 Identities = 19/88 (21%), Positives = 33/88 (37%), Gaps = 11/88 (12%)

Query: 316 SCPH-LLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDI 373
           SC       F     L  +     Q +   + L LS+N  +  + +     L  LQ L++
Sbjct: 1   SCSFDGRIAFYRFCNLTQV----PQVLNTTERLLLSFNY-IRTVTASSFPFLEQLQLLEL 55

Query: 374 SF---TSTLELPEELKALEKLKYLDMDD 398
                  T++  E  + L  L+ LD+  
Sbjct: 56  GSQYTPLTID-KEAFRNLPNLRILDLGS 82

>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 = 69.7 bits (171), Expect = 7e-13
 Identities = 26/116 (22%), Positives = 50/116 (43%), Gaps = 5/116 (4%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNTP---SCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + S+ L    L  +   ++ +K +       S  +L+ L ++  + +   NG F  +  L
Sbjct: 388 MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSL 447

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDD 398
           +VL ++ N F       I ++L +L  LD+S        P    +L  L+ L+M  
Sbjct: 448 EVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503

>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 = 68.9 bits (169), Expect = 1e-12
 Identities = 28/114 (24%), Positives = 51/114 (44%), Gaps = 5/114 (4%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + S +      L+ + L   +I+T+ +    S  HL TL L  N +Q +  G F  +  L
Sbjct: 43  LGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSL 102

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFT--STLELPEELKALEKLKYLDM 396
           + L        +     I  L +L+ L+++     + +LPE    L  L++LD+
Sbjct: 103 QKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 156

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 64.3 bits (157), Expect = 4e-11
 Identities = 26/116 (22%), Positives = 44/116 (37%), Gaps = 6/116 (5%)

Query: 289 PSDALKWL-GLRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
            +     L  L  + +  N  +            +L  L L+   L+ +    F  +  L
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSL 496

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEK-LKYLDMDD 398
           +VLN+S+N F +        L SLQ LD S         +EL+     L +L++  
Sbjct: 497 QVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQ 552

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 63.1 bits (154), Expect = 8e-11
 Identities = 26/107 (24%), Positives = 42/107 (39%), Gaps = 5/107 (4%)

Query: 296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQF--MPCLKVLNLSYNR 353
             L+R++  +N+     +    P L  L L+ N L               LK L+LS+N 
Sbjct: 325 KSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNG 384

Query: 354 FLTKLPSGISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDD 398
            +  + S    L  L+HLD   +    +       +L  L YLD+  
Sbjct: 385 -VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH 430

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 61.2 bits (149), Expect = 4e-10
 Identities = 23/122 (18%), Positives = 41/122 (33%), Gaps = 21/122 (17%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGF-------------------F 338
           +   SL++  I+ + +         L L +                              
Sbjct: 284 VSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSE 343

Query: 339 QFMPCLKVLNLSYNR--FLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDM 396
             +P L+ L+LS N   F            SL++LD+SF   + +      LE+L++LD 
Sbjct: 344 VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDF 403

Query: 397 DD 398
             
Sbjct: 404 QH 405

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 59.7 bits (145), Expect = 1e-09
 Identities = 23/121 (19%), Positives = 47/121 (38%), Gaps = 8/121 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNG-FFQFMPC 343
           +   A   L  L+++  +   + +L N P      L  L +  N +Q  K   +F  +  
Sbjct: 91  LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTN 150

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQ----HLDISFTSTLELPEELKALEKLKYLDMDDH 399
           L+ L+LS N+  +   + +  L  +      LD+S      +        +L  L + ++
Sbjct: 151 LEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNN 210

Query: 400 Q 400
            
Sbjct: 211 F 211

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 56.2 bits (136), Expect = 1e-08
 Identities = 18/82 (21%), Positives = 28/82 (34%), Gaps = 1/82 (1%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
                L L+ N L+ + +  F   P L+VL+LS     T        L  L  L ++   
Sbjct: 28  FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP 87

Query: 378 -TLELPEELKALEKLKYLDMDD 398
                      L  L+ L   +
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVE 109

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 43.1 bits (102), Expect = 2e-04
 Identities = 28/162 (17%), Positives = 52/162 (32%), Gaps = 16/162 (9%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKN------GFFQFMPCLKV 346
           L+   L      N       +  +   L  L + +  L  +          F  +  +  
Sbjct: 227 LEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSS 286

Query: 347 LNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEG 406
            +L     + ++    S     QHL++      + P     L+ LK L    ++     G
Sbjct: 287 FSLVSVT-IERVKD-FSYNFGWQHLELVNCKFGQFPTLK--LKSLKRLTFTSNK----GG 338

Query: 407 NCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCL 448
           N  S+     L+  L L   N +    C   S  G  +++ L
Sbjct: 339 NAFSEVDLPSLEF-LDL-SRNGLSFKGCCSQSDFGTTSLKYL 378

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 69.4 bits (170), Expect = 8e-13
 Identities = 26/116 (22%), Positives = 51/116 (43%), Gaps = 5/116 (4%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + S+ L    L  +   ++ +K +       S  +L+ L ++  + +   NG F  +  L
Sbjct: 388 MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSL 447

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           +VL ++ N F       I ++L +L  LD+S     +L      +L  L+ L+M  
Sbjct: 448 EVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS 503

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 67.0 bits (164), Expect = 5e-12
 Identities = 30/117 (25%), Positives = 53/117 (45%), Gaps = 7/117 (5%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + S +      L+ + L   +I+T+ +    S  HL TL L  N +Q +  G F  +  L
Sbjct: 43  LGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSL 102

Query: 345 KVLNLSYNRFLTKLPSG-ISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDD 398
           + L       L  L +  I  L +L+ L+++     + +LPE    L  L++LD+  
Sbjct: 103 QKLVAVETN-LASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 63.6 bits (155), Expect = 6e-11
 Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 6/92 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
             +     L  L  + +  N  +            +L  L L+   L+ +    F  +  
Sbjct: 436 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 495

Query: 344 LKVLNLSYNRFLTKLPSGI-SKLVSLQHLDIS 374
           L+VLN++ N+ L  +P GI  +L SLQ + + 
Sbjct: 496 LQVLNMASNQ-LKSVPDGIFDRLTSLQKIWLH 526

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 63.6 bits (155), Expect = 7e-11
 Identities = 34/185 (18%), Positives = 68/185 (36%), Gaps = 13/185 (7%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNG-FFQFMPC 343
           +   A   L  L+++  +   + +L N P      L  L +  N +Q  K   +F  +  
Sbjct: 91  LALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTN 150

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQ----HLDISFTSTLELPEELKALEKLKYLDMDDH 399
           L+ L+LS N+  +   + +  L  +      LD+S      +        +L  L + ++
Sbjct: 151 LEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNN 210

Query: 400 QQVMEEGNCQSDDAESLLKEMLCLEQL----NIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
              +            L    L L +     N+ +    +L  LC L T++      L+ 
Sbjct: 211 FDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNL-TIEEFRLAYLDY 269

Query: 456 EVEDW 460
            ++D 
Sbjct: 270 YLDDI 274

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 58.6 bits (142), Expect = 2e-09
 Identities = 25/111 (22%), Positives = 41/111 (36%), Gaps = 5/111 (4%)

Query: 290 SDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNL 349
            D     G + + L+N +            L  L    N   +        +P L+ L+L
Sbjct: 298 KDFSYNFGWQHLELVNCKFGQFPTL-KLKSLKRLTFTSNKGGNA--FSEVDLPSLEFLDL 354

Query: 350 SYNR--FLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           S N   F            SL++LD+SF   + +      LE+L++LD   
Sbjct: 355 SRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH 405

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 55.5 bits (134), Expect = 2e-08
 Identities = 26/141 (18%), Positives = 46/141 (32%), Gaps = 15/141 (10%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG-ISKLVSLQHLDISFT 376
                L L+ N L+ + +  F   P L+VL+LS    +  +  G    L  L  L ++  
Sbjct: 28  FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTGN 86

Query: 377 STLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS 435
               L       L  L+ L   +           +      +     L+ L  + +    
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVE--------TNLASLENFPIGH---LKTLKELNVAHNL 135

Query: 436 LCSLCGLPTVQCLTS-RRLNL 455
           + S         LT+   L+L
Sbjct: 136 IQSFKLPEYFSNLTNLEHLDL 156

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 47.0 bits (112), Expect = 1e-05
 Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 3/75 (4%)

Query: 283 KLRDVVPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQ 339
             ++    D    L  L  + L   Q++ L  T   S   L  L +  N L+ + +G F 
Sbjct: 456 SFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFD 515

Query: 340 FMPCLKVLNLSYNRF 354
            +  L+ + L  N +
Sbjct: 516 RLTSLQKIWLHTNPW 530

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

 Score = 66.1 bits (162), Expect = 9e-13
 Identities = 25/146 (17%), Positives = 52/146 (35%), Gaps = 15/146 (10%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  ++L N  +  L       ++  L +N+ +  +        +  L+ L +      + 
Sbjct: 46  LTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNP--ISGLSNLERLRIMGKDVTSD 103

Query: 358 LPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESL 416
               +S L SL  LDIS ++    +  ++  L K+  +D+          N    D   L
Sbjct: 104 KIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLS--------YNGAITDIMPL 155

Query: 417 LKEMLCLEQLNIIRLTSCSLCSLCGL 442
                 L +L  + +    +    G+
Sbjct: 156 KT----LPELKSLNIQFDGVHDYRGI 177

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

 Score = 65.0 bits (159), Expect = 2e-12
 Identities = 21/131 (16%), Positives = 49/131 (37%), Gaps = 10/131 (7%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           ++ +++ N             +L  L +    +   K      +  L +L++S++     
Sbjct: 68  IKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDS 127

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLL 417
           + + I+ L  +  +D+S+   +     LK L +LK L++               D    +
Sbjct: 128 ILTKINTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQ---------FDGVHDYRG-I 177

Query: 418 KEMLCLEQLNI 428
           ++   L QL  
Sbjct: 178 EDFPKLNQLYA 188

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

 Score = 55.0 bits (133), Expect = 5e-09
 Identities = 27/157 (17%), Positives = 55/157 (35%), Gaps = 20/157 (12%)

Query: 276 EEEDILEKLRDVV--PSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDI 333
            E+  L+  +D V  P    K        L  +    +        L  + L +  + D+
Sbjct: 3   AEQTGLKASQDNVNIPDSTFKAY--LNGLLGQSSTANITEA-QMNSLTYITLANINVTDL 59

Query: 334 KNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLK 392
                ++   +K L ++     T   + IS L +L+ L I     T +    L  L  L 
Sbjct: 60  TG--IEYAHNIKDLTINNIH-ATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLT 115

Query: 393 YLDMDDHQQVMEEGNCQSDDAE-SLLKEMLCLEQLNI 428
            LD+          +   DD+  + +  +  +  +++
Sbjct: 116 LLDI---------SHSAHDDSILTKINTLPKVNSIDL 143

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 68.9 bits (169), Expect = 9e-13
 Identities = 31/149 (20%), Positives = 55/149 (36%), Gaps = 8/149 (5%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  ++  NNQ++ L    + P L  ++ ++N L+ + +        L+ +    N  L +
Sbjct: 175 LEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLS----LESIVAGNNI-LEE 229

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLL 417
           LP  +  L  L  +         LP+   +LE L   D           +    D    +
Sbjct: 230 LPE-LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENI 288

Query: 418 KEML--CLEQLNIIRLTSCSLCSLCGLPT 444
              L      L  +  +S  + SLC LP 
Sbjct: 289 FSGLSELPPNLYYLNASSNEIRSLCDLPP 317

>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 = 56.9 bits (138), Expect = 7e-09
 Identities = 26/94 (27%), Positives = 44/94 (46%), Gaps = 10/94 (10%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  + +  N    L   P  P+L  L  + N ++ +        P L+ LN+S N+ L +
Sbjct: 279 LTFLDVSENIFSGLSELP--PNLYYLNASSNEIRSL----CDLPPSLEELNVSNNK-LIE 331

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKL 391
           LP+   +L   + L  SF    E+PE  + L++L
Sbjct: 332 LPALPPRL---ERLIASFNHLAEVPELPQNLKQL 362

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 55.0 bits (133), Expect = 3e-08
 Identities = 21/97 (21%), Positives = 33/97 (34%), Gaps = 7/97 (7%)

Query: 294 KWLGLRRMSLMNNQIKTLLNTPSCP--HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSY 351
           +W           +   +     C       L LN+  L  +          L+ L  S 
Sbjct: 45  EWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSSLPELPPH----LESLVASC 100

Query: 352 NRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKAL 388
           N  LT+LP     L SL   + +  +  +LP  L+ L
Sbjct: 101 NS-LTELPELPQSLKSLLVDNNNLKALSDLPPLLEYL 136

>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 = 53.5 bits (129), Expect = 7e-08
 Identities = 22/117 (18%), Positives = 43/117 (36%), Gaps = 23/117 (19%)

Query: 295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
              L  +++ NN++  L      P L  L  + N+L ++          LK L++ YN  
Sbjct: 316 PPSLEELNVSNNKLIEL--PALPPRLERLIASFNHLAEVPELPQN----LKQLHVEYNP- 368

Query: 355 LTKLPSGISKLV----------------SLQHLDISFTSTLELPEELKALEKLKYLD 395
           L + P     +                 +L+ L +      E P+  +++E L+   
Sbjct: 369 LREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLREFPDIPESVEDLRMNS 425

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 50.8 bits (122), Expect = 6e-07
 Identities = 14/98 (14%), Positives = 33/98 (33%), Gaps = 8/98 (8%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L+++ +  N ++     P  P  +     +++L ++          LK L++  N  L +
Sbjct: 359 LKQLHVEYNPLREF---PDIPESVEDLRMNSHLAEVPE----LPQNLKQLHVETNP-LRE 410

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLD 395
            P     +  L+          E   E     +    +
Sbjct: 411 FPDIPESVEDLRMNSERVVDPYEFAHETTDKLEDDVFE 448

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 69.0 bits (169), Expect = 9e-13
 Identities = 35/158 (22%), Positives = 66/158 (41%), Gaps = 17/158 (10%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
           ++P      L  L ++ +  N+I  LL+       +L +L + DN L  I +  F  +  
Sbjct: 94  LIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNS 153

Query: 344 LKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQ 401
           L+ L L     LT +P+   S L  L  L +   +   + +   K L +LK L++     
Sbjct: 154 LEQLTLEKCN-LTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPY 212

Query: 402 VMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL 439
           +    +  + +    L     L  L+   +T C+L ++
Sbjct: 213 L----DTMTPNCLYGLN----LTSLS---ITHCNLTAV 239

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 68.6 bits (168), Expect = 1e-12
 Identities = 22/115 (19%), Positives = 50/115 (43%), Gaps = 4/115 (3%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           +   A   L  L +++L    + ++          L+ L L    +  I++  F+ +  L
Sbjct: 143 ISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRL 202

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           KVL +S+  +L  +       ++L  L I+  +   +P   ++ L  L++L++  
Sbjct: 203 KVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSY 257

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 65.5 bits (160), Expect = 1e-11
 Identities = 24/117 (20%), Positives = 46/117 (39%), Gaps = 6/117 (5%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
            +  D       L  + L  N +  +      +  +L TL L  N L+ I  G F  +  
Sbjct: 46  TLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSN 105

Query: 344 LKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           L  L++S N+ +  L   +   L +L+ L++     + +       L  L+ L ++ 
Sbjct: 106 LTKLDISENK-IVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEK 161

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 64.0 bits (156), Expect = 4e-11
 Identities = 20/116 (17%), Positives = 47/116 (40%), Gaps = 6/116 (5%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLL--NTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           +   + K L  L+ + + +      +  N     +L +L +    L  +     + +  L
Sbjct: 191 IRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYL 250

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           + LNLSYN  ++ +   +  +L+ LQ + +       +     + L  L+ L++  
Sbjct: 251 RFLNLSYNP-ISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSG 305

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 58.6 bits (142), Expect = 2e-09
 Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 5/91 (5%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           VP  A++ L  LR ++L  N I T+  +       L  + L    L  ++   F+ +  L
Sbjct: 239 VPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYL 298

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDIS 374
           +VLN+S N+ LT L   +   + +L+ L + 
Sbjct: 299 RVLNVSGNQ-LTTLEESVFHSVGNLETLILD 328

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 53.2 bits (128), Expect = 1e-07
 Identities = 18/83 (21%), Positives = 33/83 (39%), Gaps = 3/83 (3%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
                L L  N ++ +    F   P L+ L L+ N  ++ +  G  + L +L+ L +   
Sbjct: 32  TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENI-VSAVEPGAFNNLFNLRTLGLRSN 90

Query: 377 STLELPEE-LKALEKLKYLDMDD 398
               +P      L  L  LD+ +
Sbjct: 91  RLKLIPLGVFTGLSNLTKLDISE 113

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 67.3 bits (165), Expect = 1e-12
 Identities = 28/106 (26%), Positives = 44/106 (41%), Gaps = 4/106 (3%)

Query: 297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
             +R+ L  N+I  +      +C +L  L+L+ N L  I    F  +  L+ L+LS N  
Sbjct: 33  ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ 92

Query: 355 LTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           L  +       L  L  L +      EL     + L  L+YL + D
Sbjct: 93  LRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD 138

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 64.2 bits (157), Expect = 1e-11
 Identities = 27/120 (22%), Positives = 43/120 (35%), Gaps = 12/120 (10%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNTPS-----CPHLLTLFLNDNYLQDIKNGFFQF 340
            V       LG L  + L    ++ L             L  L+L DN LQ + +  F+ 
Sbjct: 95  SVDPATFHGLGRLHTLHLDRCGLQEL---GPGLFRGLAALQYLYLQDNALQALPDDTFRD 151

Query: 341 MPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           +  L  L L  NR ++ +P      L SL  L +       +     + L +L  L +  
Sbjct: 152 LGNLTHLFLHGNR-ISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFA 210

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 56.2 bits (136), Expect = 5e-09
 Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 5/92 (5%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
            +P D  + LG L  + L  N+I ++          L  L L+ N +  +    F+ +  
Sbjct: 143 ALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGR 202

Query: 344 LKVLNLSYNRFLTKLPSGI-SKLVSLQHLDIS 374
           L  L L  N  L+ LP+   + L +LQ+L ++
Sbjct: 203 LMTLYLFANN-LSALPTEALAPLRALQYLRLN 233

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 49.6 bits (119), Expect = 8e-07
 Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 4/84 (4%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
                +FL+ N +  +    F+    L +L L  N  L ++ +   + L  L+ LD+S  
Sbjct: 32  AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV-LARIDAAAFTGLALLEQLDLSDN 90

Query: 377 STL-ELPEE-LKALEKLKYLDMDD 398
           + L  +       L +L  L +D 
Sbjct: 91  AQLRSVDPATFHGLGRLHTLHLDR 114

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 45.8 bits (109), Expect = 1e-05
 Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 3/69 (4%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
            VP  A + L  L R+ L  N++  +          L+TL+L  N L  +       +  
Sbjct: 167 SVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRA 226

Query: 344 LKVLNLSYN 352
           L+ L L+ N
Sbjct: 227 LQYLRLNDN 235

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

 Score = 68.0 bits (167), Expect = 1e-12
 Identities = 21/101 (20%), Positives = 43/101 (42%), Gaps = 4/101 (3%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  ++L  NQI  +    +   L  L++  N + DI     Q +  L+ L L+ +  ++ 
Sbjct: 68  LEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDISA--LQNLTNLRELYLNEDN-ISD 124

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           +   ++ L  +  L++     L     L  +  L YL + +
Sbjct: 125 ISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTE 164

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

 Score = 64.1 bits (157), Expect = 2e-11
 Identities = 25/117 (21%), Positives = 49/117 (41%), Gaps = 7/117 (5%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           ++ D+ P   +    L  + + NN+I  L    +   L  L +  N + DI     + + 
Sbjct: 210 QITDITPVANMT--RLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDINA--VKDLT 265

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDD 398
            LK+LN+  N+ ++ +   ++ L  L  L ++      E  E +  L  L  L +  
Sbjct: 266 KLKMLNVGSNQ-ISDISV-LNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQ 320

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

 Score = 62.9 bits (154), Expect = 5e-11
 Identities = 22/101 (21%), Positives = 37/101 (36%), Gaps = 3/101 (2%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  + +  NQI  +        L  L +  N + DI       +  L  L L+ N+   +
Sbjct: 245 LTWLEIGTNQISDINAVKDLTKLKMLNVGSNQISDISV--LNNLSQLNSLFLNNNQLGNE 302

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
               I  L +L  L +S    +     L +L K+   D  +
Sbjct: 303 DMEVIGGLTNLTTLFLSQNH-ITDIRPLASLSKMDSADFAN 342

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

 Score = 62.9 bits (154), Expect = 6e-11
 Identities = 20/103 (19%), Positives = 43/103 (41%), Gaps = 5/103 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
             R  L    +  ++       +  L +    +  I+    +++  L+ LNL+ N+ +T 
Sbjct: 24  GIRAVLQKASVTDVVTQEELESITKLVVAGEKVASIQG--IEYLTNLEYLNLNGNQ-ITD 80

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
           +   +S LV L +L I     +     L+ L  L+ L +++  
Sbjct: 81  ISP-LSNLVKLTNLYIGTNK-ITDISALQNLTNLRELYLNEDN 121

>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 = 59.9 bits (146), Expect = 5e-10
 Identities = 15/102 (14%), Positives = 38/102 (37%), Gaps = 5/102 (4%)

Query: 297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
           G   ++ +   I  +         +   L    + D+     + +  +  L ++  + + 
Sbjct: 1   GAATLATLPAPINQIFPDADLAEGIRAVLQKASVTDVVT--QEELESITKLVVAGEK-VA 57

Query: 357 KLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
            +  GI  L +L++L+++    +     L  L KL  L +  
Sbjct: 58  SIQ-GIEYLTNLEYLNLNGNQ-ITDISPLSNLVKLTNLYIGT 97

>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 = 59.9 bits (146), Expect = 5e-10
 Identities = 19/101 (18%), Positives = 42/101 (41%), Gaps = 5/101 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +++  +++K +    +   L +L LN N ++DI       +  L       N+ +T 
Sbjct: 157 LNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISP--LASLTSLHYFTAYVNQ-ITD 213

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           +   ++ +  L  L I     +     L  L +L +L++  
Sbjct: 214 ITP-VANMTRLNSLKIGNNK-ITDLSPLANLSQLTWLEIGT 252

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

 Score = 54.5 bits (132), Expect = 3e-08
 Identities = 20/117 (17%), Positives = 49/117 (41%), Gaps = 8/117 (6%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFM 341
            + D+ P   L    +  ++L  N   + L+   +   L  L + ++ ++D+       +
Sbjct: 121 NISDISPLANLT--KMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP--IANL 176

Query: 342 PCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
             L  L+L+YN+ +  + S ++ L SL +        +     +  + +L  L + +
Sbjct: 177 TDLYSLSLNYNQ-IEDI-SPLASLTSLHYFTAYVNQ-ITDITPVANMTRLNSLKIGN 230

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

 Score = 69.1 bits (169), Expect = 1e-12
 Identities = 20/125 (16%), Positives = 48/125 (38%), Gaps = 10/125 (8%)

Query: 283 KLRDVVPSDALKWL-GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFM 341
            L +   S +L+ +  L  +  ++N+++ L    +   L  L L+ N +++I   F  F 
Sbjct: 559 NLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFT 618

Query: 342 PCLKVLNLSYNRFLTKLPS--GISKLVSLQHLDISFTSTLELPEEL------KALEKLKY 393
             ++ L  S+N+ L  +P+      +  +  +D S+         +              
Sbjct: 619 DQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINAST 677

Query: 394 LDMDD 398
           + +  
Sbjct: 678 VTLSY 682

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

 Score = 68.4 bits (167), Expect = 2e-12
 Identities = 29/162 (17%), Positives = 62/162 (38%), Gaps = 17/162 (10%)

Query: 289 PSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDI-------KNGFFQ 339
             D  K +    ++L  N+I+        +   + T+ L++N +  I       K+G ++
Sbjct: 666 SMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYK 725

Query: 340 FMPCLKVLNLSYNRFLTKLPSGI--SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
               L  ++L +N+ LT L      + L  L ++D+S+      P +     +LK   + 
Sbjct: 726 NTYLLTTIDLRFNK-LTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIR 784

Query: 398 DHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL 439
             +    EGN            +     L  +++ S  +  +
Sbjct: 785 HQRDA--EGNRIL---RQWPTGITTCPSLIQLQIGSNDIRKV 821

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

 Score = 68.0 bits (166), Expect = 3e-12
 Identities = 25/170 (14%), Positives = 50/170 (29%), Gaps = 29/170 (17%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L+ +   N+                   +     + +   +  +  L  + L     +T+
Sbjct: 450 LQIIYFANSPFTYD---NIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQ 506

Query: 358 LPSGISKLVSLQHLDISF----------TSTLELPEELKALEKLKYLDMDDHQQVMEEGN 407
           LP  +  L  LQ L+I+                L ++     K++   M          N
Sbjct: 507 LPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGY--------N 558

Query: 408 C-QSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTS-RRLNL 455
             +   A + L++M+ L  L+      C    +  L           L L
Sbjct: 559 NLEEFPASASLQKMVKLGLLD------CVHNKVRHLEAFGTNVKLTDLKL 602

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

 Score = 66.1 bits (161), Expect = 1e-11
 Identities = 27/130 (20%), Positives = 47/130 (36%), Gaps = 12/130 (9%)

Query: 278 EDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTL---LNTPSCPHLLTLFLNDNYLQDIK 334
             I E        +      L  + L  N++ +L       + P+L  + ++ N      
Sbjct: 710 TSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFP 769

Query: 335 NGFFQFMPCLKVLNLSY------NRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKAL 388
                    LK   + +      NR L + P+GI+   SL  L I      ++ E+L   
Sbjct: 770 TQPLN-SSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEKL--T 826

Query: 389 EKLKYLDMDD 398
            +L  LD+ D
Sbjct: 827 PQLYILDIAD 836

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

 Score = 63.0 bits (153), Expect = 1e-10
 Identities = 22/133 (16%), Positives = 44/133 (33%), Gaps = 17/133 (12%)

Query: 283 KLRDVVPSDALKWL-GLRRMSLMNNQIKTL-------LNTPSCPHLLTLFLNDNYLQDIK 334
           KL+ +      K +  +  +    N+I +        ++     +  T+ L+ N +Q   
Sbjct: 630 KLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFP 689

Query: 335 NGFFQFMPCLKVLNLSYNRF-------LTKLPSGISKLVSLQHLDISFTSTLELPEELKA 387
              F     +  + LS N         L            L  +D+ F     L ++ +A
Sbjct: 690 TELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRA 749

Query: 388 --LEKLKYLDMDD 398
             L  L  +D+  
Sbjct: 750 TTLPYLSNMDVSY 762

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

 Score = 44.5 bits (105), Expect = 6e-05
 Identities = 17/173 (9%), Positives = 39/173 (22%), Gaps = 38/173 (21%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLND---NYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L+ +S   +             L      +         K  F  +   L + +L  +  
Sbjct: 349 LKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAI 408

Query: 355 ----------------------------LTKLPSGISKLVSLQHLDISFTSTLELPEELK 386
                                       +T +   I +L  LQ +  + +        + 
Sbjct: 409 NRNPEMKPIKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVD 468

Query: 387 ALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL 439
             +           + +   N +       L + + L     +      L  L
Sbjct: 469 WEDANSDYAKQYENEELSWSNLKD------LTD-VELYNCPNMTQLPDFLYDL 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 = 43.7 bits (103), Expect = 1e-04
 Identities = 11/115 (9%), Positives = 35/115 (30%), Gaps = 12/115 (10%)

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQHLDIS---FTSTLELPEELKALEKLKYLDMDDHQ 400
           +  L+L+      ++P  I +L  L+ L       T +  L  + +    +         
Sbjct: 325 VTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEE------ 378

Query: 401 QVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
               +   +    +  L     L   ++++        +  +     ++ +   +
Sbjct: 379 ---RKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQI 430

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 67.3 bits (165), Expect = 2e-12
 Identities = 26/120 (21%), Positives = 51/120 (42%), Gaps = 12/120 (10%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTL-LNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           +P D  +   L  + L +N+I+ + L        L  L L  N ++ I+NG   F+P L+
Sbjct: 187 IPKDLPE--TLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLR 244

Query: 346 VLNLSYNRFLTKLPSGISKLVSLQHLDISF-------TSTLELPEELKALEKLKYLDMDD 398
            L+L  N+ L+++P+G+  L  LQ + +          +                + + +
Sbjct: 245 ELHLDNNK-LSRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFN 303

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 60.8 bits (148), Expect = 2e-10
 Identities = 25/105 (23%), Positives = 40/105 (38%), Gaps = 6/105 (5%)

Query: 297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
               + L NN I  L         HL  L L +N +  I    F  +  L+ L +S N  
Sbjct: 55  DTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNH- 113

Query: 355 LTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           L ++P  +    SL  L I      ++P+     L  +  ++M  
Sbjct: 114 LVEIPPNLPS--SLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGG 156

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 60.0 bits (146), Expect = 5e-10
 Identities = 24/114 (21%), Positives = 48/114 (42%), Gaps = 7/114 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTL-LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           +   A   L  L+++ +  N +  +  N P    L+ L ++DN ++ +  G F  +  + 
Sbjct: 93  IHEKAFSPLRKLQKLYISKNHLVEIPPNLP--SSLVELRIHDNRIRKVPKGVFSGLRNMN 150

Query: 346 VLNLSYNRF-LTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
            + +  N    +    G    + L +L IS      +P++L   E L  L +D 
Sbjct: 151 CIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDL--PETLNELHLDH 202

>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 = 67.3 bits (165), Expect = 2e-12
 Identities = 27/169 (15%), Positives = 51/169 (30%), Gaps = 24/169 (14%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLND-NYLQDIKNGFFQF-MPCLKVLNLSYNRFL 355
            +R    +          +  +   +       L+   +       P    L L     L
Sbjct: 35  WQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSVP-L 93

Query: 356 TKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAES 415
            + P    +L  LQH+ I     +ELP+ ++    L+ L +                  +
Sbjct: 94  PQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLA---------RNP---LRA 141

Query: 416 LLKEMLCLEQLNIIRLTSC--------SLCSLCGLPTVQCLTS-RRLNL 455
           L   +  L +L  + + +C         L S       Q L + + L L
Sbjct: 142 LPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRL 190

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

 Score = 66.5 bits (163), Expect = 3e-12
 Identities = 27/107 (25%), Positives = 40/107 (37%), Gaps = 4/107 (3%)

Query: 298 LRRMSLMNNQIKTLLNT-PSCPHLLTLFLND-NYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
           L+ + + N+ +  L       P L  L L     L++    F      LK L L     L
Sbjct: 208 LKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGG-RAPLKRLILKDCSNL 266

Query: 356 TKLPSGISKLVSLQHLDISFTSTLE-LPEELKALEKLKYLDMDDHQQ 401
             LP  I +L  L+ LD+     L  LP  +  L     + +  H Q
Sbjct: 267 LTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQ 313

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

 Score = 63.0 bits (154), Expect = 4e-11
 Identities = 37/174 (21%), Positives = 65/174 (37%), Gaps = 32/174 (18%)

Query: 298 LRRMSLMNNQIKTLLNTPS----CPHLLTLFLND-NYLQDI--------KNGFFQFMPCL 344
           L  ++L  N ++ L   P+       L  L +     L ++         +G  Q +  L
Sbjct: 129 LETLTLARNPLRAL---PASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNL 185

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME 404
           + L L +   +  LP+ I+ L +L+ L I  +    L   +  L KL+ LD+     +  
Sbjct: 186 QSLRLEWTG-IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTAL-- 242

Query: 405 EGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLP-TVQCLTS-RRLNLE 456
                     +          L  + L  CS  +L  LP  +  LT   +L+L 
Sbjct: 243 ---------RNYPPIFGGRAPLKRLILKDCS--NLLTLPLDIHRLTQLEKLDLR 285

>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 = 53.4 bits (129), Expect = 6e-08
 Identities = 20/98 (20%), Positives = 38/98 (38%), Gaps = 13/98 (13%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTPS----CPHLLTLFLND-NYLQDIKNGFFQFMPCLKVL 347
           L+ L LR        ++     P        L  L L D + L  +     + +  L+ L
Sbjct: 231 LEELDLRG----CTALRNY---PPIFGGRAPLKRLILKDCSNLLTLPLDIHR-LTQLEKL 282

Query: 348 NLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEEL 385
           +L     L++LPS I++L +   + +      +L +  
Sbjct: 283 DLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHR 320

>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 = 40.3 bits (95), Expect = 9e-04
 Identities = 13/123 (10%), Positives = 28/123 (22%), Gaps = 13/123 (10%)

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVM 403
            + L    +  L      +S+     + D +   +          +              
Sbjct: 14  RENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATAD 73

Query: 404 EEGNCQSDDAESLL----------KEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTS-RR 452
              +       +L            +   L  L  + + +  L  L    T+Q       
Sbjct: 74  LLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELP--DTMQQFAGLET 131

Query: 453 LNL 455
           L L
Sbjct: 132 LTL 134

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 67.3 bits (165), Expect = 2e-12
 Identities = 22/120 (18%), Positives = 44/120 (36%), Gaps = 12/120 (10%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           +P        L  + L  N+I  +         +L  L L+ N +  + NG     P L+
Sbjct: 186 IPQGLPP--SLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLR 243

Query: 346 VLNLSYNRFLTKLPSGISKLVSLQHLDISF-------TSTLELPEELKALEKLKYLDMDD 398
            L+L+ N+ L K+P G++    +Q + +         ++    P           + +  
Sbjct: 244 ELHLNNNK-LVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFS 302

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 60.8 bits (148), Expect = 2e-10
 Identities = 24/105 (22%), Positives = 47/105 (44%), Gaps = 6/105 (5%)

Query: 297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
               + L NN+I  + +    +  +L TL L +N +  I  G F  +  L+ L LS N+ 
Sbjct: 53  DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ- 111

Query: 355 LTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           L +LP  +    +LQ L +      ++ +     L ++  +++  
Sbjct: 112 LKELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGT 154

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 58.5 bits (142), Expect = 1e-09
 Identities = 26/115 (22%), Positives = 49/115 (42%), Gaps = 8/115 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTL-LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
           +   A   L  L R+ L  NQ+K L    P    L  L +++N +  ++   F  +  + 
Sbjct: 91  ISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMI 148

Query: 346 VLNLSYNRF-LTKLPSGI-SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           V+ L  N    + + +G    +  L ++ I+ T+   +P+ L     L  L +D 
Sbjct: 149 VVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDG 201

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 10/66 (15%)

Query: 298 LRRMSLMNNQIKTLLNTPSCP--------HLLTLFLNDNYLQ--DIKNGFFQFMPCLKVL 347
           ++ + L NN I  + +   CP            + L  N +Q  +I+   F+ +     +
Sbjct: 265 IQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAV 324

Query: 348 NLSYNR 353
            L   +
Sbjct: 325 QLGNYK 330

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 63.9 bits (156), Expect = 4e-12
 Identities = 31/105 (29%), Positives = 54/105 (51%), Gaps = 7/105 (6%)

Query: 297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
             + ++L  N I+ + +     +L  L L  N ++ I          L+ L +SYN+ + 
Sbjct: 49  ACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKI-ENLDAVADTLEELWISYNQ-IA 106

Query: 357 KLPSGISKLVSLQHLDISF---TSTLELPEELKALEKLKYLDMDD 398
            L SGI KLV+L+ L +S    T+  E+ ++L AL+KL+ L +  
Sbjct: 107 SL-SGIEKLVNLRVLYMSNNKITNWGEI-DKLAALDKLEDLLLAG 149

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 44.3 bits (105), Expect = 2e-05
 Identities = 16/86 (18%), Positives = 33/86 (38%), Gaps = 11/86 (12%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKN-GFFQFMPCLKVLNLSYNRFLT 356
           L  + +  NQI +L       +L  L++++N + +         +  L+ L L+ N    
Sbjct: 95  LEELWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYN 154

Query: 357 KLPSG----------ISKLVSLQHLD 372
                          + +L +L+ LD
Sbjct: 155 DYKENNATSEYRIEVVKRLPNLKKLD 180

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

 Score = 67.0 bits (164), Expect = 6e-12
 Identities = 19/114 (16%), Positives = 45/114 (39%), Gaps = 16/114 (14%)

Query: 298 LRRMSLMNNQIKTLLNTPS---CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L  +  + NQ++  L  P+      L +L L  N + +I   F  F   ++ L+ ++N+ 
Sbjct: 332 LGMLECLYNQLEGKL--PAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNK- 388

Query: 355 LTKLPS--GISKLVSLQHLDISF--------TSTLELPEELKALEKLKYLDMDD 398
           L  +P+      +  +  +D S+         +   L         +  +++ +
Sbjct: 389 LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSN 442

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

 Score = 66.2 bits (162), Expect = 1e-11
 Identities = 22/112 (19%), Positives = 39/112 (34%), Gaps = 16/112 (14%)

Query: 298 LRRMSLMNNQIKTL---LNTPSCPHLLTLFLNDNYLQDIKNGFF-----QFMPCLKVLNL 349
           L  + L  N++  L       + P+L+ + L+ N               +        + 
Sbjct: 490 LTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDA 549

Query: 350 SYNRFLTKLPSGISKLVSLQHLDIS---FTSTLELPEELKALEKLKYLDMDD 398
             NR L + P GI+   SL  L I          + E++     +  LD+ D
Sbjct: 550 QGNRTLREWPEGITLCPSLTQLQIGSNDIRK---VNEKI--TPNISVLDIKD 596

>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 = 63.5 bits (155), Expect = 7e-11
 Identities = 20/128 (15%), Positives = 48/128 (37%), Gaps = 21/128 (16%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTL---LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
           +P++   +   +  +S  +N++K +    +  S   +  +  + N +  +    F  +  
Sbjct: 368 IPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDP 427

Query: 344 -------LKVLNLSYNRFLTKLPSGI-SKLVSLQHLDIS---FTS-----TLELPEELKA 387
                  +  +NLS N+ ++K P  + S    L  +++     T        +  E  K 
Sbjct: 428 TPFKGINVSSINLSNNQ-ISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKN 486

Query: 388 LEKLKYLD 395
              L  +D
Sbjct: 487 TYLLTSID 494

>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 = 61.6 bits (150), Expect = 3e-10
 Identities = 26/126 (20%), Positives = 47/126 (37%), Gaps = 18/126 (14%)

Query: 289 PSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPC--- 343
                K + +  ++L NNQI         +   L ++ L  N L +I     +       
Sbjct: 426 DPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFK 485

Query: 344 ----LKVLNLSYNRFLTKLPSGI--SKLVSLQHLDIS---FTSTLELPEELKALEKLKYL 394
               L  ++L +N+ LTKL      + L  L  +D+S   F+     P +      LK  
Sbjct: 486 NTYLLTSIDLRFNK-LTKLSDDFRATTLPYLVGIDLSYNSFSK---FPTQPLNSSTLKGF 541

Query: 395 DMDDHQ 400
            + + +
Sbjct: 542 GIRNQR 547

>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 = 56.6 bits (137), Expect = 9e-09
 Identities = 18/119 (15%), Positives = 39/119 (32%), Gaps = 18/119 (15%)

Query: 298 LRRMSLMNNQIKTLLNTP---------SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLN 348
           +  +    N+I ++                ++ ++ L++N +       F     L  +N
Sbjct: 404 MSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELFSTGSPLSSIN 463

Query: 349 LSYNRF-------LTKLPSGISKLVSLQHLDISFTSTLELPEELKA--LEKLKYLDMDD 398
           L  N         L            L  +D+ F    +L ++ +A  L  L  +D+  
Sbjct: 464 LMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSY 522

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

 Score = 55.8 bits (135), Expect = 2e-08
 Identities = 14/119 (11%), Positives = 37/119 (31%), Gaps = 20/119 (16%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTPS----CPHLLTLFLNDNYLQDIKNGFFQF-------- 340
           L  + +         +  L   P+     P +  + +  N     +     +        
Sbjct: 251 LTDVEVYN----CPNLTKL---PTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPV 303

Query: 341 MPCLKVLNLSYNRFLT-KLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
              ++++ + YN   T  + + + K+  L  L+  +           +  KL  L++  
Sbjct: 304 GEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAY 362

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

 Score = 54.3 bits (131), Expect = 5e-08
 Identities = 14/155 (9%), Positives = 36/155 (23%), Gaps = 16/155 (10%)

Query: 298 LRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L  ++L ++  K              ++           +  F  + P     +L  +  
Sbjct: 107 LEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCI 166

Query: 355 -----LTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQ 409
                   +       +    +     +   + + +  L KL+   M          +  
Sbjct: 167 NSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMG--------NSPF 218

Query: 410 SDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPT 444
             +      E    E     +       +L  L  
Sbjct: 219 VAENICEAWENENSEYAQQYKTEDLKWDNLKDLTD 253

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

 Score = 54.3 bits (131), Expect = 6e-08
 Identities = 16/110 (14%), Positives = 40/110 (36%), Gaps = 12/110 (10%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           LR+  + N+     +    C                ++  +  +  L  + +     LTK
Sbjct: 208 LRQFYMGNSP---FVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTK 264

Query: 358 LPSGISKLVSLQHLDIS---FTSTLELPE------ELKALEKLKYLDMDD 398
           LP+ +  L  +Q ++++     S  +L +      +    EK++ + +  
Sbjct: 265 LPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGY 314

>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 = 45.8 bits (109), Expect = 2e-05
 Identities = 13/117 (11%), Positives = 35/117 (29%), Gaps = 16/117 (13%)

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQHLDISF-----TSTLELPEELKALEKLKYLDMDD 398
           +  L+L       ++P  I +L  L+ L +          L  P+ + A    +      
Sbjct: 83  VTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQ--- 139

Query: 399 HQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
                     +    ++ +      +  ++I+    S      +     +T +   +
Sbjct: 140 --------KMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQI 188

>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 = 2e-04
 Identities = 15/86 (17%), Positives = 30/86 (34%), Gaps = 6/86 (6%)

Query: 293 LKWLGLRR-MSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNL 349
           LK  G+R       N+           CP L  L +  N ++ +        P + VL++
Sbjct: 538 LKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKIT---PNISVLDI 594

Query: 350 SYNRFLTKLPSGISKLVSLQHLDISF 375
             N  ++   S +   +      + +
Sbjct: 595 KDNPNISIDLSYVCPYIEAGMYMLFY 620

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 66.3 bits (162), Expect = 6e-12
 Identities = 27/119 (22%), Positives = 49/119 (41%), Gaps = 12/119 (10%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNTPS-----CPHLLTLFLNDNYLQDIKNGFFQFM 341
           +          L +++L  N+I  +            HLL L L+ N+L  I +  F+ +
Sbjct: 290 LLKSVFSHFTDLEQLTLAQNEINKI---DDNAFWGLTHLLKLNLSQNFLGSIDSRMFENL 346

Query: 342 PCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
             L+VL+LSYN  +  L       L +L+ L +       +P+     L  L+ + +  
Sbjct: 347 DKLEVLDLSYNH-IRALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 404

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 62.5 bits (152), Expect = 1e-10
 Identities = 21/114 (18%), Positives = 40/114 (35%), Gaps = 7/114 (6%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTP----SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLN 348
           L        S  +   K   N          + T  L+ + +  +    F     L+ L 
Sbjct: 246 LSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLT 305

Query: 349 LSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
           L+ N  + K+       L  L  L++S      +   + + L+KL+ LD+  + 
Sbjct: 306 LAQNE-INKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNH 358

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 55.9 bits (135), Expect = 1e-08
 Identities = 28/184 (15%), Positives = 53/184 (28%), Gaps = 11/184 (5%)

Query: 283 KLRDVVPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQD--IKNGF 337
               V+ ++  + L  L  + L  NQ   L         +L  L L    L    +   F
Sbjct: 65  TPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNF 124

Query: 338 FQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEK--LKY 393
           F+ +  L++L L  N      P+     +     LD++F     + EE L   +      
Sbjct: 125 FKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTL 184

Query: 394 LDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNI--IRLTSCSLCSLCGLPTVQCLTSR 451
           L +               +      +   +  L++                     + S 
Sbjct: 185 LRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSL 244

Query: 452 RLNL 455
            L+ 
Sbjct: 245 ILSN 248

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 54.8 bits (132), Expect = 3e-08
 Identities = 15/85 (17%), Positives = 31/85 (36%), Gaps = 2/85 (2%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
            H+  + L+ N + ++    F  +  L+ L +        + +     L SL  L + + 
Sbjct: 30  AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYN 89

Query: 377 STLELPEE-LKALEKLKYLDMDDHQ 400
             L+L       L  L+ L +    
Sbjct: 90  QFLQLETGAFNGLANLEVLTLTQCN 114

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 44.4 bits (105), Expect = 6e-05
 Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 3/70 (4%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + S   + L  L  + L  N I+ L +      P+L  L L+ N L+ + +G F  +  L
Sbjct: 338 IDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKSVPDGIFDRLTSL 397

Query: 345 KVLNLSYNRF 354
           + + L  N +
Sbjct: 398 QKIWLHTNPW 407

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 65.5 bits (160), Expect = 1e-11
 Identities = 33/117 (28%), Positives = 55/117 (47%), Gaps = 7/117 (5%)

Query: 288 VPSDALKWL-GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + +D  + L  L  + L  N I+ +          L TL L DN+L  I +G F+++  L
Sbjct: 90  IQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKL 149

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTL-ELPEE-LKALEKLKYLDMDD 398
           + L L  N  +  +PS   +++ SL  LD+     L  + E   + L  LKYL++  
Sbjct: 150 RELWLRNNP-IESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM 205

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 63.2 bits (154), Expect = 6e-11
 Identities = 25/114 (21%), Positives = 49/114 (42%), Gaps = 4/114 (3%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV 346
           +   A + L  L+ ++L    IK + N      L  L ++ N+  +I+ G F  +  LK 
Sbjct: 187 ISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKK 246

Query: 347 LNLSYNRFLTKLPSG-ISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           L +  ++ ++ +       L SL  L+++  +   LP +    L  L  L +  
Sbjct: 247 LWVMNSQ-VSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHH 299

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 60.9 bits (148), Expect = 4e-10
 Identities = 34/116 (29%), Positives = 58/116 (50%), Gaps = 7/116 (6%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNT--PSCPHLLTLFLND-NYLQDIKNGFFQFMPC 343
           +PS A ++L  LR + L NN I+++ +      P L+ L L +   L+ I  G F+ +  
Sbjct: 138 IPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFN 197

Query: 344 LKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           LK LNL     +  +P+ ++ LV L+ L++S     E+       L  LK L + +
Sbjct: 198 LKYLNLGMCN-IKDMPN-LTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMN 251

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 55.1 bits (133), Expect = 2e-08
 Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 3/83 (3%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
            +   L L +N +Q I+   F+ +  L+VL L  N  + ++  G  + L SL  L++   
Sbjct: 75  SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNS-IRQIEVGAFNGLASLNTLELFDN 133

Query: 377 STLELPEE-LKALEKLKYLDMDD 398
               +P    + L KL+ L + +
Sbjct: 134 WLTVIPSGAFEYLSKLRELWLRN 156

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 47.0 bits (112), Expect = 8e-06
 Identities = 15/69 (21%), Positives = 30/69 (43%), Gaps = 3/69 (4%)

Query: 287 VVPSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPC 343
            +   +   L  L+++ +MN+Q+  +          L+ L L  N L  + +  F  +  
Sbjct: 232 EIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRY 291

Query: 344 LKVLNLSYN 352
           L  L+L +N
Sbjct: 292 LVELHLHHN 300

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 64.7 bits (158), Expect = 1e-11
 Identities = 21/118 (17%), Positives = 51/118 (43%), Gaps = 7/118 (5%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            L++V     L+   ++ + L + QI  +       +L  L+L+ N + +I       + 
Sbjct: 96  PLKNVSAIAGLQ--SIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISP--LAGLT 151

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
            L+ L++   + ++ L + ++ L  L  L        ++   L +L  L  + + ++Q
Sbjct: 152 NLQYLSIGNAQ-VSDL-TPLANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLKNNQ 206

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 61.2 bits (149), Expect = 1e-10
 Identities = 37/173 (21%), Positives = 66/173 (38%), Gaps = 22/173 (12%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            + D V    L   G+  +S     + T+       +L+ L L DN + D+     + + 
Sbjct: 30  NVTDTVTQADLD--GITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP--LKNLT 85

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            +  L LS N  L  + S I+ L S++ LD++ T   ++   L  L  L+ L +      
Sbjct: 86  KITELELSGNP-LKNV-SAIAGLQSIKTLDLTSTQITDV-TPLAGLSNLQVLYL------ 136

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
                 Q  +   L      L  L  + + +  +  L  L  +  LT+  L  
Sbjct: 137 ---DLNQITNISPLAG----LTNLQYLSIGNAQVSDLTPLANLSKLTT--LKA 180

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 55.1 bits (133), Expect = 2e-08
 Identities = 19/103 (18%), Positives = 42/103 (40%), Gaps = 5/103 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
             +++   + +   +       + TL      +  I+    Q++  L  L L  N+ +T 
Sbjct: 21  AIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEG--VQYLNNLIGLELKDNQ-ITD 77

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
           L + +  L  +  L++S    L+    +  L+ +K LD+   Q
Sbjct: 78  L-APLKNLTKITELELSGNP-LKNVSAIAGLQSIKTLDLTSTQ 118

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 51.2 bits (123), Expect = 2e-07
 Identities = 20/92 (21%), Positives = 44/92 (47%), Gaps = 6/92 (6%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           ++ ++ P   L    L+ +S+ N Q+  L    +   L TL  +DN + DI       +P
Sbjct: 140 QITNISPLAGLT--NLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISP--LASLP 195

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS 374
            L  ++L  N+ ++ + S ++   +L  + ++
Sbjct: 196 NLIEVHLKNNQ-ISDV-SPLANTSNLFIVTLT 225

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 19/102 (18%), Positives = 40/102 (39%), Gaps = 6/102 (5%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           K+ D+ P  +L    L  + L NNQI  +    +  +L  + L +  + +    +     
Sbjct: 184 KISDISPLASLP--NLIEVHLKNNQISDVSPLANTSNLFIVTLTNQTITNQPVFYNNN-- 239

Query: 343 CLKVLNLSYNRFLTKL-PSGISKLVSLQHLDISFTSTLELPE 383
            L V N+        + P+ IS   +    ++++  T  +  
Sbjct: 240 -LVVPNVVKGPSGAPIAPATISDNGTYASPNLTWNLTSFINN 280

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

 Score = 65.0 bits (159), Expect = 2e-11
 Identities = 26/101 (25%), Positives = 39/101 (38%), Gaps = 5/101 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  + L  NQI  +        L  L LN+N L+DI       +  L  L L +N  ++ 
Sbjct: 267 LTELKLGANQISNISPLAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNN-ISD 323

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           + S +S L  LQ L       +     L  L  + +L    
Sbjct: 324 I-SPVSSLTKLQRLFFYNNK-VSDVSSLANLTNINWLSAGH 362

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

 Score = 61.9 bits (151), Expect = 2e-10
 Identities = 16/101 (15%), Positives = 37/101 (36%), Gaps = 5/101 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
             +  L    +   ++      + TL  +   ++ I     +++  L  +N S N+ LT 
Sbjct: 26  KMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNNQ-LTD 82

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           +   +  L  L  + ++    +     L  L  L  L + +
Sbjct: 83  ITP-LKNLTKLVDILMNNNQ-IADITPLANLTNLTGLTLFN 121

>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 = 61.9 bits (151), Expect = 2e-10
 Identities = 20/101 (19%), Positives = 42/101 (41%), Gaps = 5/101 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  + L  NQ++ +    +  +L  L L  N + DI       +  L+ L    N+ ++ 
Sbjct: 289 LTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNK-VSD 345

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           + S ++ L ++  L       +     L  L ++  L ++D
Sbjct: 346 VSS-LANLTNINWLSAGHNQ-ISDLTPLANLTRITQLGLND 384

>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 = 61.1 bits (149), Expect = 3e-10
 Identities = 20/116 (17%), Positives = 45/116 (38%), Gaps = 7/116 (6%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            + D V    L    +  +      IK++       +L  +  ++N L DI     + + 
Sbjct: 35  NVTDTVSQTDLD--QVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLT 90

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
            L  + ++ N+ +  +   ++ L +L  L +     +   + LK L  L  L++  
Sbjct: 91  KLVDILMNNNQ-IADIT-PLANLTNLTGLTLFNNQ-ITDIDPLKNLTNLNRLELSS 143

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

 Score = 60.4 bits (147), Expect = 6e-10
 Identities = 22/100 (22%), Positives = 44/100 (44%), Gaps = 5/100 (5%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L +++  NNQ+  +    +   L+ + +N+N + DI       +  L  L L  N+ +T 
Sbjct: 70  LTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQ-ITD 126

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
           +   +  L +L  L++S  + +     L  L  L+ L   
Sbjct: 127 IDP-LKNLTNLNRLELSSNT-ISDISALSGLTSLQQLSFG 164

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

 Score = 60.4 bits (147), Expect = 6e-10
 Identities = 41/172 (23%), Positives = 69/172 (40%), Gaps = 21/172 (12%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           +L D+ P   L    L  + + NNQI  +    +  +L  L L +N + DI     + + 
Sbjct: 79  QLTDITPLKNLT--KLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDP--LKNLT 134

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            L  L LS N  ++ + + +S L SLQ L     + +   + L  L  L+ LD+      
Sbjct: 135 NLNRLELSSNT-ISDISA-LSGLTSLQQLSFG--NQVTDLKPLANLTTLERLDI------ 184

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLN 454
               + +  D   L K    L  L  +  T+  +  +  L  +  L    LN
Sbjct: 185 ---SSNKVSDISVLAK----LTNLESLIATNNQISDITPLGILTNLDELSLN 229

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

 Score = 60.0 bits (146), Expect = 7e-10
 Identities = 33/158 (20%), Positives = 59/158 (37%), Gaps = 20/158 (12%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +   NNQI  +       +L  L LN N L+DI       +  L  L+L+ N+ ++ 
Sbjct: 201 LESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGT--LASLTNLTDLDLANNQ-ISN 257

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLL 417
           L   +S L  L  L +     +     L  L  L  L+++           Q +D   + 
Sbjct: 258 LA-PLSGLTKLTELKLGANQ-ISNISPLAGLTALTNLELN---------ENQLEDISPIS 306

Query: 418 KEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
                L+ L  + L   ++  +  + ++  L    L  
Sbjct: 307 N----LKNLTYLTLYFNNISDISPVSSLTKLQR--LFF 338

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

 Score = 56.5 bits (137), Expect = 1e-08
 Identities = 23/115 (20%), Positives = 47/115 (40%), Gaps = 6/115 (5%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
           +L D+ P   LK   L  ++L  N I  +    S   L  LF  +N + D+ +     + 
Sbjct: 298 QLEDISPISNLK--NLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDVSS--LANLT 353

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
            +  L+  +N+ ++ L   ++ L  +  L ++  +    P   KA   +     +
Sbjct: 354 NINWLSAGHNQ-ISDLTP-LANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVKN 406

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

 Score = 55.4 bits (134), Expect = 2e-08
 Identities = 15/96 (15%), Positives = 32/96 (33%), Gaps = 5/96 (5%)

Query: 303 LMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI 362
             +  I  +    +    +   L    + D  +     +  +  L       +  +  G+
Sbjct: 9   TQDTPINQIFTDTALAEKMKTVLGKTNVTDTVS--QTDLDQVTTLQADRLG-IKSI-DGV 64

Query: 363 SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
             L +L  ++ S    L     LK L KL  + M++
Sbjct: 65  EYLNNLTQINFSNNQ-LTDITPLKNLTKLVDILMNN 99

>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 = 51.1 bits (123), Expect = 5e-07
 Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 4/87 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF-LT 356
           +  +S  +NQI  L    +   +  L LND    +    +      + + N   N     
Sbjct: 355 INWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKA---NVSIPNTVKNVTGAL 411

Query: 357 KLPSGISKLVSLQHLDISFTSTLELPE 383
             P+ IS   S    DI++       E
Sbjct: 412 IAPATISDGGSYTEPDITWNLPSYTNE 438

>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 = 65.3 bits (159), Expect = 2e-11
 Identities = 30/124 (24%), Positives = 49/124 (39%), Gaps = 19/124 (15%)

Query: 270 RASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSC--PHLLTLFLND 327
            A        +++K+R  + +      G   +++  + + TL   P C   H+ TL + D
Sbjct: 20  PAEESRGRAAVVQKMRACLNN------GNAVLNVGESGLTTL---PDCLPAHITTLVIPD 70

Query: 328 NYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKA 387
           N L  +     +    L+ L +S N+ LT LP     L+ L       T    LP     
Sbjct: 71  NNLTSLPALPPE----LRTLEVSGNQ-LTSLPVLPPGLLELSIFSNPLTH---LPALPSG 122

Query: 388 LEKL 391
           L KL
Sbjct: 123 LCKL 126

>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 = 63.4 bits (154), Expect = 7e-11
 Identities = 26/101 (25%), Positives = 40/101 (39%), Gaps = 10/101 (9%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L ++   NN++ +L        L  L ++ N L  +          LK L +S NR LT 
Sbjct: 203 LYKLWAYNNRLTSL--PALPSGLKELIVSGNRLTSLPV----LPSELKELMVSGNR-LTS 255

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           LP   S    L  L +       LPE L  L     ++++ 
Sbjct: 256 LPMLPS---GLLSLSVYRNQLTRLPESLIHLSSETTVNLEG 293

>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 = 61.4 bits (149), Expect = 3e-10
 Identities = 28/99 (28%), Positives = 40/99 (40%), Gaps = 10/99 (10%)

Query: 297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
           GL ++ +  NQ+ +L      P L  L ++DN L  +     +    L  L    N+ LT
Sbjct: 122 GLCKLWIFGNQLTSL--PVLPPGLQELSVSDNQLASLPALPSE----LCKLWAYNNQ-LT 174

Query: 357 KLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLD 395
            LP   S    LQ L +S      LP     L KL   +
Sbjct: 175 SLPMLPS---GLQELSVSDNQLASLPTLPSELYKLWAYN 210

>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 = 59.5 bits (144), Expect = 1e-09
 Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 10/95 (10%)

Query: 297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
           GL+ +S+ +NQ+ +L   PS   L  L+  +N L  +          L+ L++S N+ L 
Sbjct: 142 GLQELSVSDNQLASLPALPS--ELCKLWAYNNQLTSLPMLPSG----LQELSVSDNQ-LA 194

Query: 357 KLPSGISKLVSLQHLDISFTSTLELPEELKALEKL 391
            LP+  S+L  L   +   TS   LP     L++L
Sbjct: 195 SLPTLPSELYKLWAYNNRLTS---LPALPSGLKEL 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 = 53.7 bits (129), Expect = 9e-08
 Identities = 17/78 (21%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
           GL+ + +  N++ +L        L  L ++ N L  +          L  L++  N+ LT
Sbjct: 222 GLKELIVSGNRLTSL--PVLPSELKELMVSGNRLTSLPML----PSGLLSLSVYRNQ-LT 274

Query: 357 KLPSGISKLVSLQHLDIS 374
           +LP  +  L S   +++ 
Sbjct: 275 RLPESLIHLSSETTVNLE 292

>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 = 53.0 bits (127), Expect = 2e-07
 Identities = 26/113 (23%), Positives = 41/113 (36%), Gaps = 18/113 (15%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           +  + + +N + +L   P  P L TL ++ N L  +       +  L + +      L  
Sbjct: 63  ITTLVIPDNNLTSLPALP--PELRTLEVSGNQLTSLPVLPPG-LLELSIFSNPLTH-LPA 118

Query: 358 LPSGISKLV--------------SLQHLDISFTSTLELPEELKALEKLKYLDM 396
           LPSG+ KL                LQ L +S      LP     L KL   + 
Sbjct: 119 LPSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNN 171

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 45.3 bits (107), Expect = 3e-05
 Identities = 20/123 (16%), Positives = 39/123 (31%), Gaps = 5/123 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L+ + +  N++ +L   PS   LL+L +  N L  +       +     +NL  N  L++
Sbjct: 243 LKELMVSGNRLTSLPMLPS--GLLSLSVYRNQLTRLPESLIH-LSSETTVNLEGNP-LSE 298

Query: 358 LPSGIS-KLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESL 416
                  ++ S                      +  +L   D      EG     D   +
Sbjct: 299 RTLQALREITSAPGYSGPIIRFDMAGASAPRETRALHLAAADWLVPAREGEPAPADRWHM 358

Query: 417 LKE 419
             +
Sbjct: 359 FGQ 361

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 63.1 bits (154), Expect = 2e-11
 Identities = 25/101 (24%), Positives = 48/101 (47%), Gaps = 6/101 (5%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +S+  N++K L N      L  LFL++N L+D  +     +  L++L++  N+ L  
Sbjct: 87  LEELSVNRNRLKNL-NGIPSACLSRLFLDNNELRDTDS--LIHLKNLEILSIRNNK-LKS 142

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           +   +  L  L+ LD+           L  L+K+ ++D+  
Sbjct: 143 I-VMLGFLSKLEVLDLHGNEITNT-GGLTRLKKVNWIDLTG 181

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 60.0 bits (146), Expect = 3e-10
 Identities = 34/168 (20%), Positives = 67/168 (39%), Gaps = 21/168 (12%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            + D+V    L   G++  +  N+ I++L       +L  L L+ N + D+     + + 
Sbjct: 30  SVTDLVSQKELS--GVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP--LKDLT 85

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            L+ L+++ NR L  L +GI     L  L +     L   + L  L+ L+ L +      
Sbjct: 86  KLEELSVNRNR-LKNL-NGIPSA-CLSRLFLDNNE-LRDTDSLIHLKNLEILSIR----- 136

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTS 450
               N +      L      L +L ++ L    + +  GL  ++ +  
Sbjct: 137 ----NNKLKSIVMLGF----LSKLEVLDLHGNEITNTGGLTRLKKVNW 176

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 59.7 bits (145), Expect = 3e-10
 Identities = 24/109 (22%), Positives = 49/109 (44%), Gaps = 8/109 (7%)

Query: 291 DALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
           + +    L R+ L NN+++   +     +L  L + +N L+ I      F+  L+VL+L 
Sbjct: 101 NGIPSACLSRLFLDNNELRDTDSLIHLKNLEILSIRNNKLKSIVM--LGFLSKLEVLDLH 158

Query: 351 YNRFLTKLPSGISKLVSLQHLDISF----TSTLELPEELKALEKLKYLD 395
            N  +T    G+++L  +  +D++        ++   EL     +K  D
Sbjct: 159 GNE-ITNT-GGLTRLKKVNWIDLTGQKCVNEPVKYQPELYITNTVKDPD 205

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 58.9 bits (143), Expect = 5e-10
 Identities = 25/154 (16%), Positives = 54/154 (35%), Gaps = 21/154 (13%)

Query: 303 LMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI 362
                I  +   P   + +   L    + D+ +   + +  ++  N   +  +  L +G+
Sbjct: 4   QRPTPINQVFPDPGLANAVKQNLGKQSVTDLVS--QKELSGVQNFNGDNSN-IQSL-AGM 59

Query: 363 SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLC 422
               +L+ L +S     +L   LK L KL+ L +            +  +   +     C
Sbjct: 60  QFFTNLKELHLSHNQISDL-SPLKDLTKLEELSV---------NRNRLKNLNGI--PSAC 107

Query: 423 LEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLE 456
           L +L    L +  L     L  ++ L    L++ 
Sbjct: 108 LSRLF---LDNNELRDTDSLIHLKNLEI--LSIR 136

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 58.5 bits (142), Expect = 9e-10
 Identities = 35/174 (20%), Positives = 69/174 (39%), Gaps = 23/174 (13%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            +  V P   L      + +L    +  L++      +     +++ +Q +     QF  
Sbjct: 8   PINQVFPDPGLA--NAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLAG--MQFFT 63

Query: 343 CLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQV 402
            LK L+LS+N+ ++ L S +  L  L+ L ++      L   + +   L  L +      
Sbjct: 64  NLKELHLSHNQ-ISDL-SPLKDLTKLEELSVNRNRLKNL-NGIPSA-CLSRLFL------ 113

Query: 403 MEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLE 456
               N +  D +SL+     L+ L I+ + +  L S+  L  +  L    L+L 
Sbjct: 114 ---DNNELRDTDSLIH----LKNLEILSIRNNKLKSIVMLGFLSKLEV--LDLH 158

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 63.5 bits (155), Expect = 2e-11
 Identities = 30/107 (28%), Positives = 48/107 (44%), Gaps = 5/107 (4%)

Query: 298 LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
            + + L  N ++ L +    S P L  L L+   +Q I++G +Q +  L  L L+ N  +
Sbjct: 30  TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-I 88

Query: 356 TKLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
             L  G  S L SLQ L    T+   L       L+ LK L++  + 
Sbjct: 89  QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL 135

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 53.4 bits (129), Expect = 5e-08
 Identities = 20/109 (18%), Positives = 46/109 (42%), Gaps = 9/109 (8%)

Query: 298 LRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV----LNLS 350
           L+ +++ +N I++        +  +L  L L+ N +Q I     + +  + +    L+LS
Sbjct: 126 LKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLS 185

Query: 351 YNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
            N  +  +  G  K + L+ L +       +P+     L  L+ + +  
Sbjct: 186 LNP-MNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 233

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 40.3 bits (95), Expect = 8e-04
 Identities = 14/61 (22%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 293 LKWLGLRRMSLMNNQIKTL-LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSY 351
           +  L L  + L  N +  +         L  L L+ N L+ + +G F  +  L+ + L  
Sbjct: 175 MPLLNLS-LDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 233

Query: 352 N 352
           N
Sbjct: 234 N 234

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 62.3 bits (152), Expect = 3e-11
 Identities = 17/111 (15%), Positives = 49/111 (44%), Gaps = 6/111 (5%)

Query: 297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNY-LQDIKNGFFQFMPCLKVLNLSYNR 353
             + + L+   ++T+ +    + P++  ++++ +  LQ +++  F  +  +  + +   R
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTR 91

Query: 354 FLTKLPSGI-SKLVSLQHLDISFTSTLELPEE--LKALEKLKYLDMDDHQQ 401
            LT +      +L  L+ L I  T     P+   + + +    L++ D+  
Sbjct: 92  NLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPY 142

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 55.0 bits (133), Expect = 9e-09
 Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 3/84 (3%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
           P   TL L + +L+ I +  F  +P +  + +S +  L +L S     L  + H++I  T
Sbjct: 31  PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNT 90

Query: 377 STL-ELPEE-LKALEKLKYLDMDD 398
             L  +  + LK L  LK+L + +
Sbjct: 91  RNLTYIDPDALKELPLLKFLGIFN 114

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 51.9 bits (125), Expect = 1e-07
 Identities = 27/95 (28%), Positives = 42/95 (44%), Gaps = 8/95 (8%)

Query: 305 NNQIKTL-LNTPS--CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG 361
           N  + ++ +N     C   LTL L +N    ++   F     L  + L+ N++LT +   
Sbjct: 140 NPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTK-LDAVYLNKNKYLTVIDKD 198

Query: 362 I-SKLVS-LQHLDISFTSTLELPEELKALEKLKYL 394
               + S    LD+S TS   LP +   LE LK L
Sbjct: 199 AFGGVYSGPSLLDVSQTSVTALPSK--GLEHLKEL 231

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 44.6 bits (106), Expect = 2e-05
 Identities = 16/95 (16%), Positives = 37/95 (38%), Gaps = 8/95 (8%)

Query: 287 VVPSDALKWLG-LRRMSL-MNNQIKTLLNT--PSCPHLLTLFLNDN-YLQDIKNGFFQFM 341
            +PS A   L  + R+ + ++  ++ L +    +   +  + + +   L  I     + +
Sbjct: 45  TIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKEL 104

Query: 342 PCLKVLNLSYNRFLTKLP--SGISKLVSLQHLDIS 374
           P LK L +     L   P  + +        L+I+
Sbjct: 105 PLLKFLGIFNTG-LKMFPDLTKVYSTDIFFILEIT 138

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 63.3 bits (154), Expect = 6e-11
 Identities = 34/141 (24%), Positives = 63/141 (44%), Gaps = 9/141 (6%)

Query: 303 LMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           +  N I  L  +   S   L  L ++ N +Q +    F+F   L+ L+LS+N+ L K+  
Sbjct: 28  ISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK-LVKISC 86

Query: 361 GISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLK 418
                V+L+HLD+SF     L + +E   + +LK+L +      +E+ +       ++ K
Sbjct: 87  H--PTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTH--LEKSSVLPIAHLNISK 142

Query: 419 EMLCLEQLNIIRLTSCSLCSL 439
            +L L +    +     L   
Sbjct: 143 VLLVLGETYGEKEDPEGLQDF 163

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 60.6 bits (147), Expect = 5e-10
 Identities = 25/105 (23%), Positives = 48/105 (45%), Gaps = 7/105 (6%)

Query: 298 LRRMSLMNNQIKTLLNTPSC---PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
           L+++ +  N +        C     LL+L ++ N L D    F    P +KVL+L  N+ 
Sbjct: 376 LQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTI--FRCLPPRIKVLDLHSNK- 432

Query: 355 LTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
           +  +P  + KL +LQ L+++      +P+     L  L+ + +  
Sbjct: 433 IKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHT 477

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 60.3 bits (146), Expect = 6e-10
 Identities = 27/125 (21%), Positives = 49/125 (39%), Gaps = 11/125 (8%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLT----LFLNDNYLQDIKN-GF 337
            L D V  +      L  + L  NQ+K L         +     L ++ N +   +  G 
Sbjct: 335 LLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGD 394

Query: 338 FQFMPCLKVLNLSYNRFLTKLPSGISK--LVSLQHLDISFTSTLELPEELKALEKLKYLD 395
             +   L  LN+S N     L   I +     ++ LD+       +P+++  LE L+ L+
Sbjct: 395 CSWTKSLLSLNMSSN----ILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELN 450

Query: 396 MDDHQ 400
           +  +Q
Sbjct: 451 VASNQ 455

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 59.5 bits (144), Expect = 1e-09
 Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 6/109 (5%)

Query: 298 LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF- 354
           +   +   +  + +           L L  ++N L D        +  L+ L L  N+  
Sbjct: 302 MNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLK 361

Query: 355 -LTKLPSGISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDDHQ 400
            L+K+    +++ SLQ LDIS    S  E   +    + L  L+M  + 
Sbjct: 362 ELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNI 410

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 52.9 bits (127), Expect = 1e-07
 Identities = 24/167 (14%), Positives = 52/167 (31%), Gaps = 27/167 (16%)

Query: 296 LGLRRMSLMNNQIKTLLNTPSCP-----HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
             L+ +S+            S       ++       +  + +       +     L+ S
Sbjct: 273 TSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFS 332

Query: 351 YNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKA---LEKLKYLDMDDHQ--QVME 404
            N  LT         L  L+ L +      EL +  +    ++ L+ LD+  +      +
Sbjct: 333 NNL-LTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEK 391

Query: 405 EGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL---CGLPTVQCL 448
           +G+C               + L  + ++S  L      C  P ++ L
Sbjct: 392 KGDCSW------------TKSLLSLNMSSNILTDTIFRCLPPRIKVL 426

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 52.6 bits (126), Expect = 2e-07
 Identities = 17/84 (20%), Positives = 38/84 (45%), Gaps = 4/84 (4%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
                L ++ NY+ ++       +  L++L +S+NR +  L   +      L++LD+S  
Sbjct: 21  QKTTILNISQNYISELWTSDILSLSKLRILIISHNR-IQYLDISVFKFNQELEYLDLSHN 79

Query: 377 STLELPEELKALEKLKYLDMDDHQ 400
             +++         LK+LD+  + 
Sbjct: 80  KLVKIS--CHPTVNLKHLDLSFNA 101

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 28/196 (14%), Positives = 64/196 (32%), Gaps = 12/196 (6%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNTP---SCPHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           +         L+ + L  N    L       +   L  L L+  +L+         +   
Sbjct: 84  ISCHPTV--NLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNIS 141

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELK-ALEKLKYLDMDDHQQVM 403
           KVL +    +  K      +  + + L I F +  E    L  +++ +  L++ + + V+
Sbjct: 142 KVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVL 201

Query: 404 EEGNCQSDDAESLLKEM------LCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNLEV 457
           E+  C    +     +       L L  +     +   +  L    TV   +   + L+ 
Sbjct: 202 EDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQG 261

Query: 458 EDWHKCTGEVHKVLQS 473
           +   +        L++
Sbjct: 262 QLDFRDFDYSGTSLKA 277

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 16/124 (12%), Positives = 41/124 (33%), Gaps = 5/124 (4%)

Query: 281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFF 338
             ++  +V    + +  +  + L         +    S   L    +  +     ++  +
Sbjct: 237 FIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIY 296

Query: 339 QFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELP-EELKALEKLKYLDM 396
           +    + + N + +     +     SK+    HLD S     +   E    L +L+ L +
Sbjct: 297 EIFSNMNIKNFTVSG-TRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLIL 355

Query: 397 DDHQ 400
             +Q
Sbjct: 356 QMNQ 359

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 63.5 bits (154), Expect = 7e-11
 Identities = 20/106 (18%), Positives = 40/106 (37%), Gaps = 11/106 (10%)

Query: 297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
            L  ++  NNQ+  L        L  L + +N L  +     +    L+ L++S N  L 
Sbjct: 141 LLEYINADNNQLTML--PELPTSLEVLSVRNNQLTFL----PELPESLEALDVSTNL-LE 193

Query: 357 KLPSGISKLVSLQ----HLDISFTSTLELPEELKALEKLKYLDMDD 398
            LP+   +    +               +PE + +L+    + ++D
Sbjct: 194 SLPAVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILED 239

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 62.3 bits (151), Expect = 2e-10
 Identities = 33/143 (23%), Positives = 53/143 (37%), Gaps = 18/143 (12%)

Query: 258 INRRYSINGDLIRASLLEEEEDILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSC 317
           IN  +S++ +    ++     D              KW          N+  +LL     
Sbjct: 7   INNNFSLSQNSFYNTISGTYADYFSAWD--------KWEKQALPGENRNEAVSLLKECLI 58

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
                L LN   L  + +      P + VL ++ N  L  LP   +   SL++LD     
Sbjct: 59  NQFSELQLNRLNLSSLPDNLP---PQITVLEITQNA-LISLPELPA---SLEYLDACDNR 111

Query: 378 TLELPEELKALEKLKYLDMDDHQ 400
              LPE       LK+LD+D++Q
Sbjct: 112 LSTLPEL---PASLKHLDVDNNQ 131

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 56.9 bits (137), Expect = 7e-09
 Identities = 31/141 (21%), Positives = 49/141 (34%), Gaps = 15/141 (10%)

Query: 255 NKAINRRYSINGDLIRASLLEEEEDILEKLRDVVPS--DALKWLGLRRMSLMNNQIKTLL 312
           N   N       D   A    E++ +  + R+   S            + L    + +L 
Sbjct: 16  NSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSL- 74

Query: 313 NTPS--CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH 370
             P    P +  L +  N L  +          L+ L+   NR L+ LP   +   SL+H
Sbjct: 75  --PDNLPPQITVLEITQNALISLPELPAS----LEYLDACDNR-LSTLPELPA---SLKH 124

Query: 371 LDISFTSTLELPEELKALEKL 391
           LD+       LPE    LE +
Sbjct: 125 LDVDNNQLTMLPELPALLEYI 145

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 55.0 bits (132), Expect = 3e-08
 Identities = 26/99 (26%), Positives = 42/99 (42%), Gaps = 12/99 (12%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLT-LFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
           L+ + + NNQ+  L   P  P LL  +  ++N L  +          L+VL++  N+ LT
Sbjct: 122 LKHLDVDNNQLTML---PELPALLEYINADNNQLTMLPE----LPTSLEVLSVRNNQ-LT 173

Query: 357 KLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLD 395
            LP       SL+ LD+S      LP         +  +
Sbjct: 174 FLPELPE---SLEALDVSTNLLESLPAVPVRNHHSEETE 209

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 62.2 bits (151), Expect = 1e-10
 Identities = 34/164 (20%), Positives = 63/164 (38%), Gaps = 14/164 (8%)

Query: 298 LRRMSLMNNQIKTLLNTPSC---PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF 354
              + L +N +  L    +     +L +L L+ N+L  I +  F  +P L+ L+LS N  
Sbjct: 41  TALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNH- 99

Query: 355 LTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQ-QVMEEGNCQSD 411
           L  L   + S L +L+ L +     + +     + + +L+ L +  +Q         +  
Sbjct: 100 LHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDG 159

Query: 412 DAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
           +    L  +     L+  +L    L  L  LP         L L
Sbjct: 160 NKLPKLMLL----DLSSNKLKKLPLTDLQKLPA---WVKNGLYL 196

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 49.5 bits (118), Expect = 1e-06
 Identities = 18/97 (18%), Positives = 33/97 (34%), Gaps = 6/97 (6%)

Query: 287 VVPSDALKWL-GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFM-- 341
            +       L  L  + L NN I  +          L  L+L+ N +        +    
Sbjct: 102 TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNK 161

Query: 342 -PCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
            P L +L+LS N+      + + KL +     +   +
Sbjct: 162 LPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHN 198

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 61.8 bits (150), Expect = 1e-10
 Identities = 24/119 (20%), Positives = 47/119 (39%), Gaps = 7/119 (5%)

Query: 288 VPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNY-LQDIKNGFFQFMPCL 344
           +PSD  +      +  +  +++ +          L  + ++ N  L+ I+   F  +P L
Sbjct: 24  IPSDLPRNA--IELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKL 81

Query: 345 KVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKA-LEKLKYLDMDDHQQ 401
             + +     L  +       L +LQ+L IS T    LP+  K    +   LD+ D+  
Sbjct: 82  HEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNIN 140

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 54.1 bits (130), Expect = 4e-08
 Identities = 23/109 (21%), Positives = 43/109 (39%), Gaps = 6/109 (5%)

Query: 288 VPSDALKWLG--LRRMSLMNNQIKTL-LNTPSCPHLLTL-FLNDNYLQDIKNGFFQFMPC 343
           +  ++   L      + L  N I+ +  +  +   L  L   ++N L+++ N  F     
Sbjct: 144 IERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASG 203

Query: 344 LKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKALEKL 391
             +L++S  R +  LPS     L  L+         L   E+L AL + 
Sbjct: 204 PVILDISRTR-IHSLPSYGLENLKKLRARSTYNLKKLPTLEKLVALMEA 251

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 43.7 bits (103), Expect = 9e-05
 Identities = 7/72 (9%), Positives = 26/72 (36%), Gaps = 6/72 (8%)

Query: 292 ALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNL 349
            L  + + +     N +  +      + P+L  L +++  ++ + +          +L++
Sbjct: 80  KLHEIRIEK----ANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDI 135

Query: 350 SYNRFLTKLPSG 361
             N  +  +   
Sbjct: 136 QDNINIHTIERN 147

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 61.3 bits (149), Expect = 1e-10
 Identities = 34/105 (32%), Positives = 51/105 (48%), Gaps = 4/105 (3%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L +++L   ++  L    + P L TL L+ N LQ +     Q +P L VL++S+NR LT 
Sbjct: 57  LTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLL-GQTLPALTVLDVSFNR-LTS 114

Query: 358 LPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
           LP G    L  LQ L +       LP  L     KL+ L + ++ 
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN 159

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 60.5 bits (147), Expect = 2e-10
 Identities = 29/106 (27%), Positives = 49/106 (46%), Gaps = 4/106 (3%)

Query: 298 LRRMSLMNNQIKTLLNTPS-CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
           L  + L +NQ+++L       P L  L ++ N L  +  G  + +  L+ L L  N  L 
Sbjct: 79  LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LK 137

Query: 357 KLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
            LP G+ +    L+ L ++  +  ELP  L   LE L  L + ++ 
Sbjct: 138 TLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENS 183

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 56.3 bits (136), Expect = 6e-09
 Identities = 26/107 (24%), Positives = 47/107 (43%), Gaps = 10/107 (9%)

Query: 298 LRRMSLMNNQIKTLLNTP-----SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN 352
           L  + +  N++ +L   P         L  L+L  N L+ +  G     P L+ L+L+ N
Sbjct: 102 LTVLDVSFNRLTSL---PLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN 158

Query: 353 RFLTKLPSGI-SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
             LT+LP+G+ + L +L  L +   S   +P+       L +  +  
Sbjct: 159 N-LTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHG 204

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 47.8 bits (114), Expect = 3e-06
 Identities = 23/78 (29%), Positives = 30/78 (38%), Gaps = 2/78 (2%)

Query: 323 LFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELP 382
           L L++N L             L  LNL     LTKL      L  L  LD+S      LP
Sbjct: 36  LHLSENLLYTFSLATLMPYTRLTQLNLDRAE-LTKLQVD-GTLPVLGTLDLSHNQLQSLP 93

Query: 383 EELKALEKLKYLDMDDHQ 400
              + L  L  LD+  ++
Sbjct: 94  LLGQTLPALTVLDVSFNR 111

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 60.3 bits (146), Expect = 7e-10
 Identities = 29/102 (28%), Positives = 46/102 (45%), Gaps = 7/102 (6%)

Query: 303 LMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           L  N I  L          L  L L+ N ++ +    F F   L+ L++S+NR L  +  
Sbjct: 59  LSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR-LQNISC 117

Query: 361 GISKLVSLQHLDISFT--STLELPEELKALEKLKYLDMDDHQ 400
               + SL+HLD+SF     L + +E   L KL +L +   +
Sbjct: 118 C--PMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAK 157

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 55.6 bits (134), Expect = 2e-08
 Identities = 25/143 (17%), Positives = 48/143 (33%), Gaps = 27/143 (18%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCP-HLLTLFLNDNYLQDIKNG----F 337
              D V         L+ + L  N +K          ++ +L   D  L  + +      
Sbjct: 364 VFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRT 423

Query: 338 FQFMPCLKVLNLSYNRF---------------------LTKLPSGISKLVSLQHLDISFT 376
             +   + VLNLS N                       +  +P  ++ L +LQ L+++  
Sbjct: 424 CAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASN 483

Query: 377 STLELPEE-LKALEKLKYLDMDD 398
               +P+     L  L+Y+ + D
Sbjct: 484 QLKSVPDGVFDRLTSLQYIWLHD 506

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 51.4 bits (123), Expect = 4e-07
 Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 4/81 (4%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
           P    L L+ N + +++     F+  L+VL LS+NR +  L   +      L++LD+S  
Sbjct: 52  PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR-IRSLDFHVFLFNQDLEYLDVSHN 110

Query: 377 STLELPEELKALEKLKYLDMD 397
               +      +  L++LD+ 
Sbjct: 111 RLQNIS--CCPMASLRHLDLS 129

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 51.0 bits (122), Expect = 5e-07
 Identities = 15/120 (12%), Positives = 27/120 (22%), Gaps = 9/120 (7%)

Query: 289 PSDALKWLG-LRRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
                     +    L  +    +      S      L    N   D        +  L+
Sbjct: 321 KEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQ 380

Query: 346 VLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEEL-----KALEKLKYLDMDDHQ 400
            L L  N  L           ++  L+    S   L            E +  L++  + 
Sbjct: 381 TLILQRNG-LKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNM 439

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 16/110 (14%), Positives = 33/110 (30%), Gaps = 5/110 (4%)

Query: 296 LGLRRMSLMNNQIKTLLNTPS-----CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
             L+ + + + + +  L +          +    L+ +    I             LN +
Sbjct: 302 TALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFT 361

Query: 351 YNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
            N F   +  G S L  LQ L +         +     + +  L+  D  
Sbjct: 362 QNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVS 411

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 56.7 bits (137), Expect = 8e-10
 Identities = 33/110 (30%), Positives = 49/110 (44%), Gaps = 13/110 (11%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF--- 354
           L  +SL+N  + ++ N P  P L  L L++N +    +   + +P L  LNLS N+    
Sbjct: 51  LEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNKLKDI 110

Query: 355 --LTKLPSGISKLVSLQHLDISFTSTLELPE----ELKALEKLKYLDMDD 398
             L  L     KL  L+ LD+       L +      K L +L YLD  D
Sbjct: 111 STLEPL----KKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYD 156

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 56.6 bits (137), Expect = 1e-09
 Identities = 24/101 (23%), Positives = 39/101 (38%), Gaps = 22/101 (21%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
              +   +N+I+ L   P    L TL +N+N +  I  G  Q +P L  L L+ N     
Sbjct: 44  FDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNS---- 99

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
               + +L  L              + L +L+ L YL +  
Sbjct: 100 ----LVELGDL--------------DPLASLKSLTYLCILR 122

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 52.7 bits (127), Expect = 2e-08
 Identities = 27/133 (20%), Positives = 45/133 (33%), Gaps = 15/133 (11%)

Query: 301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
           + L    I+      +      L L    +  I+N     +     ++ S N  + KL  
Sbjct: 2   VKLTAELIEQAAQYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNE-IRKL-D 58

Query: 361 GISKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQQVMEEGNCQSDDAESL--L 417
           G   L  L+ L ++      + E L +AL  L  L +          N    +   L  L
Sbjct: 59  GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELIL---------TNNSLVELGDLDPL 109

Query: 418 KEMLCLEQLNIIR 430
             +  L  L I+R
Sbjct: 110 ASLKSLTYLCILR 122

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 43.5 bits (103), Expect = 4e-05
 Identities = 18/82 (21%), Positives = 34/82 (41%), Gaps = 8/82 (9%)

Query: 298 LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKN-GFFQFMPCLKVLNLSYNRF 354
           L+ + + NN+I  +      + P L  L L +N L ++ +      +  L  L +  N  
Sbjct: 66  LKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNP- 124

Query: 355 LTKLPS----GISKLVSLQHLD 372
           +T         I K+  ++ LD
Sbjct: 125 VTNKKHYRLYVIYKVPQVRVLD 146

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 55.8 bits (135), Expect = 1e-09
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 2/74 (2%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +S +N  + ++ N P    L  L L+DN +        +  P L  LNLS N+   K
Sbjct: 44  LEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGNKI--K 101

Query: 358 LPSGISKLVSLQHL 371
             S I  L  L++L
Sbjct: 102 DLSTIEPLKKLENL 115

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 57.4 bits (139), Expect = 1e-09
 Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 5/106 (4%)

Query: 299 RRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
             + L  N IK +          L  + L++N + ++    FQ +  L  L L  N+ +T
Sbjct: 35  TEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNK-IT 93

Query: 357 KLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
           +LP  +   L SLQ L ++      L  +  + L  L  L + D++
Sbjct: 94  ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNK 139

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 55.8 bits (135), Expect = 4e-09
 Identities = 25/119 (21%), Positives = 46/119 (38%), Gaps = 12/119 (10%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTLLNTPS-----CPHLLTLFLNDNYLQDIKNGFFQFM 341
           +P  A      LRR+ L NNQI  L             L +L L  N + ++    F+ +
Sbjct: 47  IPPGAFSPYKKLRRIDLSNNQISEL---APDAFQGLRSLNSLVLYGNKITELPKSLFEGL 103

Query: 342 PCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD 398
             L++L L+ N+ +  L       L +L  L +       + +     L  ++ + +  
Sbjct: 104 FSLQLLLLNANK-INCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQ 161

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 56.6 bits (137), Expect = 2e-09
 Identities = 24/107 (22%), Positives = 45/107 (42%), Gaps = 6/107 (5%)

Query: 299 RRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
             + L NN+   L  T      P L  +  ++N + DI+ G F+    +  + L+ NR L
Sbjct: 35  AELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNR-L 93

Query: 356 TKLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
             +   +   L SL+ L +       +  +    L  ++ L + D+Q
Sbjct: 94  ENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQ 140

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 52.4 bits (126), Expect = 6e-08
 Identities = 21/99 (21%), Positives = 44/99 (44%), Gaps = 11/99 (11%)

Query: 283 KLRDVVPSDALKWLG-LRRMSLMNNQIKTLLNTP-----SCPHLLTLFLNDNYLQDIKNG 336
           +   +  +   K L  LR+++  NN+I  +             +  + L  N L+++++ 
Sbjct: 43  EFTVLEATGIFKKLPQLRKINFSNNKITDI---EEGAFEGASGVNEILLTSNRLENVQHK 99

Query: 337 FFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDIS 374
            F+ +  LK L L  NR +T + +     L S++ L + 
Sbjct: 100 MFKGLESLKTLMLRSNR-ITCVGNDSFIGLSSVRLLSLY 137

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 49.3 bits (118), Expect = 6e-07
 Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 10/80 (12%)

Query: 298 LRRMSLMNNQIKTLLNTPS-----CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN 352
           +  + L +N+++ +             L TL L  N +  + N  F  +  +++L+L  N
Sbjct: 83  VNEILLTSNRLENV---QHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDN 139

Query: 353 RFLTKLPSGI-SKLVSLQHL 371
           + +T +  G    L SL  L
Sbjct: 140 Q-ITTVAPGAFDTLHSLSTL 158

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 31/107 (28%), Positives = 56/107 (52%), Gaps = 5/107 (4%)

Query: 298 LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
            +++ L +N++ +L +        L  L+LNDN LQ +  G F+ +  L+ L ++ N+ L
Sbjct: 39  TKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNK-L 97

Query: 356 TKLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
             LP G+  +LV+L  L +       LP  +  +L KL YL +  ++
Sbjct: 98  QALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE 144

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 45.0 bits (107), Expect = 2e-05
 Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 16/84 (19%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPH--------LLTLFLNDNYLQDIKNGFFQFMPCLKVLNL 349
           L  +SL  N++++L      P         L  L L +N L+ +  G F  +  LK L L
Sbjct: 135 LTYLSLGYNELQSL------PKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKL 188

Query: 350 SYNRFLTKLPSGI-SKLVSLQHLD 372
             N+ L ++P G    L  L+ L 
Sbjct: 189 DNNQ-LKRVPEGAFDSLEKLKMLQ 211

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

 Score = 58.8 bits (143), Expect = 2e-09
 Identities = 26/102 (25%), Positives = 44/102 (43%), Gaps = 3/102 (2%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQ-DIKNGFFQFMPCLKVLNLSYNRFLT 356
           L+ +++ +NQ    +       L  L L +N    +I +        L  L+LS N F  
Sbjct: 249 LKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYG 308

Query: 357 KLPSGISKLVSLQHLDISFTS-TLELPEE-LKALEKLKYLDM 396
            +P        L+ L +S  + + ELP + L  +  LK LD+
Sbjct: 309 AVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDL 350

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

 Score = 56.8 bits (138), Expect = 1e-08
 Identities = 26/109 (23%), Positives = 45/109 (41%), Gaps = 13/109 (11%)

Query: 298 LRRMSLMNNQI-----KTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQF--MPCLKVLNLS 350
           L  + L  N I        + +  C  L  L ++ N +    +G         L+ L++S
Sbjct: 153 LEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKI----SGDVDVSRCVNLEFLDVS 208

Query: 351 YNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDD 398
            N F T +P  +    +LQHLDIS    + +    +    +LK L++  
Sbjct: 209 SNNFSTGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISS 256

>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 = 54.5 bits (132), Expect = 5e-08
 Identities = 23/102 (22%), Positives = 43/102 (42%), Gaps = 10/102 (9%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNG---FFQFMPCLKVLNLSYNRF 354
           L+ +++  N+I   ++   C +L  L ++ N      +    F      L+ L++S N+ 
Sbjct: 180 LKHLAISGNKISGDVDVSRCVNLEFLDVSSNNF----STGIPFLGDCSALQHLDISGNKL 235

Query: 355 LTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLD 395
                  IS    L+ L+IS       +P     L+ L+YL 
Sbjct: 236 SGDFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLS 275

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

 Score = 54.1 bits (131), Expect = 7e-08
 Identities = 34/125 (27%), Positives = 51/125 (40%), Gaps = 15/125 (12%)

Query: 283 KLRDVVPSDALKWL-GLRRMSLMNNQI-----KTLLNTPSCPHLLTLFLNDNYLQ-DIKN 335
                +P D L  + GL+ + L  N+      ++L N      LLTL L+ N     I  
Sbjct: 329 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNL--SASLLTLDLSSNNFSGPILP 386

Query: 336 GFFQF-MPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS---FTSTLELPEELKALEKL 391
              Q     L+ L L  N F  K+P  +S    L  L +S    +    +P  L +L KL
Sbjct: 387 NLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSG--TIPSSLGSLSKL 444

Query: 392 KYLDM 396
           + L +
Sbjct: 445 RDLKL 449

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

 Score = 53.8 bits (130), Expect = 1e-07
 Identities = 26/108 (24%), Positives = 45/108 (41%), Gaps = 15/108 (13%)

Query: 298 LRRMSLMNNQI-----KTLLNTPSCPHLLTLFLNDNYLQ-DIKNGFFQFMPCLKVLNLSY 351
           L  + L  N +      +L +      L  L L  N L+ +I       +  L+ L L +
Sbjct: 420 LVSLHLSFNYLSGTIPSSLGS---LSKLRDLKLWLNMLEGEIPQELMY-VKTLETLILDF 475

Query: 352 NRFLTKLPSGISKLVSLQHLDIS---FTSTLELPEELKALEKLKYLDM 396
           N    ++PSG+S   +L  + +S    T    +P+ +  LE L  L +
Sbjct: 476 NDLTGEIPSGLSNCTNLNWISLSNNRLTGE--IPKWIGRLENLAILKL 521

>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 = 51.4 bits (124), Expect = 4e-07
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 7/88 (7%)

Query: 316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG--ISKLVSLQHLDI 373
           S   L +LFL+++++    +GF      L  L+LS N     + +   +     L+ L++
Sbjct: 75  SLTGLESLFLSNSHINGSVSGFKCS-ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNV 133

Query: 374 S---FTSTLELPEELKALEKLKYLDMDD 398
           S        ++   LK L  L+ LD+  
Sbjct: 134 SSNTLDFPGKVSGGLK-LNSLEVLDLSA 160

>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 = 51.4 bits (124), Expect = 5e-07
 Identities = 26/107 (24%), Positives = 42/107 (39%), Gaps = 7/107 (6%)

Query: 298 LRRMSLMNNQI-----KTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN 352
           L  + L +N         L   P    L  L+L +N               L  L+LS+N
Sbjct: 370 LLTLDLSSNNFSGPILPNLCQNPK-NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFN 428

Query: 353 RFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLDMDD 398
                +PS +  L  L+ L +       E+P+EL  ++ L+ L +D 
Sbjct: 429 YLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDF 475

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

 Score = 48.4 bits (116), Expect = 4e-06
 Identities = 30/171 (17%), Positives = 51/171 (29%), Gaps = 31/171 (18%)

Query: 298 LRRMSLMNNQI-----KTLLNTPSCPHLLTLFLNDNYLQD-----IKNGFFQFMPCLKVL 347
           L  + L  N +       L N   C +L  + L++N L       I       +  L +L
Sbjct: 468 LETLILDFNDLTGEIPSGLSN---CTNLNWISLSNNRLTGEIPKWIGR-----LENLAIL 519

Query: 348 NLSYNRFLTKLPSGISKLVSLQHLDIS---FTSTLELPEELKALEKLKYLDMDDHQQVME 404
            LS N F   +P+ +    SL  LD++   F  T  +P  +         +    ++ + 
Sbjct: 520 KLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT--IPAAMFKQSGKIAANFIAGKRYVY 577

Query: 405 EGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRLNL 455
             N                   N++         L  L T           
Sbjct: 578 IKNDGMKKECHG--------AGNLLEFQGIRSEQLNRLSTRNPCNITSRVY 620

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

 Score = 47.6 bits (114), Expect = 6e-06
 Identities = 14/111 (12%), Positives = 34/111 (30%), Gaps = 11/111 (9%)

Query: 294 KWLGLRRMSLMNNQI--KTLLNTPSCPHLLTLFLNDNYLQ---DIKNGFFQFMPCLKVLN 348
             +  +   +  N I  K  +   +           N L+          +        N
Sbjct: 556 AAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRL-STRNPCN 614

Query: 349 LSYNRFLTKLPSGISKLVSLQHLDIS---FTSTLELPEELKALEKLKYLDM 396
           ++   +            S+  LD+S    +    +P+E+ ++  L  L++
Sbjct: 615 ITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSG--YIPKEIGSMPYLFILNL 663

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

 Score = 47.2 bits (113), Expect = 9e-06
 Identities = 16/120 (13%), Positives = 33/120 (27%), Gaps = 9/120 (7%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTP----SCPHLLTLFLNDNYLQDIKNGFF 338
            +              +      N ++                   +         +  F
Sbjct: 569 FIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTF 628

Query: 339 QFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS---FTSTLELPEELKALEKLKYLD 395
                +  L++SYN     +P  I  +  L  L++     +    +P+E+  L  L  LD
Sbjct: 629 DNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISG--SIPDEVGDLRGLNILD 686

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

 Score = 47.2 bits (113), Expect = 9e-06
 Identities = 27/108 (25%), Positives = 43/108 (39%), Gaps = 11/108 (10%)

Query: 298 LRRMSLMNNQ----IKTLLNTPSCPHLLTLFLNDNYLQD-IKNGFFQFMPCLKVLNLSYN 352
           L  + L  N     + TL +  SC  L  L ++ N L    K      +  L+VL+LS N
Sbjct: 102 LTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSAN 161

Query: 353 RFLTKLPSGI---SKLVSLQHLDISFTS-TLELPEELKALEKLKYLDM 396
                   G         L+HL IS    + ++   +     L++LD+
Sbjct: 162 SISGANVVGWVLSDGCGELKHLAISGNKISGDVD--VSRCVNLEFLDV 207

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 56.7 bits (137), Expect = 5e-09
 Identities = 38/199 (19%), Positives = 77/199 (38%), Gaps = 35/199 (17%)

Query: 288 VPSDALKWLG-LRRMSLMNNQIKTL-LNTPSC-PHLLTLFLNDNYLQDIKNGFFQFMPCL 344
           + +  L+    L+ + L +N I T+  ++ S    L  L L+ NYL ++ + +F+ +  L
Sbjct: 67  ISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSL 126

Query: 345 KVLNLSYNRF-------------------------LTKLPSGI-SKLVSLQHLDISFTST 378
             LNL  N +                          TK+     + L  L+ L+I  +  
Sbjct: 127 TFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDL 186

Query: 379 LELPEE-LKALEKLKYLDMDDHQ-QVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL 436
                + LK+++ + +L +   Q  ++ E     D   S+  E L L   ++       L
Sbjct: 187 QSYEPKSLKSIQNVSHLILHMKQHILLLEIF--VDVTSSV--ECLELRDTDLDTFHFSEL 242

Query: 437 CSLCGLPTVQCLTSRRLNL 455
            +      ++  T R + +
Sbjct: 243 STGETNSLIKKFTFRNVKI 261

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 55.1 bits (133), Expect = 2e-08
 Identities = 19/163 (11%), Positives = 45/163 (27%), Gaps = 11/163 (6%)

Query: 283 KLRDVVPSDALKWLG--LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFF 338
             + +  +     L           +    +          L  L ++ + LQ  +    
Sbjct: 135 PYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSL 194

Query: 339 QFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLELP-EELKALEKLKYLDM 396
           + +  +  L L   +    L         S++ L++  T        EL   E    +  
Sbjct: 195 KSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKK 253

Query: 397 DDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL 439
              + V             ++K +  +  L  +  +   L S+
Sbjct: 254 FTFRNVKITDE----SLFQVMKLLNQISGLLELEFSRNQLKSV 292

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 3/83 (3%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFT 376
             + +L L++N +  I N   Q    L+ L L+ N  +  +     S L SL+HLD+S+ 
Sbjct: 52  EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNG-INTIEEDSFSSLGSLEHLDLSYN 110

Query: 377 STLELPEEL-KALEKLKYLDMDD 398
               L     K L  L +L++  
Sbjct: 111 YLSNLSSSWFKPLSSLTFLNLLG 133

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 44.0 bits (104), Expect = 8e-05
 Identities = 13/75 (17%), Positives = 30/75 (40%), Gaps = 1/75 (1%)

Query: 281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLN-TPSCPHLLTLFLNDNYLQDIKNGFFQ 339
             +L     +  +K    R + + +  +  ++        LL L  + N L+ + +G F 
Sbjct: 239 FSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKSVPDGIFD 298

Query: 340 FMPCLKVLNLSYNRF 354
            +  L+ + L  N +
Sbjct: 299 RLTSLQKIWLHTNPW 313

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 56.6 bits (137), Expect = 9e-09
 Identities = 24/101 (23%), Positives = 39/101 (38%), Gaps = 8/101 (7%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +    N+  T L+      L TL  + N + ++          L  LN   N  +TK
Sbjct: 150 LTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD---VSQNKLLNRLNCDTNN-ITK 205

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           L   +++ + L  LD S     E+   +  L +L Y D   
Sbjct: 206 LD--LNQNIQLTFLDCSSNKLTEID--VTPLTQLTYFDCSV 242

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 55.8 bits (135), Expect = 1e-08
 Identities = 19/103 (18%), Positives = 33/103 (32%), Gaps = 8/103 (7%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +   N+ I  +        L  L    N +  +          L  L    N+ LT 
Sbjct: 44  LTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD---LSQNTNLTYLACDSNK-LTN 99

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
           L   ++ L  L +L+       +L   +     L YL+   + 
Sbjct: 100 LD--VTPLTKLTYLNCDTNKLTKLD--VSQNPLLTYLNCARNT 138

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 55.5 bits (134), Expect = 2e-08
 Identities = 17/110 (15%), Positives = 30/110 (27%), Gaps = 7/110 (6%)

Query: 291 DALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
           D      L        +    L+      L  L      + ++        P L  L L+
Sbjct: 270 DLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELD---LSQNPKLVYLYLN 326

Query: 351 YNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
               LT+L   +S    L+ L        +    +  +  L      + Q
Sbjct: 327 NTE-LTELD--VSHNTKLKSLSCVNAHIQDFS-SVGKIPALNNNFEAEGQ 372

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 50.1 bits (120), Expect = 9e-07
 Identities = 25/101 (24%), Positives = 39/101 (38%), Gaps = 8/101 (7%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  ++   N++  L +    P L  L    N L +I          L  L+   N+ +TK
Sbjct: 108 LTYLNCDTNKLTKL-DVSQNPLLTYLNCARNTLTEID---VSHNTQLTELDCHLNKKITK 163

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           L   ++    L  LD SF    EL   +   + L  L+ D 
Sbjct: 164 LD--VTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDT 200

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 12/101 (11%), Positives = 32/101 (31%), Gaps = 8/101 (7%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +   +N++  + +      L     + N L ++          L  L+      L +
Sbjct: 214 LTFLDCSSNKLTEI-DVTPLTQLTYFDCSVNPLTELDVSTL---SKLTTLHCIQTD-LLE 268

Query: 358 LPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           +   ++    L +        ++   ++    +L  LD   
Sbjct: 269 ID--LTHNTQLIYFQAEGCRKIKEL-DVTHNTQLYLLDCQA 306

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 18/97 (18%), Positives = 33/97 (34%), Gaps = 4/97 (4%)

Query: 302 SLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG 361
           +L   Q ++  +     +  +       +Q       + +  L  L+   +  +T +  G
Sbjct: 2   TLKAGQTQSFNDWFPDDNFASEVAAAFEMQATDTISEEQLATLTSLDCHNSS-ITDMT-G 59

Query: 362 ISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
           I KL  L  L  +  +   L   L     L YL  D 
Sbjct: 60  IEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDS 94

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 53.5 bits (129), Expect = 2e-08
 Identities = 35/105 (33%), Positives = 53/105 (50%), Gaps = 4/105 (3%)

Query: 299 RRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
           + + L +NQI  L      S  +L  L+L  N L  +  G F  +  L VL+L  N+ LT
Sbjct: 43  QILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQ-LT 101

Query: 357 KLPSGI-SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQ 400
            LPS +  +LV L+ L +      ELP  ++ L  L +L +D +Q
Sbjct: 102 VLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQNQ 146

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 53.5 bits (129), Expect = 4e-08
 Identities = 32/105 (30%), Positives = 52/105 (49%), Gaps = 3/105 (2%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           +R ++L  N++  +       +L  L L  N LQ + NG F  +  LK L L  N+ L  
Sbjct: 65  VRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQS 123

Query: 358 LPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
           LP G+  KL +L +L+++      LP+ +   L  L  LD+  +Q
Sbjct: 124 LPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQ 168

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 49.2 bits (118), Expect = 1e-06
 Identities = 29/105 (27%), Positives = 51/105 (48%), Gaps = 5/105 (4%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           + ++   N+ IK++      P++  L L  N L DI     + +  L  L L+ N+ L  
Sbjct: 43  IDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQ-LQS 99

Query: 358 LPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
           LP+G+  KL +L+ L +       LP+ +   L  L YL++  +Q
Sbjct: 100 LPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQ 144

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

 Score = 54.4 bits (131), Expect = 7e-08
 Identities = 59/431 (13%), Positives = 127/431 (29%), Gaps = 107/431 (24%)

Query: 11  WRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGF-DVVIWVVVSKELKLET--- 66
             + +  + G + ++G  G GK+ +  +           F   V WV + K+ K      
Sbjct: 139 KLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK 198

Query: 67  --------SQDD--------------------MILSTKKFLLLLDDLWETIDLSKIGVPL 98
                    Q++                    M+    + LL+LDD+W+   L       
Sbjct: 199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQ- 257

Query: 99  PSQKIVSKVVFTTHSEEVCV------------DCFTPQESWQVFQMKVGNETLVSHPAIH 146
                  +++ TT  + V                   ++  ++  + V  +       + 
Sbjct: 258 ------CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLP 307

Query: 147 KPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEW-------KDAIEILMRSALQFPGINKV 199
             A  + K+C G PL ++++G  +        +       K    I   S+  +  +++ 
Sbjct: 308 AEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEA 367

Query: 200 YYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAIN 259
              +  S + L  + I+  +   S    D ++  + L V  W  E   ++D         
Sbjct: 368 ---MSISVEML-REDIKDYYTDLSILQKDVKVPTKVLCV-LWDLETEEVEDILQE----- 417

Query: 260 RRYSINGDLIRASLLEEEED---------------ILEKLRDVVPSDALKWL-GLRRMSL 303
                    +  SLL    +               + EK R  +     K +   +R   
Sbjct: 418 --------FVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRYYQ 469

Query: 304 MNNQIKTLLNTPSCPHL---LTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS 360
            +           C +    L   +    +          +  +K         L     
Sbjct: 470 PHTLSPDQ---EDCMYWYNFLAYHMASANMHKELCALMFSLDWIKAKTE-----LVGPAH 521

Query: 361 GISKLVSLQHL 371
            I + V+ +H+
Sbjct: 522 LIHEFVAYRHI 532

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 52.0 bits (125), Expect = 1e-07
 Identities = 30/106 (28%), Positives = 46/106 (43%), Gaps = 5/106 (4%)

Query: 299 RRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
            ++ L +  + TL +        L  L L+ N LQ +  G F  +  L  L L+ N+ L 
Sbjct: 38  EKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQ-LA 96

Query: 357 KLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
            LP G+   L  L  L +       LP  +   L KLK L ++ +Q
Sbjct: 97  SLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ 142

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 51.2 bits (123), Expect = 2e-07
 Identities = 32/112 (28%), Positives = 49/112 (43%), Gaps = 15/112 (13%)

Query: 298 LRRMSLMNNQIKTL-------LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
           L  ++L  NQ++TL       L       L TL L +N L  +  G F  +  L  L L 
Sbjct: 61  LTWLNLDYNQLQTLSAGVFDDLTE-----LGTLGLANNQLASLPLGVFDHLTQLDKLYLG 115

Query: 351 YNRFLTKLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
            N+ L  LPSG+  +L  L+ L ++      +P      L  L+ L +  +Q
Sbjct: 116 GNQ-LKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQ 166

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 51.8 bits (125), Expect = 2e-07
 Identities = 23/123 (18%), Positives = 46/123 (37%), Gaps = 16/123 (13%)

Query: 287 VVPSDALKWLGLRRMSLMNNQIKTLLNTPS----CPHLLTLFL-NDNYL-----QDIKNG 336
           V+     +   +  + L    +      PS     P+L  L++   N L       I   
Sbjct: 41  VLCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAK- 99

Query: 337 FFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLELPEELKALEKLKYLD 395
               +  L  L +++      +P  +S++ +L  LD S+ + +  LP  + +L  L  + 
Sbjct: 100 ----LTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGIT 155

Query: 396 MDD 398
            D 
Sbjct: 156 FDG 158

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 47.1 bits (113), Expect = 5e-06
 Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 11/86 (12%)

Query: 296 LGLRRMSLMNNQI-----KTLLNTPSCPHLLTLFLNDNYLQ-DIKNGFFQFMPCLKVLNL 349
           L L  + L  N +         +     +   + L  N L  D+  G       L  L+L
Sbjct: 197 LNLAFVDLSRNMLEGDASVLFGS---DKNTQKIHLAKNSLAFDL--GKVGLSKNLNGLDL 251

Query: 350 SYNRFLTKLPSGISKLVSLQHLDISF 375
             NR    LP G+++L  L  L++SF
Sbjct: 252 RNNRIYGTLPQGLTQLKFLHSLNVSF 277

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 44.1 bits (105), Expect = 6e-05
 Identities = 22/104 (21%), Positives = 42/104 (40%), Gaps = 7/104 (6%)

Query: 319 HLLTLFLNDNYLQ-DIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
           +L  + L+ N L+ D    F       + ++L+ N     L   +    +L  LD+    
Sbjct: 198 NLAFVDLSRNMLEGDASVLFGS-DKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNR 255

Query: 378 -TLELPEELKALEKLKYLDMDDHQ---QVMEEGNCQSDDAESLL 417
               LP+ L  L+ L  L++  +    ++ + GN Q  D  +  
Sbjct: 256 IYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYA 299

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 51.4 bits (123), Expect = 2e-07
 Identities = 23/118 (19%), Positives = 37/118 (31%), Gaps = 14/118 (11%)

Query: 293 LKWLGLRRMSLMNNQIKTL------LNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV 346
                L  ++L N    T       L     P L  L +   +  +      +  P L  
Sbjct: 118 ATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALST 177

Query: 347 LNLSYNRFLTKLPSGIS----KLVSLQHLDISFTSTLELPEE----LKALEKLKYLDM 396
           L+LS N  L +     +    K  +LQ L +                 A  +L+ LD+
Sbjct: 178 LDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDL 235

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 50.7 bits (121), Expect = 4e-07
 Identities = 33/181 (18%), Positives = 65/181 (35%), Gaps = 20/181 (11%)

Query: 286 DVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDI--KNGFFQFMPC 343
           D++ S +LK L +R   + +  +   L       L  L L +  +             P 
Sbjct: 63  DIIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTGTAPPPLLEATGPD 122

Query: 344 LKVLNLSYNRFLTKLPSGISKLV-----SLQHLDISFTSTLELP-EELKALEKLKYLDMD 397
           L +LNL          + +++L       L+ L I+   +L    E+++    L  LD+ 
Sbjct: 123 LNILNLRNVS-WATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLS 181

Query: 398 DHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQC-LTSRRLNLE 456
           D        N +  +    L   LC  +   +++ +     +     V   L + R+ L+
Sbjct: 182 D--------NPELGERG--LISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQ 231

Query: 457 V 457
            
Sbjct: 232 G 232

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 8/76 (10%)

Query: 283 KLRDVVPSDALKWLG-LRRMSLMNNQIKTLLNTPSC--PHLLTLFLNDNYLQDIKNGFFQ 339
            LRD   + +  W   L  ++L    +K +   P      L  L L+ N L         
Sbjct: 239 SLRDAAGAPSCDWPSQLNSLNLSFTGLKQV---PKGLPAKLSVLDLSYNRLDRN--PSPD 293

Query: 340 FMPCLKVLNLSYNRFL 355
            +P +  L+L  N FL
Sbjct: 294 ELPQVGNLSLKGNPFL 309

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 48.5 bits (116), Expect = 9e-07
 Identities = 35/106 (33%), Positives = 52/106 (49%), Gaps = 5/106 (4%)

Query: 299 RRMSLMNNQIKTLLNTP--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT 356
             + L  N +K+L N        L  L+L  N LQ + NG F  +  L  LNLS N+ L 
Sbjct: 31  TYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQ-LQ 89

Query: 357 KLPSGI-SKLVSLQHLDISFTSTLELPEEL-KALEKLKYLDMDDHQ 400
            LP+G+  KL  L+ L ++      LP+ +   L +LK L +  +Q
Sbjct: 90  SLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ 135

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7 Length = 192

 Score = 46.9 bits (112), Expect = 2e-06
 Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 5/78 (6%)

Query: 299 RRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
             + L +N++  + +       PHL+ L L  N L  I+   F+    ++ L L  N+ +
Sbjct: 32  TELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK-I 90

Query: 356 TKLPSGI-SKLVSLQHLD 372
            ++ + +   L  L+ L+
Sbjct: 91  KEISNKMFLGLHQLKTLN 108

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7 Length = 192

 Score = 43.1 bits (102), Expect = 5e-05
 Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 10/80 (12%)

Query: 298 LRRMSLMNNQIKTLLNTP-----SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN 352
           L ++ L  NQ+  +            H+  L L +N +++I N  F  +  LK LNL  N
Sbjct: 56  LVKLELKRNQLTGI---EPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDN 112

Query: 353 RFLTKLPSGI-SKLVSLQHL 371
           + ++ +  G    L SL  L
Sbjct: 113 Q-ISCVMPGSFEHLNSLTSL 131

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 46.9 bits (112), Expect = 3e-06
 Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 3/76 (3%)

Query: 299 RRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
             + L  NQ   +     +  HL  + L++N +  + N  F  M  L  L LSYNR L  
Sbjct: 34  TELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNR-LRC 92

Query: 358 LPSGI-SKLVSLQHLD 372
           +P      L SL+ L 
Sbjct: 93  IPPRTFDGLKSLRLLS 108

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 42.3 bits (100), Expect = 1e-04
 Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 4/77 (5%)

Query: 298 LRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL 355
           L  + L NN+I TL N    +   LLTL L+ N L+ I    F  +  L++L+L  N  +
Sbjct: 56  LTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGND-I 114

Query: 356 TKLPSGI-SKLVSLQHL 371
           + +P G  + L +L HL
Sbjct: 115 SVVPEGAFNDLSALSHL 131

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri} Length = 177

 Score = 46.1 bits (110), Expect = 4e-06
 Identities = 27/80 (33%), Positives = 39/80 (48%), Gaps = 3/80 (3%)

Query: 323 LFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDISFTSTLEL 381
           L L  N LQ + +G F  +  L  L+LS N+ +  LP G+  KL  L  L +       L
Sbjct: 33  LELESNKLQSLPHGVFDKLTQLTKLSLSQNQ-IQSLPDGVFDKLTKLTILYLHENKLQSL 91

Query: 382 PEEL-KALEKLKYLDMDDHQ 400
           P  +   L +LK L +D +Q
Sbjct: 92  PNGVFDKLTQLKELALDTNQ 111

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 46.7 bits (110), Expect = 1e-05
 Identities = 17/96 (17%), Positives = 39/96 (40%), Gaps = 3/96 (3%)

Query: 305 NNQIKTLLNTPSCPHLLTLFL-NDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI- 362
           +  + +L + P   +L  L++ N  +LQ ++    + +  L+ L +  +  L  +     
Sbjct: 18  DGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSG-LRFVAPDAF 76

Query: 363 SKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
                L  L++SF +   L  +      L+ L +  
Sbjct: 77  HFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSG 112

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 42.0 bits (98), Expect = 3e-04
 Identities = 20/89 (22%), Positives = 34/89 (38%), Gaps = 24/89 (26%)

Query: 287 VVPSDALKWL-GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLK 345
            +    L+ L  LR ++++ + ++                       +    F F P L 
Sbjct: 46  HLELRDLRGLGELRNLTIVKSGLRF----------------------VAPDAFHFTPRLS 83

Query: 346 VLNLSYNRFLTKLPSGISKLVSLQHLDIS 374
            LNLS+N  L  L     + +SLQ L +S
Sbjct: 84  RLNLSFNA-LESLSWKTVQGLSLQELVLS 111

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 46.4 bits (110), Expect = 1e-05
 Identities = 36/168 (21%), Positives = 57/168 (33%), Gaps = 23/168 (13%)

Query: 293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNG----FFQFMPCLKVLN 348
           L  L L        +   +        +  L L+  Y ++++        +  P L  L+
Sbjct: 170 LDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSG-YRKNLQKSDLSTLVRRCPNLVHLD 228

Query: 349 LSYNRFLT-KLPSGISKLVSLQHLDISFTS--TLELPEELKALEKLKYLDMDDHQQVMEE 405
           LS +  L         +L  LQHL +S       E   EL  +  LK L +         
Sbjct: 229 LSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFG------- 281

Query: 406 GNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSRRL 453
                D    LLKE   L  L I    +CS  +    PT+    ++ +
Sbjct: 282 --IVPDGTLQLLKE--ALPHLQI----NCSHFTTIARPTIGNKKNQEI 321

>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 Length = 267

 Score = 45.0 bits (106), Expect = 3e-05
 Identities = 33/128 (25%), Positives = 50/128 (39%), Gaps = 17/128 (13%)

Query: 281 LEKLR-DVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKN--GF 337
           L+ LR D         + L R S M   ++ +      P LL+L L++N L  + +    
Sbjct: 134 LKGLRSDPDLVAQNIDVVLNRRSCMAATLRIIEEN--IPELLSLNLSNNRLYRLDDMSSI 191

Query: 338 FQFMPCLKVLNLSYNRFLTKLPSGISKL--VSLQHLDIS---FTSTLELPEE-----LKA 387
            Q  P LK+LNLS N    K    + K+  + L+ L +       T            + 
Sbjct: 192 VQKAPNLKILNLSGNEL--KSERELDKIKGLKLEELWLDGNSLCDTFRDQSTYISAIRER 249

Query: 388 LEKLKYLD 395
             KL  LD
Sbjct: 250 FPKLLRLD 257

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 42.9 bits (101), Expect = 4e-05
 Identities = 21/132 (15%), Positives = 45/132 (34%), Gaps = 9/132 (6%)

Query: 292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSY 351
            +++ G +R     N + T         +  +   D+ +  I     + +  ++ + L  
Sbjct: 37  MVRYHGQQRWQKDYNHLPTGPL--DKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCK 94

Query: 352 NRFLT-----KLPSGISKLVSLQHLDISFTS--TLELPEELKALEKLKYLDMDDHQQVME 404
             ++      +L    +   S+  ++I      T +    L     LKYL + D   V E
Sbjct: 95  CHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKE 154

Query: 405 EGNCQSDDAESL 416
           +         SL
Sbjct: 155 KEKIVQAFKTSL 166

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D Length = 170

 Score = 42.6 bits (101), Expect = 6e-05
 Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 323 LFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDIS 374
           L+L DN +  ++ G F  +  L  L+L  N+ LT LP+G+  KL  L  L ++
Sbjct: 35  LYLYDNQITKLEPGVFDRLTQLTRLDLDNNQ-LTVLPAGVFDKLTQLTQLSLN 86

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus} Length = 174

 Score = 42.2 bits (100), Expect = 7e-05
 Identities = 18/53 (33%), Positives = 32/53 (60%), Gaps = 2/53 (3%)

Query: 323 LFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI-SKLVSLQHLDIS 374
           L+LN+N +  ++ G F  +  L+ L  + N+ LT +P+G+  KL  L  LD++
Sbjct: 38  LWLNNNQITKLEPGVFDHLVNLQQLYFNSNK-LTAIPTGVFDKLTQLTQLDLN 89

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 42.2 bits (99), Expect = 3e-04
 Identities = 23/164 (14%), Positives = 43/164 (26%), Gaps = 24/164 (14%)

Query: 316 SCPHLLTLFLNDNYLQDIK----NGFFQFMPCLKVLNLSYNRFLTKLPSGISKLV----S 367
            C  + TL + ++   +      +   Q    L+VLN     F    P  +  +     S
Sbjct: 162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRS 221

Query: 368 LQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEG---------------NCQSDD 412
           L  + +     LEL    KA   L+        + +                        
Sbjct: 222 LVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMG 281

Query: 413 AESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTS-RRLNL 455
              +        Q+  + L    L +      +Q   +   L  
Sbjct: 282 PNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLET 325

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

 Score = 41.1 bits (95), Expect = 6e-04
 Identities = 18/121 (14%), Positives = 43/121 (35%), Gaps = 30/121 (24%)

Query: 307 QIKTLLNTPSCPHLLTLFLNDNYLQD---IKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS 363
             + L +    P+L  L + D   Q+           +P L+ +++S             
Sbjct: 241 VFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGV---------- 290

Query: 364 KLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCL 423
                    ++      L + +  ++ LK+++M          N  SD+ +  L++ L +
Sbjct: 291 ---------LTDEGARLLLDHVDKIKHLKFINMKY--------NYLSDEMKKELQKSLPM 333

Query: 424 E 424
           +
Sbjct: 334 K 334

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

 Score = 41.1 bits (95), Expect = 6e-04
 Identities = 22/105 (20%), Positives = 37/105 (35%), Gaps = 17/105 (16%)

Query: 292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGF------FQFMPCLK 345
            LKWLG+      N  ++  L +   P L T+ ++   L D   G          +  LK
Sbjct: 253 NLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTD--EGARLLLDHVDKIKHLK 310

Query: 346 VLNLSYNRF----LTKLPSGISKLVSLQHLDI-----SFTSTLEL 381
            +N+ YN        +L   +   + +          S+    EL
Sbjct: 311 FINMKYNYLSDEMKKELQKSLPMKIDVSDSQEYDDDYSYPMITEL 355

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	483
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.97
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.72
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.69
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.69
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.68
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.68
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.68
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.68
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.68
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.67
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.67
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.67
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.65
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.65
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.65
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.65
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.65
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.64
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.64
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.64
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.63
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.63
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.62
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.62
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.62
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.61
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.61
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.61
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.61
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.61
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.61
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.61
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.61
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.6
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.6
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.6
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.6
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.6
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.59
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.59
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.58
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.58
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.58
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.58
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.58
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.58
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.58
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.58
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.57
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.57
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.57
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.57
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.57
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.56
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.56
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.56
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.56
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.56
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.56
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.56
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.56
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.55
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.55
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.55
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.55
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.54
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.53
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.53
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.53
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.53
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.53
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.52
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.52
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.52
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.52
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.52
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.52
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.51
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.51
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.5
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.5
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.5
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.5
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.5
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.49
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.49
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.49
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.49
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.49
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.49
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.48
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.48
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.48
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.48
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.47
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.47
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.47
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.47
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.46
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.46
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.46
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.45
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.45
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.43
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.43
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.41
2fna_A	357	Conserved hypothetical protein; structural genomic	99.4
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.39
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.39
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.39
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.39
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.38
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.38
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.38
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.38
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.37
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.37
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.37
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.36
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.36
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.36
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.35
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.34
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.33
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.33
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.33
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.32
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.31
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.31
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.3
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.3
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.29
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.28
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.26
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.26
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.23
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.22
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.22
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.19
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.16
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.15
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.08
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.07
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.06
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.03
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	99.01
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.0
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.98
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.97
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.97
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.94
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.93
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.87
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.77
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.75
3bos_A	242	Putative DNA replication factor; P-loop containing	98.71
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.69
3pvs_A	447	Replication-associated recombination protein A; ma	98.64
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.64
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.6
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.59
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.58
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.57
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.57
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.55
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.53
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.5
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.5
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.5
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.48
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.47
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.47
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.46
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.45
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.45
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.41
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.4
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.36
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.36
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.36
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.34
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.33
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.3
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.29
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.29
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.29
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.24
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.21
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	98.19
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.19
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.14
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.12
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.11
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.09
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.06
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	98.04
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.03
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.03
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.03
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	98.02
3co5_A	143	Putative two-component system transcriptional RES	97.98
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.98
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.96
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.95
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.95
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.92
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.9
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.89
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.85
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.81
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.8
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.8
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.8
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	97.78
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.76
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.75
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.7
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.65
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.39
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.37
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.36
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.3
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.18
2qgz_A	308	Helicase loader, putative primosome component; str	97.17
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.15
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.1
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.01
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.0
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.98
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.94
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.93
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.87
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.86
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.79
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.68
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.59
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.58
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.53
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.52
3ice_A	422	Transcription termination factor RHO; transcriptio	96.51
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.49
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.45
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.45
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.41
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.38
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.34
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	96.32
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.29
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.27
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.27
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.26
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.22
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.2
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	96.19
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.18
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.17
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.15
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.15
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.14
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.12
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.11
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.07
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.05
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.05
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.05
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.02
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.01
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.0
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.99
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.98
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.97
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.96
3end_A	307	Light-independent protochlorophyllide reductase ir	95.94
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.93
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.93
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.89
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.88
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.86
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.85
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.85
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.84
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.84
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.79
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.78
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.76
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.75
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	95.75
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.75
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.75
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.74
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.71
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.69
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.69
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.69
1via_A	175	Shikimate kinase; structural genomics, transferase	95.68
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.66
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.65
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.64
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.63
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.63
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.63
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.62
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.61
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.6
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.6
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.59
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.57
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.57
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.57
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.56
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.55
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.54
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.54
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.53
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.52
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.51
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.51
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.51
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.5
2xxa_A	433	Signal recognition particle protein; protein trans	95.5
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.49
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.49
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.49
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.47
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.47
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.47
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.47
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	95.45
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.45
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.44
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.44
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	95.4
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.4
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.39
3io5_A	333	Recombination and repair protein; storage dimer, i	95.39
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.38
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.38
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.37
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.34
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.34
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.33
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.32
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.28
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.26
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.25
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.24
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.24
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.21
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.2
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.18
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.16
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.16
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.13
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.11
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.1
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.09
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.09
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.09
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.06
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	95.05
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.01
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.99
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.99
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.98
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.97
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.96
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.93
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.93
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.93
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.92
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.92
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.92
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.91
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.91
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.9
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.89
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.88
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.87
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.85
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.84
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.82
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.8
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.79
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.77
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.76
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.75
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.72
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.69
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.69
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.68
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.67
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.66
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.64
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.6
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.6
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	94.6
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.58
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.58
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.58
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.56
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.51
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	94.51
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.51
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.51
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.5
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.5
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.46
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.41
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	94.35
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.33
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.32
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.32
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.3
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.28
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.27
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.26
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.24
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.23
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.21
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.19
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.18
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.15
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	94.14
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.14
2og2_A	359	Putative signal recognition particle receptor; nuc	94.12
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	94.08
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.07
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.04
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.03
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.03
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	94.03
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.01
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.99
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.98
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.98
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.96
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.95
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.94
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.93
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.91
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.91
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.89
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.89
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.88
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	93.88
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.87
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.87
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.87
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.86
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.85
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	93.85
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	93.84
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.84
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.84
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.83
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.83
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	93.83
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.83
1g6h_A	257	High-affinity branched-chain amino acid transport	93.82
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.82
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.81
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.78
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.78
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.76
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.76
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.76
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	93.75
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.75
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.72
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.7
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.7
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.69
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.68
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.68
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.68
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.67
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.66
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.66
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.66
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	93.65
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.58
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.58
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.57
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.56
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.51
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.48
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.47
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.46
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.44
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.43
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.41
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.41
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.4
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.36
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	93.34
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	93.32

>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=1.5e-40  Score=339.52  Aligned_cols=271  Identities=16%  Similarity=0.145  Sum_probs=206.4

Q ss_pred             CCChhHHHHHHHHHhcC---CeEEEEEEcCCCCcHHHHHHHHHh--hcccCCCCCCEEEEEEeCCCc--CccchhH----
Q 038724            1 IENPKQFYQVWRFLVKK---DVGIIGLFGTGGVGKTTILKQINN--RFCSERPGFDVVIWVVVSKEL--KLETSQD----   69 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---~~~~v~i~G~~GiGKTtLa~~~~~--~~~~~~~~f~~~~~v~~~~~~--~~~~~~~----   69 (483)
                      +||++++++|.++|..+   ..++|+|+||||+||||||+++|+  +. .++.+|++++||++++..  +...++.    
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            59999999999999754   679999999999999999999997  34 568899999999998864  2222222    


Q ss_pred             ------------------------Hh--hhcCC-cEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh-----
Q 038724           70 ------------------------DM--ILSTK-KFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        70 ------------------------~i--~l~~~-~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~-----  117 (483)
                                              .+  .++++ |+||||||||+.+++ .+.     ..+||+||||||++.++     
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~~~v~~~~~~  283 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRDVEISNAASQ  283 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESBGGGGGGCCS
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCCHHHHHHcCC
Confidence                                    22  56776 999999999998754 211     12689999999998776     


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhccc
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSAL  191 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~~  191 (483)
                            +++|++++|++||.+.++...  ..+...+.+++|+++|+|+|||++++|+.++.+ .   |... +.+.....
T Consensus       284 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~---w~~~-~~l~~~l~  356 (549)
T 2a5y_B          284 TCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T---FEKM-AQLNNKLE  356 (549)
T ss_dssp             CEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S---HHHH-HHHHHHHH
T ss_pred             CCeEEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h---HHHH-HHhHHHhh
Confidence                  889999999999999986543  235667789999999999999999999999763 2   4433 33333221


Q ss_pred             CCCChHHHHHhhhcccCCCCchhhhHHHh-----------hhcCCCCCCccccccceehhhhhc--CCccCCccchHHHH
Q 038724          192 QFPGINKVYYRLKFSFDRLPSDQIRSCFL-----------FCSPFPGDYRIHKRDLVVNYWIDE--GIILDDEFDRNKAI  258 (483)
Q Consensus       192 ~~~~~~~~~~~l~~s~~~L~~~~~~~~~~-----------~~a~fp~~~~i~~~~l~i~~w~~e--g~~~~~~~~~~~~~  258 (483)
                      ... ...+..++.+||+.||+ +++.||.           |||+||+++.++     +..|+++  ||+.... .....+
T Consensus       357 ~~~-~~~i~~~l~~Sy~~L~~-~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~-----i~~w~a~~~G~i~~~~-~~~~~~  428 (549)
T 2a5y_B          357 SRG-LVGVECITPYSYKSLAM-ALQRCVEVLSDEDRSALAFAVVMPPGVDIP-----VKLWSCVIPVDICSNE-EEQLDD  428 (549)
T ss_dssp             HHC-SSTTCCCSSSSSSSHHH-HHHHHHHTSCHHHHHHTTGGGSSCTTCCEE-----HHHHHHHSCC--------CCCTH
T ss_pred             ccc-HHHHHHHHhcccccccH-HHHHHHhccchhhhhHhhheeeeCCCCeee-----eeeeeeeccceeccCC-CCCCHH
Confidence            111 22678889999999999 8999999           999999999886     6899999  8887543 112234


Q ss_pred             HHHHHHhhHHHHhhhhhhhh---hhhhhhcccCcccccc
Q 038724          259 NRRYSINGDLIRASLLEEEE---DILEKLRDVVPSDALK  294 (483)
Q Consensus       259 ~~~~~~l~~L~~~sll~~~~---~~~~~l~~~~~~~~~~  294 (483)
                      +.+. ++++|+++++++...   ...|+||+++++++..
T Consensus       429 ~~~~-~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~  466 (549)
T 2a5y_B          429 EVAD-RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKH  466 (549)
T ss_dssp             HHHH-HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHT
T ss_pred             HHHH-HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHH
Confidence            4455 999999999998742   3469999999998874

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=4e-35  Score=304.16  Aligned_cols=246  Identities=17%  Similarity=0.223  Sum_probs=198.5

Q ss_pred             CCChhHHHHHHHHHhc-CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCE-EEEEEeCCCcCccchhHHh-------
Q 038724            1 IENPKQFYQVWRFLVK-KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDV-VIWVVVSKELKLETSQDDM-------   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~-~~~v~~~~~~~~~~~~~~i-------   71 (483)
                      |||++++++|.++|.. ++.++|+|+||||+||||||+++|++. +++.+|+. ++|+++++.++...+...+       
T Consensus       131 VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            7999999999999986 567899999999999999999999865 44667886 9999999876643322211       


Q ss_pred             ------------------------------hhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh----
Q 038724           72 ------------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC----  117 (483)
Q Consensus        72 ------------------------------~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~----  117 (483)
                                                    ...++|+||||||||+.++|+.+.       +||+||||||++.++    
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~l~  282 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDFLS  282 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHHHH
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHhcC
Confidence                                          125799999999999988887642       589999999999875    


Q ss_pred             ------hc------cCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCC-CCHHHHHHHHH
Q 038724          118 ------VD------CFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYK-KTPEEWKDAIE  184 (483)
Q Consensus       118 ------l~------~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~-~~~~~w~~~~~  184 (483)
                            ++      +|+++||++||....+..       ..+..++   .|+|+|||++++|+.|+.+ ...+.|...  
T Consensus       283 g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-------~eeL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW~~~--  350 (1221)
T 1vt4_I          283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-------PQDLPRE---VLTTNPRRLSIIAESIRDGLATWDNWKHV--  350 (1221)
T ss_dssp             HHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-------TTTHHHH---HCCCCHHHHHHHHHHHHHSCSSHHHHHHC--
T ss_pred             CCeEEEecCccccCCcCHHHHHHHHHHHcCCC-------HHHHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHHhcC--
Confidence                  55      899999999999885322       2233444   3999999999999999875 266778652  


Q ss_pred             HHHhcccCCCChHHHHHhhhcccCCCCchhh-hHHHhhhcCCCCCCccccccceehhhhhcCCccCCccchHHHHHHHHH
Q 038724          185 ILMRSALQFPGINKVYYRLKFSFDRLPSDQI-RSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYS  263 (483)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~s~~~L~~~~~-~~~~~~~a~fp~~~~i~~~~l~i~~w~~eg~~~~~~~~~~~~~~~~~~  263 (483)
                                ....+..++..||+.||+ +. |.||++||+||+++.|+.+.+ +..|.++|.            +.+..
T Consensus       351 ----------~~~~I~aaLelSYd~Lp~-eelK~cFL~LAIFPed~~I~~elL-a~LW~aeGe------------edAe~  406 (1221)
T 1vt4_I          351 ----------NCDKLTTIIESSLNVLEP-AEYRKMFDRLSVFPPSAHIPTILL-SLIWFDVIK------------SDVMV  406 (1221)
T ss_dssp             ----------SCHHHHHHHHHHHHHSCT-THHHHHHHHTTSSCTTSCEEHHHH-HHHHCSSCS------------HHHHH
T ss_pred             ----------ChhHHHHHHHHHHHhCCH-HHHHHHHHHHhCCCCCCCCCHHHH-HHHhcCCCH------------HHHHH
Confidence                      124899999999999999 78 999999999999999998888 999988761            23667


Q ss_pred             HhhHHHHhhhhhhh-hhhhhhhcccCcc
Q 038724          264 INGDLIRASLLEEE-EDILEKLRDVVPS  290 (483)
Q Consensus       264 ~l~~L~~~sll~~~-~~~~~~l~~~~~~  290 (483)
                      ++++|++++++... ....|+||+++.+
T Consensus       407 ~L~eLvdRSLLq~d~~~~rYrMHDLllE  434 (1221)
T 1vt4_I          407 VVNKLHKYSLVEKQPKESTISIPSIYLE  434 (1221)
T ss_dssp             HHHHHHTSSSSSBCSSSSEEBCCCHHHH
T ss_pred             HHHHHHhhCCEEEeCCCCEEEehHHHHH
Confidence            89999999999874 3456888888654

>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=100.00  E-value=7.2e-34  Score=319.40  Aligned_cols=265  Identities=18%  Similarity=0.279  Sum_probs=210.9

Q ss_pred             CCChhHHHHHHHHHh--cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCC-CCCEEEEEEeCCCcC------ccchhHHh
Q 038724            1 IENPKQFYQVWRFLV--KKDVGIIGLFGTGGVGKTTILKQINNRFCSERP-GFDVVIWVVVSKELK------LETSQDDM   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~--~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~-~f~~~~~v~~~~~~~------~~~~~~~i   71 (483)
                      |||++++++|.+.|.  +++.++|+|+||||+||||||+++|++...... ++++++|+++++..+      +..+...+
T Consensus       127 vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l  206 (1249)
T 3sfz_A          127 VTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRL  206 (1249)
T ss_dssp             CCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHHHHHh
Confidence            799999999999995  357899999999999999999999987522234 557788999987432      11111111


Q ss_pred             -----------------------hhc--CCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh---------
Q 038724           72 -----------------------ILS--TKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC---------  117 (483)
Q Consensus        72 -----------------------~l~--~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~---------  117 (483)
                                             .+.  ++|+||||||||+..++..+       .+||+||||||++.++         
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~~~~~~~~  279 (1249)
T 3sfz_A          207 DQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDSVMGPKHV  279 (1249)
T ss_dssp             TTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTTCCSCBCC
T ss_pred             hhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHhhcCCceE
Confidence                                   233  44999999999998776653       4689999999999775         


Q ss_pred             --hcc-CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhcccCC-
Q 038724          118 --VDC-FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQF-  193 (483)
Q Consensus       118 --l~~-L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~~~~-  193 (483)
                        +++ |++++|+++|...++...    +...+.+++|+++|+|+||||+++|++|+.+.  ..|..+++.+....... 
T Consensus       280 ~~~~~~l~~~~a~~l~~~~~~~~~----~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~~~~~~~  353 (1249)
T 3sfz_A          280 VPVESGLGREKGLEILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQNKQFKRI  353 (1249)
T ss_dssp             EECCSSCCHHHHHHHHHHHHTSCS----TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHSCCCCCS
T ss_pred             EEecCCCCHHHHHHHHHHhhCCCh----hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhhhhhhhc
Confidence              554 999999999998885432    45567899999999999999999999998743  57998888886654221 


Q ss_pred             -----CChHHHHHhhhcccCCCCchhhhHHHhhhcCCCCCCccccccceehhhhhcCCccCCccchHHHHHHHHHHhhHH
Q 038724          194 -----PGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGDL  268 (483)
Q Consensus       194 -----~~~~~~~~~l~~s~~~L~~~~~~~~~~~~a~fp~~~~i~~~~l~i~~w~~eg~~~~~~~~~~~~~~~~~~~l~~L  268 (483)
                           ...+.+..++.+||+.|++ +.|.||.+||+||+++.|+...+ +..|.++             .+.+..++++|
T Consensus       354 ~~~~~~~~~~~~~~l~~s~~~L~~-~~~~~~~~l~~f~~~~~i~~~~~-~~~~~~~-------------~~~~~~~l~~L  418 (1249)
T 3sfz_A          354 RKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVL-CVLWDLE-------------TEEVEDILQEF  418 (1249)
T ss_dssp             SCTTCTTHHHHHHHHHHHHHTSCT-TTHHHHHHGGGSCTTCCEEHHHH-HHHHTCC-------------HHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHHHhCCH-HHHHHHHHhCccCCCCeeCHHHH-HHHhCCC-------------HHHHHHHHHHH
Confidence                 1234799999999999999 89999999999999999999999 9999653             24567789999


Q ss_pred             HHhhhhhhhhhh---hhhhcccCccccc
Q 038724          269 IRASLLEEEEDI---LEKLRDVVPSDAL  293 (483)
Q Consensus       269 ~~~sll~~~~~~---~~~l~~~~~~~~~  293 (483)
                      ++++++......   .|+||+++++++.
T Consensus       419 ~~~sl~~~~~~~~~~~~~~h~l~~~~~~  446 (1249)
T 3sfz_A          419 VNKSLLFCNRNGKSFCYYLHDLQVDFLT  446 (1249)
T ss_dssp             HHTTSCEEEESSSSEEEECCHHHHHHHH
T ss_pred             HhccceEEecCCCceEEEecHHHHHHHH
Confidence            999999875333   4899998887765

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

Probab=99.97  E-value=9.5e-32  Score=278.47  Aligned_cols=265  Identities=20%  Similarity=0.322  Sum_probs=204.3

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhcccC-CCCC-CEEEEEEeCCCcCc---cch------
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRFCSE-RPGF-DVVIWVVVSKELKL---ETS------   67 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~-~~~f-~~~~~v~~~~~~~~---~~~------   67 (483)
                      |||++++++|.+++..  ++.++|+|+||||+||||||.+++++. .. ..+| ++++|++++.....   ..+      
T Consensus       127 vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~~~~~~~~~l~~l~~~  205 (591)
T 1z6t_A          127 VTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTR  205 (591)
T ss_dssp             CCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCCchHHHHHHHHHHHHH
Confidence            7999999999999984  467899999999999999999999875 22 4567 57999998764210   011      


Q ss_pred             ------------------hHHh--hhc--CCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh--------
Q 038724           68 ------------------QDDM--ILS--TKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC--------  117 (483)
Q Consensus        68 ------------------~~~i--~l~--~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~--------  117 (483)
                                        ...+  .+.  .+++||||||+|+...+..+       ..+++||||||+..++        
T Consensus       206 l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~~~~~~~  278 (591)
T 1z6t_A          206 LDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVMGPKY  278 (591)
T ss_dssp             HCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTTCCSCEE
T ss_pred             hccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHhcCCCce
Confidence                              0011  122  37899999999987665432       4579999999999765        


Q ss_pred             ----hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhcccC-
Q 038724          118 ----VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQ-  192 (483)
Q Consensus       118 ----l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~~~-  192 (483)
                          +++|+.++++++|...++...    ....+.+++|+++|+|+|+|++++|+.++..  ...|..+++.+...... 
T Consensus       279 ~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~~~~~~  352 (591)
T 1z6t_A          279 VVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQFKR  352 (591)
T ss_dssp             EEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHSCCCCC
T ss_pred             EeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHHhHHHH
Confidence                358999999999999886532    2335678999999999999999999999863  34688888887654321 


Q ss_pred             -----CCChHHHHHhhhcccCCCCchhhhHHHhhhcCCCCCCccccccceehhhhhcCCccCCccchHHHHHHHHHHhhH
Q 038724          193 -----FPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPFPGDYRIHKRDLVVNYWIDEGIILDDEFDRNKAINRRYSINGD  267 (483)
Q Consensus       193 -----~~~~~~~~~~l~~s~~~L~~~~~~~~~~~~a~fp~~~~i~~~~l~i~~w~~eg~~~~~~~~~~~~~~~~~~~l~~  267 (483)
                           ......+..++..||+.||+ +.|.||.++|+||+++.++...+ ...|..+             ...+..++++
T Consensus       353 ~~~~~~~~~~~l~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~i~~~~l-~~l~~~~-------------~~~~~~~l~~  417 (591)
T 1z6t_A          353 IRKSSSYDYEALDEAMSISVEMLRE-DIKDYYTDLSILQKDVKVPTKVL-CILWDME-------------TEEVEDILQE  417 (591)
T ss_dssp             SSCCCSSCCHHHHHHHHHHHHTSCT-TTHHHHHHGGGCCTTCCEEHHHH-HHHHTCC-------------HHHHHHHHHH
T ss_pred             hhhccccchHHHHHHHHHHHHhCCH-HHHHHHHHccccCCCCccCHHHH-HHHhccC-------------HHHHHHHHHH
Confidence                 11224789999999999999 89999999999999999988877 7778542             1235678999


Q ss_pred             HHHhhhhhhhh---hhhhhhcccCcccccc
Q 038724          268 LIRASLLEEEE---DILEKLRDVVPSDALK  294 (483)
Q Consensus       268 L~~~sll~~~~---~~~~~l~~~~~~~~~~  294 (483)
                      |++++++....   ...|++|+.++++...
T Consensus       418 L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~  447 (591)
T 1z6t_A          418 FVNKSLLFCDRNGKSFRYYLHDLQVDFLTE  447 (591)
T ss_dssp             HHHTTSSEEEEETTEEEEECCHHHHHHHHH
T ss_pred             HHhCcCeEEecCCCccEEEEcHHHHHHHHh
Confidence            99999997532   3468899988877653

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

Probab=99.72  E-value=1.4e-17  Score=158.90  Aligned_cols=167  Identities=22%  Similarity=0.245  Sum_probs=120.1

Q ss_pred             CccccccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCccccc--
Q 038724          288 VPSDALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISK--  364 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~--  364 (483)
                      ++..+..+++|++|++++|.++.++.. ..+++|++|++++|.+..+|.. +..+++|++|++++|+..+.+|..++.  
T Consensus        96 lp~~l~~l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~-l~~l~~L~~L~L~~n~~~~~~p~~~~~~~  174 (328)
T 4fcg_A           96 FPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPAS-IASLNRLRELSIRACPELTELPEPLASTD  174 (328)
T ss_dssp             CCSCGGGGTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGG-GGGCTTCCEEEEEEETTCCCCCSCSEEEC
T ss_pred             cChhhhhCCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHH-HhcCcCCCEEECCCCCCccccChhHhhcc
Confidence            444455688999999999999877653 6789999999999999877655 888999999999998888888887765  


Q ss_pred             -------CcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCCCC-CCCCc-----------cchhhHhhhccccc
Q 038724          365 -------LVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEG-NCQSD-----------DAESLLKEMLCLEQ  425 (483)
Q Consensus       365 -------l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~-~~~l~-----------~~~~~~~~l~~l~~  425 (483)
                             +++|++|++++|.+..+|..++.+++|++|++++|.+..+|. +..+.           .....+..+..+++
T Consensus       175 ~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~  254 (328)
T 4fcg_A          175 ASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP  254 (328)
T ss_dssp             -CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECTTCTTCCBCCCCTTCCCC
T ss_pred             chhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECcCCcchhhhHHHhcCCCC
Confidence                   899999999999988999889999999999999998776532 22111           12223334445555


Q ss_pred             cccceeeccCc-----cccCCCCCcccccceeeee
Q 038724          426 LNIIRLTSCSL-----CSLCGLPTVQCLTSRRLNL  455 (483)
Q Consensus       426 L~~L~l~~~~l-----~~l~~l~~l~~l~l~~~~~  455 (483)
                      |+.|++++|++     ..+..+++|+.|++++|++
T Consensus       255 L~~L~L~~n~~~~~~p~~~~~l~~L~~L~L~~n~~  289 (328)
T 4fcg_A          255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVN  289 (328)
T ss_dssp             CCEEECTTCTTCCBCCTTGGGCTTCCEEECTTCTT
T ss_pred             CCEEECCCCCchhhcchhhhcCCCCCEEeCCCCCc
Confidence            55555555443     1234445555555554433

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.69  E-value=6.8e-17  Score=153.10  Aligned_cols=114  Identities=17%  Similarity=0.259  Sum_probs=52.8

Q ss_pred             ccccccccceEEEEccc-cccccccC--CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccC
Q 038724          289 PSDALKWLGLRRMSLMN-NQIKTLLN--TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKL  365 (483)
Q Consensus       289 ~~~~~~~~~l~~l~l~~-~~~~~~~~--~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l  365 (483)
                      +..+..+++|+.|++++ |.+.+..+  ...+++|++|++++|.+....+..+..+++|++|++++|.+.+.+|..+..+
T Consensus        69 ~~~l~~l~~L~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l  148 (313)
T 1ogq_A           69 PSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL  148 (313)
T ss_dssp             CGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGC
T ss_pred             ChhHhCCCCCCeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcC
Confidence            33444444555555552 44442222  1344455555555554443333334445555555555554444444445555


Q ss_pred             cCCCEEeccCCCCC-ccCccccCCc-CCCEEecCCCCCc
Q 038724          366 VSLQHLDISFTSTL-ELPEELKALE-KLKYLDMDDHQQV  402 (483)
Q Consensus       366 ~~L~~L~l~~~~i~-~lp~~~~~l~-~L~~L~l~~n~~~  402 (483)
                      ++|++|++++|.+. .+|..+..++ +|+.|++++|.+.
T Consensus       149 ~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~  187 (313)
T 1ogq_A          149 PNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT  187 (313)
T ss_dssp             TTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEE
T ss_pred             CCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeee
Confidence            55555555555443 4444444444 4455555554444

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.69  E-value=1.3e-16  Score=149.27  Aligned_cols=174  Identities=19%  Similarity=0.139  Sum_probs=106.3

Q ss_pred             hhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCc-cccccchhhhcCCCccEEEccCCccCccCC
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNY-LQDIKNGFFQFMPCLKVLNLSYNRFLTKLP  359 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~-~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p  359 (483)
                      .+.++.+..+..+++++.|++++|.++.+.+.  ..+++|++|++++|. +..+++..+..+++|++|++++|.+.+..|
T Consensus        43 ~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  122 (285)
T 1ozn_A           43 RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGP  122 (285)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCT
T ss_pred             cCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECH
Confidence            34444444555666777777777777666432  456677777777775 666656556677777777777776555556


Q ss_pred             cccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCC--CCCCc-----------cchhhHhhhccccc
Q 038724          360 SGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEG--NCQSD-----------DAESLLKEMLCLEQ  425 (483)
Q Consensus       360 ~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~--~~~l~-----------~~~~~~~~l~~l~~  425 (483)
                      ..+..+++|++|++++|.+..+|.. +..+++|+.|++++|.+...|.  +..+.           .....+..+..+++
T Consensus       123 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~  202 (285)
T 1ozn_A          123 GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGR  202 (285)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTT
T ss_pred             hHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCcccccCHhHccCccc
Confidence            6666777777777777776666654 6667777777777776554422  22111           11222445666667


Q ss_pred             cccceeeccCccc-----cCCCCCcccccceeeeee
Q 038724          426 LNIIRLTSCSLCS-----LCGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       426 L~~L~l~~~~l~~-----l~~l~~l~~l~l~~~~~~  456 (483)
                      |+.|++++|.+..     +..+++|+.|++++|.+.
T Consensus       203 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~~~  238 (285)
T 1ozn_A          203 LMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV  238 (285)
T ss_dssp             CCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEE
T ss_pred             ccEeeCCCCcCCcCCHHHcccCcccCEEeccCCCcc
Confidence            7777777766533     345566666666555543

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.68  E-value=3e-16  Score=145.46  Aligned_cols=163  Identities=23%  Similarity=0.281  Sum_probs=122.2

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP  359 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p  359 (483)
                      ..+..+.+..+..+++|+.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|.+....|
T Consensus        47 n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  126 (270)
T 2o6q_A           47 NKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPP  126 (270)
T ss_dssp             SCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCT
T ss_pred             CCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCH
Confidence            334445555566778888888888888877764  457888888888888888887777888888888888887666666


Q ss_pred             cccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          360 SGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       360 ~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      ..+..+++|++|++++|.+..+|.. +..+++|+.|++++|.+..+|           +..+..+++|+.|++++|++..
T Consensus       127 ~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~-----------~~~~~~l~~L~~L~L~~N~l~~  195 (270)
T 2o6q_A          127 RVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVP-----------EGAFDKLTELKTLKLDNNQLKR  195 (270)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCC-----------TTTTTTCTTCCEEECCSSCCSC
T ss_pred             HHhCcCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCcCcEeC-----------hhHhccCCCcCEEECCCCcCCc
Confidence            6678888888888888888888776 678888888888888866442           2346778899999999998754


Q ss_pred             c-----CCCCCcccccceeeee
Q 038724          439 L-----CGLPTVQCLTSRRLNL  455 (483)
Q Consensus       439 l-----~~l~~l~~l~l~~~~~  455 (483)
                      +     ..+++|+.|++++|.+
T Consensus       196 ~~~~~~~~l~~L~~L~l~~N~~  217 (270)
T 2o6q_A          196 VPEGAFDSLEKLKMLQLQENPW  217 (270)
T ss_dssp             CCTTTTTTCTTCCEEECCSSCB
T ss_pred             CCHHHhccccCCCEEEecCCCe
Confidence            3     4456666666655544

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.68  E-value=3.7e-16  Score=144.85  Aligned_cols=157  Identities=22%  Similarity=0.266  Sum_probs=131.3

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .+++.|++++|.++.+++.  ..+++|++|++++|.++.+++..|..+++|++|++++|++....+..+..+++|++|++
T Consensus        37 ~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  116 (270)
T 2o6q_A           37 ADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRL  116 (270)
T ss_dssp             TTCSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEEC
T ss_pred             CCCCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEEC
Confidence            5688999999999988763  67899999999999999999888899999999999999865555566789999999999


Q ss_pred             cCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCccc
Q 038724          374 SFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQC  447 (483)
Q Consensus       374 ~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~  447 (483)
                      ++|.+..+|.. +..+++|++|++++|.+...|.           ..+..+++|+.|++++|.+..     +..+++|+.
T Consensus       117 ~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~-----------~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~  185 (270)
T 2o6q_A          117 DRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPK-----------GVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKT  185 (270)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-----------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCE
T ss_pred             CCCccCeeCHHHhCcCcCCCEEECCCCcCCccCH-----------hHccCCcccceeEecCCcCcEeChhHhccCCCcCE
Confidence            99999888765 7899999999999998765432           236789999999999998754     566789999


Q ss_pred             ccceeeeeeeeecccc
Q 038724          448 LTSRRLNLEVEDWHKC  463 (483)
Q Consensus       448 l~l~~~~~~~~~~~~~  463 (483)
                      |++++|.+...+...+
T Consensus       186 L~L~~N~l~~~~~~~~  201 (270)
T 2o6q_A          186 LKLDNNQLKRVPEGAF  201 (270)
T ss_dssp             EECCSSCCSCCCTTTT
T ss_pred             EECCCCcCCcCCHHHh
Confidence            9999888876554433

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.68  E-value=2.9e-16  Score=143.90  Aligned_cols=150  Identities=23%  Similarity=0.241  Sum_probs=101.2

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      ..++.|++++|.++.+++.  ..+++|++|++++|.++.+++..|..+++|++|++++|.+....|..+..+++|++|++
T Consensus        35 ~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  114 (251)
T 3m19_A           35 ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYL  114 (251)
T ss_dssp             TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEc
Confidence            4567777777777776653  45677777777777777777766777777777777777655544556677777777777


Q ss_pred             cCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCccc
Q 038724          374 SFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQC  447 (483)
Q Consensus       374 ~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~  447 (483)
                      ++|.+..+|.. +..+++|+.|++++|.+..+|.           ..+..+++|+.|++++|.+..     +..+++|+.
T Consensus       115 ~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~-----------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~  183 (251)
T 3m19_A          115 GGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPA-----------GAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQT  183 (251)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-----------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCE
T ss_pred             CCCcCCCcChhHhccCCcccEEECcCCcCCccCH-----------HHcCcCcCCCEEECCCCcCCccCHHHHhCCCCCCE
Confidence            77777777765 4677777777777777654421           235666777777777776643     344556666


Q ss_pred             ccceeeeee
Q 038724          448 LTSRRLNLE  456 (483)
Q Consensus       448 l~l~~~~~~  456 (483)
                      |++++|.+.
T Consensus       184 L~l~~N~~~  192 (251)
T 3m19_A          184 ITLFGNQFD  192 (251)
T ss_dssp             EECCSCCBC
T ss_pred             EEeeCCcee
Confidence            666555443

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.68  E-value=2.2e-16  Score=157.70  Aligned_cols=172  Identities=21%  Similarity=0.173  Sum_probs=77.7

Q ss_pred             ccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccc
Q 038724          286 DVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS  363 (483)
Q Consensus       286 ~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~  363 (483)
                      .+.+..+..+++|+.|++++|.++.+++.  ..+++|++|+|++|.++.+++..|..+++|++|++++|++....+..+.
T Consensus        89 ~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~  168 (452)
T 3zyi_A           89 MIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFN  168 (452)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTT
T ss_pred             eECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCCCCcceeCHhHHh
Confidence            33334444455555555555555544332  3345555555555555555544445555555555555543322223344


Q ss_pred             cCcCCCEEeccCCC-CCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCc-----------cchhhHhhhccccccccce
Q 038724          364 KLVSLQHLDISFTS-TLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSD-----------DAESLLKEMLCLEQLNIIR  430 (483)
Q Consensus       364 ~l~~L~~L~l~~~~-i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~-----------~~~~~~~~l~~l~~L~~L~  430 (483)
                      .+++|++|++++|. +..+|.. +..+++|++|++++|.+...|.+..+.           .....+..+..+++|+.|+
T Consensus       169 ~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  248 (452)
T 3zyi_A          169 RVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLW  248 (452)
T ss_dssp             TCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTCTTCCEEECTTSCCSEECGGGGTTCTTCCEEE
T ss_pred             cCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccccccccccccEEECcCCcCcccCcccccCccCCCEEE
Confidence            44444444444422 4444432 444444444444444444333321111           1112234455555555555


Q ss_pred             eeccCccc-----cCCCCCcccccceeeeeee
Q 038724          431 LTSCSLCS-----LCGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       431 l~~~~l~~-----l~~l~~l~~l~l~~~~~~~  457 (483)
                      +++|.+..     +..+++|+.|++++|++..
T Consensus       249 L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~  280 (452)
T 3zyi_A          249 VMNSQVSLIERNAFDGLASLVELNLAHNNLSS  280 (452)
T ss_dssp             CTTSCCCEECTTTTTTCTTCCEEECCSSCCSC
T ss_pred             eCCCcCceECHHHhcCCCCCCEEECCCCcCCc
Confidence            55555422     3444555555555554443

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

Probab=99.68  E-value=2e-16  Score=157.38  Aligned_cols=154  Identities=22%  Similarity=0.259  Sum_probs=91.3

Q ss_pred             hhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS  360 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~  360 (483)
                      .+..+.+..+..+++|+.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|+.+..+|.
T Consensus        99 ~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~  178 (440)
T 3zyj_A           99 HIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISE  178 (440)
T ss_dssp             CCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECT
T ss_pred             cCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCc
Confidence            34444444555566666666666666666542  4566677777777766666666666667777777766544554443


Q ss_pred             -ccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhcccccc
Q 038724          361 -GISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQL  426 (483)
Q Consensus       361 -~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~L  426 (483)
                       .+..+++|++|++++|.+..+|. +..+++|+.|+|++|.+... |. +..+.           .....+..+..+++|
T Consensus       179 ~~~~~l~~L~~L~L~~n~l~~~~~-~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L  257 (440)
T 3zyj_A          179 GAFEGLSNLRYLNLAMCNLREIPN-LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSL  257 (440)
T ss_dssp             TTTTTCSSCCEEECTTSCCSSCCC-CTTCSSCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTC
T ss_pred             chhhcccccCeecCCCCcCccccc-cCCCcccCEEECCCCccCccChhhhccCccCCEEECCCCceeEEChhhhcCCCCC
Confidence             46667777777777777777763 66677777777777766655 33 22221           111223344555555


Q ss_pred             ccceeeccCcc
Q 038724          427 NIIRLTSCSLC  437 (483)
Q Consensus       427 ~~L~l~~~~l~  437 (483)
                      +.|++++|.+.
T Consensus       258 ~~L~L~~N~l~  268 (440)
T 3zyj_A          258 VEINLAHNNLT  268 (440)
T ss_dssp             CEEECTTSCCC
T ss_pred             CEEECCCCCCC
Confidence            55555555553

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.67  E-value=3.2e-16  Score=145.39  Aligned_cols=153  Identities=24%  Similarity=0.241  Sum_probs=105.2

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++++.|++++|.++.++....+++|++|++++|.++.+++..+..+++|++|++++|++.+..|..++.+++|++|
T Consensus        59 l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L  138 (272)
T 3rfs_A           59 IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYL  138 (272)
T ss_dssp             GGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             cccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEE
Confidence            34567778888888877776656677788888888888777777767777888888888887555555556777888888


Q ss_pred             eccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCc
Q 038724          372 DISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTV  445 (483)
Q Consensus       372 ~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l  445 (483)
                      ++++|.+..+|.. +..+++|+.|++++|.+...|.           ..+..+++|+.|++++|.+..     +..+++|
T Consensus       139 ~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~-----------~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L  207 (272)
T 3rfs_A          139 NLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPE-----------GVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSL  207 (272)
T ss_dssp             ECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-----------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTC
T ss_pred             ECCCCccCccCHHHhccCccCCEEECCCCCcCccCH-----------HHhcCCccCCEEECCCCcCCccCHHHHhCCcCC
Confidence            8888887777765 5677788888888887654421           224556666666666666533     3445556


Q ss_pred             ccccceeeee
Q 038724          446 QCLTSRRLNL  455 (483)
Q Consensus       446 ~~l~l~~~~~  455 (483)
                      +.|++++|.+
T Consensus       208 ~~L~l~~N~~  217 (272)
T 3rfs_A          208 QYIWLHDNPW  217 (272)
T ss_dssp             CEEECCSSCB
T ss_pred             CEEEccCCCc
Confidence            6665555543

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

Probab=99.67  E-value=1.4e-16  Score=140.27  Aligned_cols=149  Identities=15%  Similarity=0.169  Sum_probs=125.1

Q ss_pred             ccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..+++++.|++++|.++.++....+++|++|++++|.+..++  .+..+++|++|++++|.+....|..++.+++|++|+
T Consensus        41 ~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~~--~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~  118 (197)
T 4ezg_A           41 AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYN--PISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLD  118 (197)
T ss_dssp             HHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCG--GGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEE
T ss_pred             hhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCCCcch--hhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEE
Confidence            456789999999999998887778999999999999877665  388899999999999987777888999999999999


Q ss_pred             ccCCCCCc-cCccccCCcCCCEEecCCCC-CcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCccc
Q 038724          373 ISFTSTLE-LPEELKALEKLKYLDMDDHQ-QVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQC  447 (483)
Q Consensus       373 l~~~~i~~-lp~~~~~l~~L~~L~l~~n~-~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~  447 (483)
                      +++|.+.. .|..+..+++|++|++++|. +...             ..+..+++|+.|++++|.+..   +..+++|+.
T Consensus       119 Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~-------------~~l~~l~~L~~L~l~~n~i~~~~~l~~l~~L~~  185 (197)
T 4ezg_A          119 ISHSAHDDSILTKINTLPKVNSIDLSYNGAITDI-------------MPLKTLPELKSLNIQFDGVHDYRGIEDFPKLNQ  185 (197)
T ss_dssp             CCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCC-------------GGGGGCSSCCEEECTTBCCCCCTTGGGCSSCCE
T ss_pred             ecCCccCcHhHHHHhhCCCCCEEEccCCCCcccc-------------HhhcCCCCCCEEECCCCCCcChHHhccCCCCCE
Confidence            99999875 56679999999999999997 4322             257889999999999998754   466788888


Q ss_pred             ccceeeeee
Q 038724          448 LTSRRLNLE  456 (483)
Q Consensus       448 l~l~~~~~~  456 (483)
                      |++++|+++
T Consensus       186 L~l~~N~i~  194 (197)
T 4ezg_A          186 LYAFSQTIG  194 (197)
T ss_dssp             EEECBC---
T ss_pred             EEeeCcccC
Confidence            888887765

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.67  E-value=6.8e-16  Score=141.39  Aligned_cols=168  Identities=19%  Similarity=0.177  Sum_probs=137.9

Q ss_pred             ceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCC
Q 038724          297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT  376 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~  376 (483)
                      ..+.++++++.++.+|... .++++.|++++|.+..+++..|..+++|++|++++|.+.+..|..+..+++|++|++++|
T Consensus        15 ~~~~l~~~~~~l~~~p~~~-~~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n   93 (251)
T 3m19_A           15 GKKEVDCQGKSLDSVPSGI-PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANN   93 (251)
T ss_dssp             GGTEEECTTCCCSSCCSCC-CTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS
T ss_pred             CCeEEecCCCCccccCCCC-CCCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCC
Confidence            4567999999999888643 379999999999999999888999999999999999877777777999999999999999


Q ss_pred             CCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCcccccc
Q 038724          377 STLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCLTS  450 (483)
Q Consensus       377 ~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l~l  450 (483)
                      .+..+|.. +..+++|++|++++|.+..+|.           ..+..+++|+.|++++|.+..     +..+++|+.|++
T Consensus        94 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-----------~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  162 (251)
T 3m19_A           94 QLASLPLGVFDHLTQLDKLYLGGNQLKSLPS-----------GVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSL  162 (251)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-----------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cccccChhHhcccCCCCEEEcCCCcCCCcCh-----------hHhccCCcccEEECcCCcCCccCHHHcCcCcCCCEEEC
Confidence            99999865 7899999999999999775532           236789999999999998744     566789999999


Q ss_pred             eeeeeeeeecccccCccc-eeecCCcc
Q 038724          451 RRLNLEVEDWHKCTGEVH-KVLQSGGS  476 (483)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~-~~~~~~~~  476 (483)
                      ++|.+...+...+..... ..+++.++
T Consensus       163 ~~N~l~~~~~~~~~~l~~L~~L~l~~N  189 (251)
T 3m19_A          163 STNQLQSVPHGAFDRLGKLQTITLFGN  189 (251)
T ss_dssp             CSSCCSCCCTTTTTTCTTCCEEECCSC
T ss_pred             CCCcCCccCHHHHhCCCCCCEEEeeCC
Confidence            999888666544444333 44555443

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.65  E-value=6e-16  Score=144.79  Aligned_cols=145  Identities=25%  Similarity=0.266  Sum_probs=113.1

Q ss_pred             hhcccCccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCccc
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI  362 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~  362 (483)
                      .+....+..+..+++|+.|++++|.++.++....+++|++|++++|.+..++.. +..+++|++|++++|++....|..+
T Consensus        42 ~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~  120 (290)
T 1p9a_G           42 LLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLL-GQTLPALTVLDVSFNRLTSLPLGAL  120 (290)
T ss_dssp             CCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCC-TTTCTTCCEEECCSSCCCCCCSSTT
T ss_pred             cCCccCHHHhhcCCCCCEEECCCCccCcccCCCCCCcCCEEECCCCcCCcCchh-hccCCCCCEEECCCCcCcccCHHHH
Confidence            344444555667788888999999888887777888899999999988877664 6788889999999987655555678


Q ss_pred             ccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc
Q 038724          363 SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       363 ~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      ..+++|++|++++|.+..+|.. +..+++|+.|++++|++..+|.           ..+..+++|+.|++++|++..+
T Consensus       121 ~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~-----------~~~~~l~~L~~L~L~~N~l~~i  187 (290)
T 1p9a_G          121 RGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPA-----------GLLNGLENLDTLLLQENSLYTI  187 (290)
T ss_dssp             TTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCT-----------TTTTTCTTCCEEECCSSCCCCC
T ss_pred             cCCCCCCEEECCCCCCCccChhhcccccCCCEEECCCCcCCccCH-----------HHhcCcCCCCEEECCCCcCCcc
Confidence            8888999999999888888776 5788889999999988765532           2356788888888888887654

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

Probab=99.65  E-value=2.5e-16  Score=150.19  Aligned_cols=160  Identities=20%  Similarity=0.228  Sum_probs=128.9

Q ss_pred             ccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          295 WLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      ...++.|++++|.++.+++. ..+++|++|++++|.+..+|.. +..+++|++|++++|.+ ..+|..++.+++|++|++
T Consensus        80 ~~~l~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~n~l~~lp~~-~~~l~~L~~L~Ls~n~l-~~lp~~l~~l~~L~~L~L  157 (328)
T 4fcg_A           80 QPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDT-MQQFAGLETLTLARNPL-RALPASIASLNRLRELSI  157 (328)
T ss_dssp             STTCCEEEEESSCCSSCCSCGGGGTTCSEEEEESSCCCCCCSC-GGGGTTCSEEEEESCCC-CCCCGGGGGCTTCCEEEE
T ss_pred             ccceeEEEccCCCchhcChhhhhCCCCCEEECCCCCccchhHH-HhccCCCCEEECCCCcc-ccCcHHHhcCcCCCEEEC
Confidence            35688999999999988764 5689999999999999977655 78999999999999975 488999999999999999


Q ss_pred             cCCC-CCccCccccC---------CcCCCEEecCCCCCcCCCC-CCCCc----------cchhhHhhhccccccccceee
Q 038724          374 SFTS-TLELPEELKA---------LEKLKYLDMDDHQQVMEEG-NCQSD----------DAESLLKEMLCLEQLNIIRLT  432 (483)
Q Consensus       374 ~~~~-i~~lp~~~~~---------l~~L~~L~l~~n~~~~~p~-~~~l~----------~~~~~~~~l~~l~~L~~L~l~  432 (483)
                      ++|. ++.+|..+..         +++|++|++++|.+..+|. ++.++          .....+..+..+++|+.|+++
T Consensus       158 ~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l~~l~~L~~L~Ls  237 (328)
T 4fcg_A          158 RACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLR  237 (328)
T ss_dssp             EEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSCCCCCCGGGGGCTTCCEEECT
T ss_pred             CCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCCCCcCchhhccCCCCCEEECc
Confidence            9976 8889987764         9999999999999886665 43332          122345567778888888888


Q ss_pred             ccCc-----cccCCCCCcccccceeeeee
Q 038724          433 SCSL-----CSLCGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       433 ~~~l-----~~l~~l~~l~~l~l~~~~~~  456 (483)
                      +|.+     ..+..+++|+.|++++|++.
T Consensus       238 ~n~~~~~~p~~~~~l~~L~~L~L~~n~~~  266 (328)
T 4fcg_A          238 GCTALRNYPPIFGGRAPLKRLILKDCSNL  266 (328)
T ss_dssp             TCTTCCBCCCCTTCCCCCCEEECTTCTTC
T ss_pred             CCcchhhhHHHhcCCCCCCEEECCCCCch
Confidence            8765     23566778888888776554

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.65  E-value=5.6e-16  Score=138.79  Aligned_cols=135  Identities=20%  Similarity=0.193  Sum_probs=73.6

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      ..++.|++++|.++.+++.  ..+++|++|+|++|.+..+.+..|..+++|++|+|++|.+....+..+..+++|++|++
T Consensus        32 ~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L  111 (220)
T 2v9t_B           32 ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLL  111 (220)
T ss_dssp             TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEEC
Confidence            3455666666666555542  34556666666666666555555566666666666666433222223455666666666


Q ss_pred             cCCCCCccCc-cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCC
Q 038724          374 SFTSTLELPE-ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCG  441 (483)
Q Consensus       374 ~~~~i~~lp~-~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~  441 (483)
                      ++|.+..+++ .+..+++|++|+|++|.+..+|           +..+..+++|+.|++++|++.+-+.
T Consensus       112 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L~~L~L~~N~~~c~c~  169 (220)
T 2v9t_B          112 NANKINCLRVDAFQDLHNLNLLSLYDNKLQTIA-----------KGTFSPLRAIQTMHLAQNPFICDCH  169 (220)
T ss_dssp             CSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCC-----------TTTTTTCTTCCEEECCSSCEECSGG
T ss_pred             CCCCCCEeCHHHcCCCCCCCEEECCCCcCCEEC-----------HHHHhCCCCCCEEEeCCCCcCCCCc
Confidence            6666555533 3555666666666666544331           1224455566666666666554443

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.65  E-value=8.5e-16  Score=142.52  Aligned_cols=155  Identities=21%  Similarity=0.198  Sum_probs=133.0

Q ss_pred             ccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..+.+++.+++.+|.++.++....+++|++|++++|.+..++  .+..+++|++|++++|.+.+..|..++.+++|++|+
T Consensus        38 ~~l~~L~~L~l~~~~i~~~~~l~~l~~L~~L~l~~n~l~~~~--~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~  115 (272)
T 3rfs_A           38 NELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDIS--ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELV  115 (272)
T ss_dssp             HHHTTCCEEECTTSCCCCCTTGGGCTTCCEEECTTSCCCCCG--GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             ccccceeeeeeCCCCcccccccccCCCCcEEECCCCCCCCch--hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEE
Confidence            357789999999999998887788999999999999998875  388999999999999986666666689999999999


Q ss_pred             ccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCcc
Q 038724          373 ISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQ  446 (483)
Q Consensus       373 l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~  446 (483)
                      +++|.+..+|.. +..+++|++|++++|.+...|.           ..+..+++|+.|++++|.+..     +..+++|+
T Consensus       116 L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~-----------~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~  184 (272)
T 3rfs_A          116 LVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPK-----------GVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLK  184 (272)
T ss_dssp             CTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCT-----------TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCC
T ss_pred             CCCCcCCccCHHHhccCCCCCEEECCCCccCccCH-----------HHhccCccCCEEECCCCCcCccCHHHhcCCccCC
Confidence            999999998876 7899999999999998765422           346789999999999998754     46788999


Q ss_pred             cccceeeeeeeeec
Q 038724          447 CLTSRRLNLEVEDW  460 (483)
Q Consensus       447 ~l~l~~~~~~~~~~  460 (483)
                      .|++++|++....-
T Consensus       185 ~L~L~~N~l~~~~~  198 (272)
T 3rfs_A          185 DLRLYQNQLKSVPD  198 (272)
T ss_dssp             EEECCSSCCSCCCT
T ss_pred             EEECCCCcCCccCH
Confidence            99999998876543

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.65  E-value=1.4e-15  Score=142.21  Aligned_cols=166  Identities=21%  Similarity=0.203  Sum_probs=127.3

Q ss_pred             ccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCc-cCccCCcccccCcCCCEE
Q 038724          295 WLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNR-FLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~-~~~~~p~~~~~l~~L~~L  371 (483)
                      .++++.|++++|.++.+++.  ..+++|++|++++|.+..+.+..|..+++|++|++++|. +....|..+..+++|++|
T Consensus        31 ~~~l~~L~l~~n~i~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L  110 (285)
T 1ozn_A           31 PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTL  110 (285)
T ss_dssp             CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEE
T ss_pred             CCCceEEEeeCCcCCccCHHHcccCCCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEE
Confidence            45789999999999988763  678999999999999999988789999999999999997 444447889999999999


Q ss_pred             eccCCCCCccCc-cccCCcCCCEEecCCCCCcCCC-C-CCCCc-----------cchhhHhhhccccccccceeeccCcc
Q 038724          372 DISFTSTLELPE-ELKALEKLKYLDMDDHQQVMEE-G-NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCSLC  437 (483)
Q Consensus       372 ~l~~~~i~~lp~-~~~~l~~L~~L~l~~n~~~~~p-~-~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~l~  437 (483)
                      ++++|.+..+++ .+..+++|++|++++|.+...| . +..+.           .....+..+..+++|+.|++++|.+.
T Consensus       111 ~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~  190 (285)
T 1ozn_A          111 HLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVA  190 (285)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCC
T ss_pred             ECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCcccccCHHHhcCccccCEEECCCCccc
Confidence            999999888854 5889999999999999988773 2 33321           11111223566677777777777653


Q ss_pred             -----ccCCCCCcccccceeeeeeeeec
Q 038724          438 -----SLCGLPTVQCLTSRRLNLEVEDW  460 (483)
Q Consensus       438 -----~l~~l~~l~~l~l~~~~~~~~~~  460 (483)
                           .+..+++|+.|++++|++...+.
T Consensus       191 ~~~~~~~~~l~~L~~L~l~~n~l~~~~~  218 (285)
T 1ozn_A          191 HVHPHAFRDLGRLMTLYLFANNLSALPT  218 (285)
T ss_dssp             EECTTTTTTCTTCCEEECCSSCCSCCCH
T ss_pred             ccCHhHccCcccccEeeCCCCcCCcCCH
Confidence                 34556677777777766665443

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.64  E-value=1.1e-15  Score=137.72  Aligned_cols=134  Identities=25%  Similarity=0.281  Sum_probs=110.0

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      ++++.|++++|.++.+.+.  ..+++|++|+|++|.++.+++..|..+++|++|+|++|.+....+..+..+++|++|++
T Consensus        40 ~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~L  119 (229)
T 3e6j_A           40 TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFM  119 (229)
T ss_dssp             TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEec
Confidence            6788899999999888653  57889999999999998888887888999999999999755555555788999999999


Q ss_pred             cCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccC
Q 038724          374 SFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLC  440 (483)
Q Consensus       374 ~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~  440 (483)
                      ++|.+..+|..+..+++|++|++++|.+..+|.           ..+..+++|+.|++++|++.+-+
T Consensus       120 s~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~~~-----------~~~~~l~~L~~L~l~~N~~~c~c  175 (229)
T 3e6j_A          120 CCNKLTELPRGIERLTHLTHLALDQNQLKSIPH-----------GAFDRLSSLTHAYLFGNPWDCEC  175 (229)
T ss_dssp             CSSCCCSCCTTGGGCTTCSEEECCSSCCCCCCT-----------TTTTTCTTCCEEECTTSCBCTTB
T ss_pred             cCCcccccCcccccCCCCCEEECCCCcCCccCH-----------HHHhCCCCCCEEEeeCCCccCCc
Confidence            999998999888899999999999998765422           34677888999999999886543

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.64  E-value=6.4e-16  Score=143.75  Aligned_cols=167  Identities=20%  Similarity=0.219  Sum_probs=95.4

Q ss_pred             hcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc
Q 038724          284 LRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG  361 (483)
Q Consensus       284 l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~  361 (483)
                      +.+..+..+..+++++.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|.+....+..
T Consensus        40 l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  119 (276)
T 2z62_A           40 LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFP  119 (276)
T ss_dssp             CCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCC
T ss_pred             ccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCccccCchh
Confidence            3333333444555666666666666655542  44566666666666666665555666666666666666544433335


Q ss_pred             cccCcCCCEEeccCCCCCc--cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccc----cceeeccC
Q 038724          362 ISKLVSLQHLDISFTSTLE--LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLN----IIRLTSCS  435 (483)
Q Consensus       362 ~~~l~~L~~L~l~~~~i~~--lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~----~L~l~~~~  435 (483)
                      ++.+++|++|++++|.+..  +|..+..+++|++|++++|.+...           .+..+..+++|+    .|++++|.
T Consensus       120 ~~~l~~L~~L~l~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~-----------~~~~~~~l~~L~~l~l~L~ls~n~  188 (276)
T 2z62_A          120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI-----------YCTDLRVLHQMPLLNLSLDLSLNP  188 (276)
T ss_dssp             CTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEE-----------CGGGGHHHHTCTTCCEEEECCSSC
T ss_pred             cccCCCCCEEECcCCccceecCchhhccCCCCCEEECCCCCCCcC-----------CHHHhhhhhhccccceeeecCCCc
Confidence            6666666666666666554  455566666666666666664432           112333344444    67777777


Q ss_pred             cccc----CCCCCcccccceeeeeeeeecc
Q 038724          436 LCSL----CGLPTVQCLTSRRLNLEVEDWH  461 (483)
Q Consensus       436 l~~l----~~l~~l~~l~l~~~~~~~~~~~  461 (483)
                      +..+    ....+|+.|++++|.+...+..
T Consensus       189 l~~~~~~~~~~~~L~~L~L~~n~l~~~~~~  218 (276)
T 2z62_A          189 MNFIQPGAFKEIRLKELALDTNQLKSVPDG  218 (276)
T ss_dssp             CCEECTTSSCSCCEEEEECCSSCCSCCCTT
T ss_pred             ccccCccccCCCcccEEECCCCceeecCHh
Confidence            6443    2233677777777777655443

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.64  E-value=1e-15  Score=142.33  Aligned_cols=163  Identities=21%  Similarity=0.212  Sum_probs=91.8

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc-cC
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT-KL  358 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~-~~  358 (483)
                      +.+..+.+..+..+++|+.|++++|.++.+++.  ..+++|++|++++|.+..+++..+..+++|++|++++|.+.. .+
T Consensus        62 n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~l  141 (276)
T 2z62_A           62 CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKL  141 (276)
T ss_dssp             CCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEECCSSCCCCCCC
T ss_pred             CcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEECcCCccceecC
Confidence            334444444455566666666666666665532  456666666666666666655446666666666666665433 24


Q ss_pred             CcccccCcCCCEEeccCCCCCccCc-cccCCcCCC----EEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeec
Q 038724          359 PSGISKLVSLQHLDISFTSTLELPE-ELKALEKLK----YLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTS  433 (483)
Q Consensus       359 p~~~~~l~~L~~L~l~~~~i~~lp~-~~~~l~~L~----~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~  433 (483)
                      |..+..+++|++|++++|.+..+|. .+..+++|+    .|++++|.+..+|.            ......+|+.|++++
T Consensus       142 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~------------~~~~~~~L~~L~L~~  209 (276)
T 2z62_A          142 PEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQP------------GAFKEIRLKELALDT  209 (276)
T ss_dssp             CGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEECT------------TSSCSCCEEEEECCS
T ss_pred             chhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCCcccccCc------------cccCCCcccEEECCC
Confidence            6666666666666666666666553 244444444    66666666543311            111223566666666


Q ss_pred             cCccc-----cCCCCCcccccceeeeee
Q 038724          434 CSLCS-----LCGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       434 ~~l~~-----l~~l~~l~~l~l~~~~~~  456 (483)
                      |.+..     +..+++|+.|++++|.+.
T Consensus       210 n~l~~~~~~~~~~l~~L~~L~l~~N~~~  237 (276)
T 2z62_A          210 NQLKSVPDGIFDRLTSLQKIWLHTNPWD  237 (276)
T ss_dssp             SCCSCCCTTTTTTCCSCCEEECCSSCBC
T ss_pred             CceeecCHhHhcccccccEEEccCCccc
Confidence            66533     234555555555554443

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.63  E-value=7e-16  Score=146.11  Aligned_cols=175  Identities=17%  Similarity=0.168  Sum_probs=127.8

Q ss_pred             hhhcccCccccccccceEEEEccccccccccC--CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLN--TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP  359 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~--~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p  359 (483)
                      ..+.+.++..+..+++|++|++++|.+++..+  ...+++|++|++++|.+....+..+..+++|++|++++|.+.+.+|
T Consensus        87 n~l~~~~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           87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIP  166 (313)
T ss_dssp             TTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECC
T ss_pred             CcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCC
Confidence            44555667777788889999999998874433  2578889999999998886666668888899999999988777888


Q ss_pred             cccccCc-CCCEEeccCCCCC-ccCccccCCcCCCEEecCCCCCcCC-CC-CCCCc----------cchhhHhhhccccc
Q 038724          360 SGISKLV-SLQHLDISFTSTL-ELPEELKALEKLKYLDMDDHQQVME-EG-NCQSD----------DAESLLKEMLCLEQ  425 (483)
Q Consensus       360 ~~~~~l~-~L~~L~l~~~~i~-~lp~~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~----------~~~~~~~~l~~l~~  425 (483)
                      ..++.++ +|++|++++|.+. .+|..+..++ |+.|++++|.+... |. +..++          .....+..+..+++
T Consensus       167 ~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~l~~  245 (313)
T 1ogq_A          167 DSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKN  245 (313)
T ss_dssp             GGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTT
T ss_pred             HHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCceeeecCcccccCC
Confidence            8888887 8899999888865 6777777776 88888888887654 33 33221          01112233666778


Q ss_pred             cccceeeccCcc-----ccCCCCCcccccceeeeeee
Q 038724          426 LNIIRLTSCSLC-----SLCGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       426 L~~L~l~~~~l~-----~l~~l~~l~~l~l~~~~~~~  457 (483)
                      |+.|++++|.+.     .+..+++|+.|++++|.+..
T Consensus       246 L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~  282 (313)
T 1ogq_A          246 LNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCG  282 (313)
T ss_dssp             CCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEE
T ss_pred             CCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccc
Confidence            888888888764     35667778888887777763

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.63  E-value=1.9e-15  Score=141.28  Aligned_cols=152  Identities=24%  Similarity=0.234  Sum_probs=103.7

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      +.++.|++++|.++.+++.  ..+++|++|++++|.++.+++.  ..+++|++|++++|. +..+|..+..+++|++|++
T Consensus        31 ~~l~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~--~~l~~L~~L~Ls~N~-l~~l~~~~~~l~~L~~L~l  107 (290)
T 1p9a_G           31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVD--GTLPVLGTLDLSHNQ-LQSLPLLGQTLPALTVLDV  107 (290)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECC--SCCTTCCEEECCSSC-CSSCCCCTTTCTTCCEEEC
T ss_pred             CCCCEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCC--CCCCcCCEEECCCCc-CCcCchhhccCCCCCEEEC
Confidence            4566677777776665432  4566777777777776666552  566677777777775 4566666677777777777


Q ss_pred             cCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc-----CCCCCccc
Q 038724          374 SFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL-----CGLPTVQC  447 (483)
Q Consensus       374 ~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l-----~~l~~l~~  447 (483)
                      ++|.+..+|+. +..+++|+.|++++|++...|           +..+..+++|+.|++++|++..+     ..+++|+.
T Consensus       108 ~~N~l~~l~~~~~~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~  176 (290)
T 1p9a_G          108 SFNRLTSLPLGALRGLGELQELYLKGNELKTLP-----------PGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDT  176 (290)
T ss_dssp             CSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCC-----------TTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCE
T ss_pred             CCCcCcccCHHHHcCCCCCCEEECCCCCCCccC-----------hhhcccccCCCEEECCCCcCCccCHHHhcCcCCCCE
Confidence            77777766643 667777777777777655442           23366788999999999987553     55788888


Q ss_pred             ccceeeeeeeeecc
Q 038724          448 LTSRRLNLEVEDWH  461 (483)
Q Consensus       448 l~l~~~~~~~~~~~  461 (483)
                      |++++|.+...+..
T Consensus       177 L~L~~N~l~~ip~~  190 (290)
T 1p9a_G          177 LLLQENSLYTIPKG  190 (290)
T ss_dssp             EECCSSCCCCCCTT
T ss_pred             EECCCCcCCccChh
Confidence            88888888755443

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

Probab=99.62  E-value=2e-15  Score=150.13  Aligned_cols=180  Identities=22%  Similarity=0.222  Sum_probs=108.9

Q ss_pred             hhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS  360 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~  360 (483)
                      .+..+.+..+..+++|+.|++++|.++.+++.  ..+++|++|+|++|.++.+++..|..+++|++|++++|.+....+.
T Consensus        75 ~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~  154 (440)
T 3zyj_A           75 QIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSY  154 (440)
T ss_dssp             CCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSCCCCEECTT
T ss_pred             cCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCCcccccCHH
Confidence            33444444445555666666666666555432  3456666666666666666555556666666666666654433334


Q ss_pred             ccccCcCCCEEeccCCC-CCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcc-
Q 038724          361 GISKLVSLQHLDISFTS-TLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC-  437 (483)
Q Consensus       361 ~~~~l~~L~~L~l~~~~-i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~-  437 (483)
                      .+..+++|++|++++|. +..+|.. +..+++|++|++++|.+..+|             .+..+++|+.|++++|.+. 
T Consensus       155 ~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~-------------~~~~l~~L~~L~Ls~N~l~~  221 (440)
T 3zyj_A          155 AFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIP-------------NLTPLIKLDELDLSGNHLSA  221 (440)
T ss_dssp             TTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCC-------------CCTTCSSCCEEECTTSCCCE
T ss_pred             HhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCcccc-------------ccCCCcccCEEECCCCccCc
Confidence            55566666666666543 5555543 556666666666666644332             3667889999999999874 


Q ss_pred             ----ccCCCCCcccccceeeeeeeeecccccCccc-eeecCCc
Q 038724          438 ----SLCGLPTVQCLTSRRLNLEVEDWHKCTGEVH-KVLQSGG  475 (483)
Q Consensus       438 ----~l~~l~~l~~l~l~~~~~~~~~~~~~~~~~~-~~~~~~~  475 (483)
                          .+.++++|+.|++++|++.......+.++.. ..+++.+
T Consensus       222 ~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  264 (440)
T 3zyj_A          222 IRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAH  264 (440)
T ss_dssp             ECTTTTTTCTTCCEEECTTCCCCEECTTSSTTCTTCCEEECTT
T ss_pred             cChhhhccCccCCEEECCCCceeEEChhhhcCCCCCCEEECCC
Confidence                4577888999999888888765544444333 3444444

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.62  E-value=1.9e-15  Score=150.88  Aligned_cols=180  Identities=18%  Similarity=0.170  Sum_probs=135.2

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      ++++.|++++|.++.+++.  ..+++|++|+|++|.+..+++..|..+++|++|+|++|.+....+..+..+++|++|++
T Consensus        75 ~~l~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  154 (452)
T 3zyi_A           75 SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWL  154 (452)
T ss_dssp             TTCSEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEEC
T ss_pred             CCccEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEEC
Confidence            5789999999999988654  67999999999999999999888999999999999999865555566899999999999


Q ss_pred             cCCCCCccCcc-ccCCcCCCEEecCCCCCcCC-CC--CCCCc---------cchhhHhhhccccccccceeeccCcc---
Q 038724          374 SFTSTLELPEE-LKALEKLKYLDMDDHQQVME-EG--NCQSD---------DAESLLKEMLCLEQLNIIRLTSCSLC---  437 (483)
Q Consensus       374 ~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~-p~--~~~l~---------~~~~~~~~l~~l~~L~~L~l~~~~l~---  437 (483)
                      ++|.+..+|.. +..+++|+.|++++|..... |.  +..+.         ........+..+++|+.|++++|.+.   
T Consensus       155 ~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~  234 (452)
T 3zyi_A          155 RNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIR  234 (452)
T ss_dssp             CSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSCCSSCCCCTTCTTCCEEECTTSCCSEEC
T ss_pred             CCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCcccccccccccccccEEECcCCcCcccC
Confidence            99999999874 88999999999999654443 32  32221         11111234666777888888888763   


Q ss_pred             --ccCCCCCcccccceeeeeeeeecccccCccc-eeecCCc
Q 038724          438 --SLCGLPTVQCLTSRRLNLEVEDWHKCTGEVH-KVLQSGG  475 (483)
Q Consensus       438 --~l~~l~~l~~l~l~~~~~~~~~~~~~~~~~~-~~~~~~~  475 (483)
                        .+..+++|+.|++++|.+.......+.++.. ..+++.+
T Consensus       235 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  275 (452)
T 3zyi_A          235 PGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAH  275 (452)
T ss_dssp             GGGGTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             cccccCccCCCEEEeCCCcCceECHHHhcCCCCCCEEECCC
Confidence              3567778888888887777655444444333 3444444

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.62  E-value=2.1e-15  Score=133.92  Aligned_cols=149  Identities=26%  Similarity=0.298  Sum_probs=124.8

Q ss_pred             ccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          295 WLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      .++++.|++++|.++.+++.  ..+++|++|++++|.++.+++..|..+++|++|++++|.+....+..+..+++|++|+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~  106 (208)
T 2o6s_A           27 PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELA  106 (208)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEE
Confidence            35789999999999988764  5789999999999999999888889999999999999976555555578999999999


Q ss_pred             ccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCCCCCcccccce
Q 038724          373 ISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLPTVQCLTSR  451 (483)
Q Consensus       373 l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~l~~l~~l~l~  451 (483)
                      +++|.+..+|.. +..+++|++|++++|.+...|.           ..+..+++|+.|++++|++.  ..++.++.|++.
T Consensus       107 L~~N~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~-----------~~~~~l~~L~~L~l~~N~~~--~~~~~l~~L~~~  173 (208)
T 2o6s_A          107 LNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPD-----------GVFDRLTSLQYIWLHDNPWD--CTCPGIRYLSEW  173 (208)
T ss_dssp             CCSSCCCCCCTTTTTTCTTCCEEECCSSCCSCCCT-----------TTTTTCTTCCEEECCSCCBC--CCTTTTHHHHHH
T ss_pred             cCCCcCcccCHhHhccCCcCCEEECCCCccceeCH-----------HHhccCCCccEEEecCCCee--cCCCCHHHHHHH
Confidence            999999998876 7889999999999998765422           23677899999999999864  456788888887


Q ss_pred             eeeee
Q 038724          452 RLNLE  456 (483)
Q Consensus       452 ~~~~~  456 (483)
                      .+++.
T Consensus       174 ~n~~~  178 (208)
T 2o6s_A          174 INKHS  178 (208)
T ss_dssp             HHHCT
T ss_pred             HHhCC
Confidence            77665

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.61  E-value=2.6e-15  Score=134.40  Aligned_cols=134  Identities=20%  Similarity=0.227  Sum_probs=85.6

Q ss_pred             ceEEEEccccccccccCC---CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          297 GLRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~---~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .++.|++++|.++.+++.   ..+++|++|++++|.++.+++..|..+++|++|+|++|.+.+..|..+..+++|++|++
T Consensus        33 ~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  112 (220)
T 2v70_A           33 YTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLML  112 (220)
T ss_dssp             TCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEEC
T ss_pred             CCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEEC
Confidence            345677777777666432   35667777777777777666666667777777777777654444455666777777777


Q ss_pred             cCCCCCcc-CccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCC
Q 038724          374 SFTSTLEL-PEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCG  441 (483)
Q Consensus       374 ~~~~i~~l-p~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~  441 (483)
                      ++|.+..+ |..+..+++|++|+|++|.+...           .+..+..+++|+.|++++|++.+-+.
T Consensus       113 s~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~-----------~~~~~~~l~~L~~L~L~~N~l~c~c~  170 (220)
T 2v70_A          113 RSNRITCVGNDSFIGLSSVRLLSLYDNQITTV-----------APGAFDTLHSLSTLNLLANPFNCNCY  170 (220)
T ss_dssp             TTSCCCCBCTTSSTTCTTCSEEECTTSCCCCB-----------CTTTTTTCTTCCEEECCSCCEECSGG
T ss_pred             CCCcCCeECHhHcCCCccCCEEECCCCcCCEE-----------CHHHhcCCCCCCEEEecCcCCcCCCc
Confidence            77776666 34466677777777777765433           12345566677777777777655443

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.61  E-value=5.4e-15  Score=136.18  Aligned_cols=152  Identities=19%  Similarity=0.225  Sum_probs=128.2

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      ...+++++.|++++|.++.++....+++|++|++++|.++.+++  +..+++|++|++++|+ +..+|. +.. ++|++|
T Consensus        37 ~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i~~~~~--l~~l~~L~~L~L~~N~-l~~l~~-~~~-~~L~~L  111 (263)
T 1xeu_A           37 QKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP--LKDLTKLEELSVNRNR-LKNLNG-IPS-ACLSRL  111 (263)
T ss_dssp             HHHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCSSCCEEECCSSC-CSCCTT-CCC-SSCCEE
T ss_pred             hhhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCccCCChh--hccCCCCCEEECCCCc-cCCcCc-ccc-CcccEE
Confidence            45678899999999999998876789999999999999999887  8899999999999997 455664 333 899999


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccc
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCL  448 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l  448 (483)
                      ++++|.+..+| .+..+++|+.|++++|++...             ..+..+++|+.|++++|.+..   +..+++|+.|
T Consensus       112 ~L~~N~l~~~~-~l~~l~~L~~L~Ls~N~i~~~-------------~~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L  177 (263)
T 1xeu_A          112 FLDNNELRDTD-SLIHLKNLEILSIRNNKLKSI-------------VMLGFLSKLEVLDLHGNEITNTGGLTRLKKVNWI  177 (263)
T ss_dssp             ECCSSCCSBSG-GGTTCTTCCEEECTTSCCCBC-------------GGGGGCTTCCEEECTTSCCCBCTTSTTCCCCCEE
T ss_pred             EccCCccCCCh-hhcCcccccEEECCCCcCCCC-------------hHHccCCCCCEEECCCCcCcchHHhccCCCCCEE
Confidence            99999999986 589999999999999996532             257889999999999998754   5667888899


Q ss_pred             cceeeeeeeeeccc
Q 038724          449 TSRRLNLEVEDWHK  462 (483)
Q Consensus       449 ~l~~~~~~~~~~~~  462 (483)
                      ++++|.+...+...
T Consensus       178 ~l~~N~~~~~~~~~  191 (263)
T 1xeu_A          178 DLTGQKCVNEPVKY  191 (263)
T ss_dssp             EEEEEEEECCCEEC
T ss_pred             eCCCCcccCCcccc
Confidence            99988887654443

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.61  E-value=3.1e-15  Score=134.83  Aligned_cols=146  Identities=19%  Similarity=0.147  Sum_probs=121.0

Q ss_pred             eEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       298 l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      .+.++.+++.++.+|.. ..++|++|++++|.+..+++..|..+++|++|+|++|.+....+..+..+++|++|++++|.
T Consensus        21 ~~~v~c~~~~l~~ip~~-~~~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~   99 (229)
T 3e6j_A           21 GTTVDCRSKRHASVPAG-IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQ   99 (229)
T ss_dssp             TTEEECTTSCCSSCCSC-CCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEeEccCCCcCccCCC-CCCCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCc
Confidence            34688899999888764 34899999999999999988889999999999999998544444567899999999999999


Q ss_pred             CCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCcccccce
Q 038724          378 TLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCLTSR  451 (483)
Q Consensus       378 i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l~l~  451 (483)
                      +..+|.. +..+++|+.|++++|.+..+            +..+..+++|+.|++++|.+..     +..+++|+.|+++
T Consensus       100 l~~l~~~~~~~l~~L~~L~Ls~N~l~~l------------p~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~  167 (229)
T 3e6j_A          100 LTVLPSAVFDRLVHLKELFMCCNKLTEL------------PRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLF  167 (229)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCCCSC------------CTTGGGCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECT
T ss_pred             CCccChhHhCcchhhCeEeccCCccccc------------CcccccCCCCCEEECCCCcCCccCHHHHhCCCCCCEEEee
Confidence            9999876 68999999999999997643            4457889999999999998855     4556777777776


Q ss_pred             eeeee
Q 038724          452 RLNLE  456 (483)
Q Consensus       452 ~~~~~  456 (483)
                      .|.+.
T Consensus       168 ~N~~~  172 (229)
T 3e6j_A          168 GNPWD  172 (229)
T ss_dssp             TSCBC
T ss_pred             CCCcc
Confidence            65543

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.61  E-value=2e-15  Score=135.24  Aligned_cols=146  Identities=15%  Similarity=0.205  Sum_probs=121.2

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCcccccc-chhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIK-NGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~-~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      +.+++++|.++.+|.. ....++.|++++|.++.++ ...|..+++|++|++++|++.+..|..+..+++|++|++++|.
T Consensus        14 ~~l~~s~n~l~~iP~~-~~~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~   92 (220)
T 2v70_A           14 TTVDCSNQKLNKIPEH-IPQYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNR   92 (220)
T ss_dssp             TEEECCSSCCSSCCSC-CCTTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CEeEeCCCCcccCccC-CCCCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCc
Confidence            3789999999988753 3457899999999999884 4568899999999999998766666789999999999999999


Q ss_pred             CCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCcccccce
Q 038724          378 TLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCLTSR  451 (483)
Q Consensus       378 i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l~l~  451 (483)
                      +..+|.. +..+++|+.|+|++|.+..+           .+..+..+++|+.|++++|.+..     +..+++|+.|+++
T Consensus        93 l~~~~~~~~~~l~~L~~L~Ls~N~l~~~-----------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~  161 (220)
T 2v70_A           93 LENVQHKMFKGLESLKTLMLRSNRITCV-----------GNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNLL  161 (220)
T ss_dssp             CCCCCGGGGTTCSSCCEEECTTSCCCCB-----------CTTSSTTCTTCSEEECTTSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             cCccCHhHhcCCcCCCEEECCCCcCCeE-----------CHhHcCCCccCCEEECCCCcCCEECHHHhcCCCCCCEEEec
Confidence            9998876 88999999999999997654           23457788999999999998754     4567788888877


Q ss_pred             eeeee
Q 038724          452 RLNLE  456 (483)
Q Consensus       452 ~~~~~  456 (483)
                      +|.+.
T Consensus       162 ~N~l~  166 (220)
T 2v70_A          162 ANPFN  166 (220)
T ss_dssp             SCCEE
T ss_pred             CcCCc
Confidence            77665

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.61  E-value=2.7e-15  Score=134.37  Aligned_cols=146  Identities=18%  Similarity=0.210  Sum_probs=124.1

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      +.++.+++.++.+|... .++++.|++++|.++.+++..|..+++|++|+|++|.+....|..+..+++|++|++++|.+
T Consensus        14 ~~v~c~~~~l~~iP~~l-~~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l   92 (220)
T 2v9t_B           14 NIVDCRGKGLTEIPTNL-PETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKI   92 (220)
T ss_dssp             TEEECTTSCCSSCCSSC-CTTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCcCcCCCcc-CcCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcC
Confidence            45788899998887642 37999999999999999988899999999999999987777789999999999999999999


Q ss_pred             CccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCccccccee
Q 038724          379 LELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCLTSRR  452 (483)
Q Consensus       379 ~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l~l~~  452 (483)
                      ..+|.. +..+++|+.|+|++|.+..+           .+..+..+++|+.|++++|.+..     +..+++|+.|++++
T Consensus        93 ~~l~~~~f~~l~~L~~L~L~~N~l~~~-----------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~  161 (220)
T 2v9t_B           93 TELPKSLFEGLFSLQLLLLNANKINCL-----------RVDAFQDLHNLNLLSLYDNKLQTIAKGTFSPLRAIQTMHLAQ  161 (220)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCC-----------CTTTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             CccCHhHccCCCCCCEEECCCCCCCEe-----------CHHHcCCCCCCCEEECCCCcCCEECHHHHhCCCCCCEEEeCC
Confidence            999987 68899999999999997654           23457889999999999999854     45567777777766


Q ss_pred             eeee
Q 038724          453 LNLE  456 (483)
Q Consensus       453 ~~~~  456 (483)
                      |.+.
T Consensus       162 N~~~  165 (220)
T 2v9t_B          162 NPFI  165 (220)
T ss_dssp             SCEE
T ss_pred             CCcC
Confidence            6553

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.61  E-value=5.5e-15  Score=139.54  Aligned_cols=153  Identities=20%  Similarity=0.247  Sum_probs=95.9

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++|+.|++++|.++.++....+++|++|++++|.++.+++  +..+++|++|++++|.+ ..+|. +..+++|++|
T Consensus        81 ~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l-~~~~~-l~~l~~L~~L  156 (308)
T 1h6u_A           81 LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVTP--LAGLSNLQVLYLDLNQI-TNISP-LAGLTNLQYL  156 (308)
T ss_dssp             GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEECTTSCCCCCGG--GTTCTTCCEEECCSSCC-CCCGG-GGGCTTCCEE
T ss_pred             HccCCCCCEEEccCCcCCCchhhcCCCCCCEEECCCCCCCCchh--hcCCCCCCEEECCCCcc-CcCcc-ccCCCCccEE
Confidence            34455566666666666555544555666666666666555543  55566666666666643 33332 5556666666


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccc
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCL  448 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l  448 (483)
                      ++++|.+..+|. +..+++|+.|++++|.+...             ..+..+++|+.|++++|.+..   +..+++|+.|
T Consensus       157 ~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~-------------~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L  222 (308)
T 1h6u_A          157 SIGNAQVSDLTP-LANLSKLTTLKADDNKISDI-------------SPLASLPNLIEVHLKNNQISDVSPLANTSNLFIV  222 (308)
T ss_dssp             ECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCC-------------GGGGGCTTCCEEECTTSCCCBCGGGTTCTTCCEE
T ss_pred             EccCCcCCCChh-hcCCCCCCEEECCCCccCcC-------------hhhcCCCCCCEEEccCCccCccccccCCCCCCEE
Confidence            666666655554 55666666666666654322             127788999999999998754   5778889999


Q ss_pred             cceeeeeeeeeccc
Q 038724          449 TSRRLNLEVEDWHK  462 (483)
Q Consensus       449 ~l~~~~~~~~~~~~  462 (483)
                      ++++|.+...+...
T Consensus       223 ~l~~N~i~~~~~~~  236 (308)
T 1h6u_A          223 TLTNQTITNQPVFY  236 (308)
T ss_dssp             EEEEEEEECCCEEC
T ss_pred             EccCCeeecCCeee
Confidence            99988887654433

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.61  E-value=1.4e-15  Score=143.67  Aligned_cols=154  Identities=21%  Similarity=0.317  Sum_probs=106.7

Q ss_pred             cccccceEEEEccccccccccC---CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc-cCCcccccCcC
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLN---TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT-KLPSGISKLVS  367 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~---~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~-~~p~~~~~l~~  367 (483)
                      +..+++|+.|++++|.++.++.   ...+++|++|++++|.+....+..+..+++|++|++++|.+.+ ..|..+..+++
T Consensus        97 ~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~  176 (306)
T 2z66_A           97 FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRN  176 (306)
T ss_dssp             EETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTCEEGGGEECSCCTTCTT
T ss_pred             cCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCCccccccchhHHhhCcC
Confidence            4456677777777777776654   2456777777777777776666667777777777777776544 46667777777


Q ss_pred             CCEEeccCCCCCcc-CccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCC
Q 038724          368 LQHLDISFTSTLEL-PEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCG  441 (483)
Q Consensus       368 L~~L~l~~~~i~~l-p~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~  441 (483)
                      |++|++++|.+..+ |..+..+++|+.|++++|.+...|           +..+..+++|+.|++++|++..     +..
T Consensus       177 L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~-----------~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~  245 (306)
T 2z66_A          177 LTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLD-----------TFPYKCLNSLQVLDYSLNHIMTSKKQELQH  245 (306)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCSBCC-----------SGGGTTCTTCCEEECTTSCCCBCSSSSCCC
T ss_pred             CCEEECCCCCcCCcCHHHhcCCCCCCEEECCCCccCccC-----------hhhccCcccCCEeECCCCCCcccCHHHHHh
Confidence            77777777777666 345677777777777777755432           1246678888888888888743     445


Q ss_pred             CC-Ccccccceeeeee
Q 038724          442 LP-TVQCLTSRRLNLE  456 (483)
Q Consensus       442 l~-~l~~l~l~~~~~~  456 (483)
                      ++ +|+.|++++|.+.
T Consensus       246 ~~~~L~~L~L~~N~~~  261 (306)
T 2z66_A          246 FPSSLAFLNLTQNDFA  261 (306)
T ss_dssp             CCTTCCEEECTTCCEE
T ss_pred             hhccCCEEEccCCCee
Confidence            53 6777777776665

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.61  E-value=5.4e-15  Score=139.63  Aligned_cols=149  Identities=19%  Similarity=0.278  Sum_probs=95.7

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++|+.|++++|.++.+++...+++|++|++++|.++.++.  +..+++|++|++++|.+ ..+| .+..+++|++|
T Consensus        59 ~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~L~~n~l~~~~~--~~~l~~L~~L~l~~n~l-~~~~-~l~~l~~L~~L  134 (308)
T 1h6u_A           59 VQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSA--IAGLQSIKTLDLTSTQI-TDVT-PLAGLSNLQVL  134 (308)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCGG--GTTCTTCCEEECTTSCC-CCCG-GGTTCTTCCEE
T ss_pred             hhccCCCCEEEccCCcCCCChhHccCCCCCEEEccCCcCCCchh--hcCCCCCCEEECCCCCC-CCch-hhcCCCCCCEE
Confidence            34455666666666666666555556666666666666665542  55666666666666653 3343 26666666666


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccc
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCL  448 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l  448 (483)
                      ++++|.+..+|. +..+++|++|++++|.+...             ..+..+++|+.|++++|.+..   +..+++|+.|
T Consensus       135 ~l~~n~l~~~~~-l~~l~~L~~L~l~~n~l~~~-------------~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L  200 (308)
T 1h6u_A          135 YLDLNQITNISP-LAGLTNLQYLSIGNAQVSDL-------------TPLANLSKLTTLKADDNKISDISPLASLPNLIEV  200 (308)
T ss_dssp             ECCSSCCCCCGG-GGGCTTCCEEECCSSCCCCC-------------GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEE
T ss_pred             ECCCCccCcCcc-ccCCCCccEEEccCCcCCCC-------------hhhcCCCCCCEEECCCCccCcChhhcCCCCCCEE
Confidence            666666666654 56666666666666654322             126778888899998887754   4567788888


Q ss_pred             cceeeeeeee
Q 038724          449 TSRRLNLEVE  458 (483)
Q Consensus       449 ~l~~~~~~~~  458 (483)
                      ++++|.+...
T Consensus       201 ~L~~N~l~~~  210 (308)
T 1h6u_A          201 HLKNNQISDV  210 (308)
T ss_dssp             ECTTSCCCBC
T ss_pred             EccCCccCcc
Confidence            8888877654

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.60  E-value=2e-15  Score=145.60  Aligned_cols=120  Identities=25%  Similarity=0.307  Sum_probs=74.5

Q ss_pred             hcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc-
Q 038724          284 LRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS-  360 (483)
Q Consensus       284 l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~-  360 (483)
                      +.++....+..+++|+.|++++|.++.+++.  ..+++|++|++++|.++.+++..+..+++|++|++++|+ +..+|. 
T Consensus        64 i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~~  142 (353)
T 2z80_A           64 ITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNP-YKTLGET  142 (353)
T ss_dssp             CCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTTCC-CSSSCSS
T ss_pred             CcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCCCC-CcccCch
Confidence            3344444455566677777777766666442  456667777777777666666656666777777777765 334443 


Q ss_pred             -ccccCcCCCEEeccCCC-CCccCc-cccCCcCCCEEecCCCCCcCC
Q 038724          361 -GISKLVSLQHLDISFTS-TLELPE-ELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       361 -~~~~l~~L~~L~l~~~~-i~~lp~-~~~~l~~L~~L~l~~n~~~~~  404 (483)
                       .+..+++|++|++++|. +..++. .+..+++|+.|++++|.+...
T Consensus       143 ~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~  189 (353)
T 2z80_A          143 SLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSY  189 (353)
T ss_dssp             CSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEE
T ss_pred             hhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCcc
Confidence             56666777777777663 555543 366666666666666665554

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

Probab=99.60  E-value=5.1e-15  Score=157.50  Aligned_cols=121  Identities=26%  Similarity=0.251  Sum_probs=77.7

Q ss_pred             hcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc
Q 038724          284 LRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG  361 (483)
Q Consensus       284 l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~  361 (483)
                      +.+..+..+..+++|+.|++++|.+++..+.  ..+++|++|++++|.+.+..+..+..+++|++|++++|++.+.+|..
T Consensus       430 l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~  509 (768)
T 3rgz_A          430 LSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKW  509 (768)
T ss_dssp             EESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGG
T ss_pred             ccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChH
Confidence            3334444444555555666666555533222  34666777777777766555555677777777777777766677777


Q ss_pred             cccCcCCCEEeccCCCCC-ccCccccCCcCCCEEecCCCCCcCC
Q 038724          362 ISKLVSLQHLDISFTSTL-ELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       362 ~~~l~~L~~L~l~~~~i~-~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      ++.+++|++|++++|.+. .+|..++.+++|+.|++++|.+...
T Consensus       510 ~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~  553 (768)
T 3rgz_A          510 IGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT  553 (768)
T ss_dssp             GGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESB
T ss_pred             HhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCc
Confidence            777777777777777754 6666677777777777777766533

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

Probab=99.60  E-value=3.8e-15  Score=158.47  Aligned_cols=176  Identities=21%  Similarity=0.228  Sum_probs=124.4

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP  359 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p  359 (483)
                      +.+.+..+..+..+++|+.|++++|.+++..+.  ..+++|++|++++|.+.+..|..+..+++|++|++++|++.+.+|
T Consensus       452 n~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p  531 (768)
T 3rgz_A          452 NMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIP  531 (768)
T ss_dssp             SCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECC
T ss_pred             CcccCcCCHHHcCCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCC
Confidence            444555666666777788888888887754432  467778888888887776666667777788888888887777777


Q ss_pred             cccccCcCCCEEeccCCCC-CccCcc------------------------------------------------------
Q 038724          360 SGISKLVSLQHLDISFTST-LELPEE------------------------------------------------------  384 (483)
Q Consensus       360 ~~~~~l~~L~~L~l~~~~i-~~lp~~------------------------------------------------------  384 (483)
                      ..++.+++|++|++++|.+ +.+|..                                                      
T Consensus       532 ~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  611 (768)
T 3rgz_A          532 AELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRN  611 (768)
T ss_dssp             GGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTTCSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTC
T ss_pred             HHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhccccccccccccccccccccccccccccccccchhhhcccccc
Confidence            7777777777777777763 344432                                                      


Q ss_pred             ----------------ccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccccccceeeccC
Q 038724          385 ----------------LKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCS  435 (483)
Q Consensus       385 ----------------~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~  435 (483)
                                      +..+++|+.|++++|++... |. ++.++           ....+|..++.+++|+.|++++|+
T Consensus       612 ~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l~g~ip~~l~~l~~L~~L~Ls~N~l~g~ip~~l~~L~~L~~LdLs~N~  691 (768)
T 3rgz_A          612 PCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNK  691 (768)
T ss_dssp             CSCTTSCEEEEECCCSCSSSBCCCEEECCSSCCBSCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSC
T ss_pred             ccccccceecccCchhhhccccccEEECcCCcccccCCHHHhccccCCEEeCcCCccCCCCChHHhCCCCCCEEECCCCc
Confidence                            23346677777777777655 54 43332           334677788889999999999998


Q ss_pred             cc-----ccCCCCCcccccceeeeeee
Q 038724          436 LC-----SLCGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       436 l~-----~l~~l~~l~~l~l~~~~~~~  457 (483)
                      +.     .+..++.|+.|++++|+++.
T Consensus       692 l~g~ip~~l~~l~~L~~L~ls~N~l~g  718 (768)
T 3rgz_A          692 LDGRIPQAMSALTMLTEIDLSNNNLSG  718 (768)
T ss_dssp             CEECCCGGGGGCCCCSEEECCSSEEEE
T ss_pred             ccCcCChHHhCCCCCCEEECcCCcccc
Confidence            74     46778888899998888864

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.60  E-value=2.5e-15  Score=155.30  Aligned_cols=102  Identities=21%  Similarity=0.223  Sum_probs=69.3

Q ss_pred             hhhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccC
Q 038724          281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKL  358 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~  358 (483)
                      .+.+.++.+..+..+++|+.|++++|.++.+++.  ..+++|++|+|++|.+..+++..|..+++|++|++++|.+.+..
T Consensus        84 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~  163 (597)
T 3oja_B           84 DLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIE  163 (597)
T ss_dssp             TSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCC
T ss_pred             CCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCC
Confidence            3445555555566667777777777777776653  45677777777777777777766677777777777777665656


Q ss_pred             CcccccCcCCCEEeccCCCCCccC
Q 038724          359 PSGISKLVSLQHLDISFTSTLELP  382 (483)
Q Consensus       359 p~~~~~l~~L~~L~l~~~~i~~lp  382 (483)
                      |..++.+++|++|++++|.+..+|
T Consensus       164 ~~~~~~l~~L~~L~L~~N~l~~~~  187 (597)
T 3oja_B          164 DDTFQATTSLQNLQLSSNRLTHVD  187 (597)
T ss_dssp             TTTTTTCTTCCEEECTTSCCSBCC
T ss_pred             hhhhhcCCcCcEEECcCCCCCCcC
Confidence            666777777777777777665554

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.60  E-value=9.7e-15  Score=136.63  Aligned_cols=154  Identities=20%  Similarity=0.269  Sum_probs=117.8

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++++.|++++|.++.+++...+++|++|++++|.+..++.  +..+++|++|++++|.+ ..+ +.+..+++|++|
T Consensus        64 ~~~l~~L~~L~L~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~L~~n~i-~~~-~~l~~l~~L~~L  139 (291)
T 1h6t_A           64 IQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEHNGI-SDI-NGLVHLPQLESL  139 (291)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTTSCC-CCC-GGGGGCTTCCEE
T ss_pred             HhcCCCCCEEEccCCccCCCcccccCCCCCEEECCCCcCCCChh--hccCCCCCEEECCCCcC-CCC-hhhcCCCCCCEE
Confidence            44567788888888888877776778888888888888877654  77788888888888864 334 367788888888


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccc
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCL  448 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l  448 (483)
                      ++++|.+..+ ..+..+++|++|++++|.+...            + .+..+++|+.|++++|.+..   +..+++|+.|
T Consensus       140 ~l~~n~l~~~-~~l~~l~~L~~L~L~~N~l~~~------------~-~l~~l~~L~~L~L~~N~i~~l~~l~~l~~L~~L  205 (291)
T 1h6t_A          140 YLGNNKITDI-TVLSRLTKLDTLSLEDNQISDI------------V-PLAGLTKLQNLYLSKNHISDLRALAGLKNLDVL  205 (291)
T ss_dssp             ECCSSCCCCC-GGGGGCTTCSEEECCSSCCCCC------------G-GGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEE
T ss_pred             EccCCcCCcc-hhhccCCCCCEEEccCCccccc------------h-hhcCCCccCEEECCCCcCCCChhhccCCCCCEE
Confidence            8888888777 4578888888888888875432            1 17788999999999998744   5778888999


Q ss_pred             cceeeeeeeeecccc
Q 038724          449 TSRRLNLEVEDWHKC  463 (483)
Q Consensus       449 ~l~~~~~~~~~~~~~  463 (483)
                      ++++|.+...+...+
T Consensus       206 ~l~~n~i~~~~~~~~  220 (291)
T 1h6t_A          206 ELFSQECLNKPINHQ  220 (291)
T ss_dssp             EEEEEEEECCCEECC
T ss_pred             ECcCCcccCCccccc
Confidence            998888876555443

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.59  E-value=5.5e-15  Score=148.69  Aligned_cols=178  Identities=20%  Similarity=0.163  Sum_probs=111.9

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP  359 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p  359 (483)
                      ..+.++.+..+..+++|+.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|.+....|
T Consensus        66 n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~  145 (477)
T 2id5_A           66 NIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISH  145 (477)
T ss_dssp             SCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECCTTCCEECT
T ss_pred             CccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCCCccceeCh
Confidence            344555555566677777777777777766653  456777777777777777666667777777777777776655556


Q ss_pred             cccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCC-CC-CCCCc-------------------------
Q 038724          360 SGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVME-EG-NCQSD-------------------------  411 (483)
Q Consensus       360 ~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-------------------------  411 (483)
                      ..+..+++|++|++++|.+..+|.. +..+++|+.|++++|.+... +. +..+.                         
T Consensus       146 ~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~  225 (477)
T 2id5_A          146 RAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLN  225 (477)
T ss_dssp             TSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCCCCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTTTCC
T ss_pred             hhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCcCcEeChhhcccCcccceeeCCCCccccccCcccccCcc
Confidence            6677777777777777777766654 66666677777666665544 21 22111                         


Q ss_pred             ----------cchhhHhhhccccccccceeeccCccc-----cCCCCCcccccceeeeeeeee
Q 038724          412 ----------DAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCLTSRRLNLEVED  459 (483)
Q Consensus       412 ----------~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l~l~~~~~~~~~  459 (483)
                                ........+..+++|+.|++++|.+..     +..+++|+.|++++|++....
T Consensus       226 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~  288 (477)
T 2id5_A          226 LTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVE  288 (477)
T ss_dssp             CSEEEEESSCCCSCCHHHHTTCTTCCEEECCSSCCCEECTTSCTTCTTCCEEECCSSCCSEEC
T ss_pred             ccEEECcCCcccccCHHHhcCccccCeeECCCCcCCccChhhccccccCCEEECCCCccceEC
Confidence                      001111245566677777777766532     455666777777766666543

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.59  E-value=8.3e-15  Score=139.93  Aligned_cols=181  Identities=17%  Similarity=0.174  Sum_probs=133.4

Q ss_pred             hhhhcccCccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc--cC
Q 038724          281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT--KL  358 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~--~~  358 (483)
                      .+.+....+..+..+++|+.|++++|.++.++... .++|++|++++|.+..+++..+..+++|++|++++|.+..  ..
T Consensus        85 ~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~-~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  163 (330)
T 1xku_A           85 NNKISKISPGAFAPLVKLERLYLSKNQLKELPEKM-PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIE  163 (330)
T ss_dssp             SSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSC-CTTCCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBC
T ss_pred             CCcCCeeCHHHhcCCCCCCEEECCCCcCCccChhh-cccccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcC
Confidence            34555666666777888888888888888776543 3788888888888888888778888899999999887532  56


Q ss_pred             CcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccc
Q 038724          359 PSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQ  425 (483)
Q Consensus       359 p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~  425 (483)
                      |..+..+++|++|++++|.+..+|..+.  ++|+.|++++|.+... |. +..+.           .....+..+..+++
T Consensus       164 ~~~~~~l~~L~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~  241 (330)
T 1xku_A          164 NGAFQGMKKLSYIRIADTNITTIPQGLP--PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPH  241 (330)
T ss_dssp             TTGGGGCTTCCEEECCSSCCCSCCSSCC--TTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTT
T ss_pred             hhhccCCCCcCEEECCCCccccCCcccc--ccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCC
Confidence            6778888888888888888888877654  6788888888877665 33 33221           12223346778889


Q ss_pred             cccceeeccCccc----cCCCCCcccccceeeeeeeeeccccc
Q 038724          426 LNIIRLTSCSLCS----LCGLPTVQCLTSRRLNLEVEDWHKCT  464 (483)
Q Consensus       426 L~~L~l~~~~l~~----l~~l~~l~~l~l~~~~~~~~~~~~~~  464 (483)
                      |+.|++++|.+..    +..+++|+.|++++|.+...+...+.
T Consensus       242 L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~~N~i~~~~~~~f~  284 (330)
T 1xku_A          242 LRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFC  284 (330)
T ss_dssp             CCEEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCCCTTSSS
T ss_pred             CCEEECCCCcCccCChhhccCCCcCEEECCCCcCCccChhhcC
Confidence            9999999998754    45678888888888888776555443

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.58  E-value=1.5e-15  Score=146.57  Aligned_cols=162  Identities=23%  Similarity=0.272  Sum_probs=121.4

Q ss_pred             cceEEEEccccccccccC--CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc-cccCcCCCEEe
Q 038724          296 LGLRRMSLMNNQIKTLLN--TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG-ISKLVSLQHLD  372 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~--~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~-~~~l~~L~~L~  372 (483)
                      ++++.|++++|.++.+++  ...+++|++|++++|.++.+++..|..+++|++|++++|.+ ..+|.. ++.+++|++|+
T Consensus        52 ~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l-~~~~~~~~~~l~~L~~L~  130 (353)
T 2z80_A           52 EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL-SNLSSSWFKPLSSLTFLN  130 (353)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC-SSCCHHHHTTCTTCSEEE
T ss_pred             ccCcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcC-CcCCHhHhCCCccCCEEE
Confidence            479999999999998876  36899999999999999999888899999999999999975 455554 89999999999


Q ss_pred             ccCCCCCccCc--cccCCcCCCEEecCCCC-CcCC-CC-CCCCc-----------cchhhHhhhccccccccceeeccCc
Q 038724          373 ISFTSTLELPE--ELKALEKLKYLDMDDHQ-QVME-EG-NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       373 l~~~~i~~lp~--~~~~l~~L~~L~l~~n~-~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                      +++|.+..+|.  .+..+++|++|++++|. +... |. +..++           .....+..+..+++|+.|++++|.+
T Consensus       131 L~~n~l~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~l  210 (353)
T 2z80_A          131 LLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQH  210 (353)
T ss_dssp             CTTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSCS
T ss_pred             CCCCCCcccCchhhhccCCCCcEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHHhccccCCeecCCCCcc
Confidence            99999999997  58899999999999995 4433 22 33221           1122244555666666666666655


Q ss_pred             ccc-----CCCCCcccccceeeeeeee
Q 038724          437 CSL-----CGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       437 ~~l-----~~l~~l~~l~l~~~~~~~~  458 (483)
                      ..+     ..+++|+.|++++|.+...
T Consensus       211 ~~~~~~~~~~~~~L~~L~L~~n~l~~~  237 (353)
T 2z80_A          211 ILLLEIFVDVTSSVECLELRDTDLDTF  237 (353)
T ss_dssp             TTHHHHHHHHTTTEEEEEEESCBCTTC
T ss_pred             ccchhhhhhhcccccEEECCCCccccc
Confidence            332     2355666666666655543

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.58  E-value=5.6e-15  Score=138.27  Aligned_cols=148  Identities=22%  Similarity=0.299  Sum_probs=129.3

Q ss_pred             ccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..+++++.|++++|.++.++....+++|++|++++|.+..+++  +..+++|++|++++|. +..+| .+..+++|++|+
T Consensus        43 ~~l~~L~~L~l~~~~i~~~~~~~~l~~L~~L~L~~n~l~~~~~--l~~l~~L~~L~l~~n~-l~~~~-~l~~l~~L~~L~  118 (291)
T 1h6t_A           43 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENK-VKDLS-SLKDLKKLKSLS  118 (291)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCGG-GGTTCTTCCEEE
T ss_pred             hhcCcccEEEccCCCcccChhHhcCCCCCEEEccCCccCCCcc--cccCCCCCEEECCCCc-CCCCh-hhccCCCCCEEE
Confidence            3577899999999999998877889999999999999999887  8899999999999997 44555 599999999999


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCccccc
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCLT  449 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l~  449 (483)
                      +++|.+..+| .+..+++|++|++++|.+...             ..+..+++|+.|++++|.+..   +..+++|+.|+
T Consensus       119 L~~n~i~~~~-~l~~l~~L~~L~l~~n~l~~~-------------~~l~~l~~L~~L~L~~N~l~~~~~l~~l~~L~~L~  184 (291)
T 1h6t_A          119 LEHNGISDIN-GLVHLPQLESLYLGNNKITDI-------------TVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLY  184 (291)
T ss_dssp             CTTSCCCCCG-GGGGCTTCCEEECCSSCCCCC-------------GGGGGCTTCSEEECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             CCCCcCCCCh-hhcCCCCCCEEEccCCcCCcc-------------hhhccCCCCCEEEccCCccccchhhcCCCccCEEE
Confidence            9999999985 688999999999999986532             467889999999999998744   67788999999


Q ss_pred             ceeeeeeee
Q 038724          450 SRRLNLEVE  458 (483)
Q Consensus       450 l~~~~~~~~  458 (483)
                      +++|.+...
T Consensus       185 L~~N~i~~l  193 (291)
T 1h6t_A          185 LSKNHISDL  193 (291)
T ss_dssp             CCSSCCCBC
T ss_pred             CCCCcCCCC
Confidence            999988754

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.58  E-value=4.8e-15  Score=149.09  Aligned_cols=125  Identities=18%  Similarity=0.230  Sum_probs=106.5

Q ss_pred             hhhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccC
Q 038724          281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKL  358 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~  358 (483)
                      ...+..+.+..+..+++|+.|++++|.++.+.+.  ..+++|++|+|++|.+..+++..|..+++|++|++++|.+....
T Consensus        41 ~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~  120 (477)
T 2id5_A           41 KNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILL  120 (477)
T ss_dssp             SSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEEC
T ss_pred             CCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCC
Confidence            3455566666777888999999999999887553  57899999999999999998888889999999999999877777


Q ss_pred             CcccccCcCCCEEeccCCCCCccCc-cccCCcCCCEEecCCCCCcCCC
Q 038724          359 PSGISKLVSLQHLDISFTSTLELPE-ELKALEKLKYLDMDDHQQVMEE  405 (483)
Q Consensus       359 p~~~~~l~~L~~L~l~~~~i~~lp~-~~~~l~~L~~L~l~~n~~~~~p  405 (483)
                      |..+..+++|++|++++|.+..++. .+..+++|+.|++++|.+...|
T Consensus       121 ~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~  168 (477)
T 2id5_A          121 DYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIP  168 (477)
T ss_dssp             TTTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCC
T ss_pred             hhHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccC
Confidence            8889999999999999999877754 5889999999999999887764

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.58  E-value=2.6e-15  Score=145.17  Aligned_cols=136  Identities=24%  Similarity=0.234  Sum_probs=100.5

Q ss_pred             cceEEEEccccccccccCC--C-CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          296 LGLRRMSLMNNQIKTLLNT--P-SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~-~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..++.|++++|.++.+++.  . .+++|++|+|++|.++.+++..|..+++|++|+|++|++....+..+..+++|++|+
T Consensus        39 ~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  118 (361)
T 2xot_A           39 SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLL  118 (361)
T ss_dssp             TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEE
T ss_pred             CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEE
Confidence            3467788888888887764  2 678888888888888888877788888888888888875555555678888888888


Q ss_pred             ccCCCCCccC-ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc
Q 038724          373 ISFTSTLELP-EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       373 l~~~~i~~lp-~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      +++|.+..++ ..+..+++|++|+|++|.+..+|.        ..+..+..+++|+.|++++|.+..+
T Consensus       119 L~~N~i~~~~~~~~~~l~~L~~L~L~~N~l~~l~~--------~~~~~~~~l~~L~~L~L~~N~l~~l  178 (361)
T 2xot_A          119 LYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPV--------ELIKDGNKLPKLMLLDLSSNKLKKL  178 (361)
T ss_dssp             CCSSCCCEECTTTTTTCTTCCEEECCSSCCCSCCG--------GGTC----CTTCCEEECCSSCCCCC
T ss_pred             CCCCcccEECHHHhCCcccCCEEECCCCcCCeeCH--------HHhcCcccCCcCCEEECCCCCCCcc
Confidence            8888887774 457888888888888888765532        1112235678888888888877554

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

Probab=99.58  E-value=6.4e-15  Score=129.55  Aligned_cols=134  Identities=15%  Similarity=0.136  Sum_probs=115.6

Q ss_pred             ccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          291 DALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      .+..+++++.|++++|.++.++....+++|++|++++|.+....+..+..+++|++|++++|.+....|..++.+++|++
T Consensus        61 ~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~  140 (197)
T 4ezg_A           61 GIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNS  140 (197)
T ss_dssp             TGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCE
T ss_pred             HHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEEEecCCccCcHhHHHHhhCCCCCE
Confidence            35567899999999999988877788999999999999998865566899999999999999887778889999999999


Q ss_pred             EeccCCC-CCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          371 LDISFTS-TLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       371 L~l~~~~-i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      |++++|. +..+| .+..+++|++|++++|.+...             ..+..+++|+.|++++|++..
T Consensus       141 L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~i~~~-------------~~l~~l~~L~~L~l~~N~i~~  195 (197)
T 4ezg_A          141 IDLSYNGAITDIM-PLKTLPELKSLNIQFDGVHDY-------------RGIEDFPKLNQLYAFSQTIGG  195 (197)
T ss_dssp             EECCSCTBCCCCG-GGGGCSSCCEEECTTBCCCCC-------------TTGGGCSSCCEEEECBC----
T ss_pred             EEccCCCCccccH-hhcCCCCCCEEECCCCCCcCh-------------HHhccCCCCCEEEeeCcccCC
Confidence            9999998 99998 699999999999999986532             257889999999999998643

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.58  E-value=7.7e-15  Score=143.56  Aligned_cols=118  Identities=20%  Similarity=0.289  Sum_probs=70.6

Q ss_pred             cccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc-
Q 038724          285 RDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG-  361 (483)
Q Consensus       285 ~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~-  361 (483)
                      ..+....+..+++++.|++++|.++.+++.  ..+++|++|++++|.+..+++..+..+++|++|++++|. +..+|.. 
T Consensus        58 ~~l~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~l~~~~  136 (390)
T 3o6n_A           58 RKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERND-LSSLPRGI  136 (390)
T ss_dssp             SEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTT
T ss_pred             hhCChhHhcccccCcEEECCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCc-cCcCCHHH
Confidence            333333444556666666666666655442  456666666666666666666656666666666666665 3344433 


Q ss_pred             cccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcC
Q 038724          362 ISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVM  403 (483)
Q Consensus       362 ~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~  403 (483)
                      +..+++|++|++++|.+..+++. +..+++|+.|++++|.+..
T Consensus       137 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~  179 (390)
T 3o6n_A          137 FHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTH  179 (390)
T ss_dssp             TTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECCSSCCSB
T ss_pred             hcCCCCCcEEECCCCccCccChhhccCCCCCCEEECCCCcCCc
Confidence            45666666666666666555443 5666666666666666543

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.58  E-value=1e-14  Score=142.65  Aligned_cols=180  Identities=17%  Similarity=0.135  Sum_probs=137.0

Q ss_pred             hhhhhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc
Q 038724          279 DILEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT  356 (483)
Q Consensus       279 ~~~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~  356 (483)
                      ...+.+.+..+..+..+++|+.|++++|.++.+++.  ..+++|++|++++|.++.+++..|..+++|++|++++|.+..
T Consensus        76 L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~  155 (390)
T 3o6n_A           76 LNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLER  155 (390)
T ss_dssp             CTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCB
T ss_pred             CCCCcccccChhhccCCCCcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCc
Confidence            344556666666777889999999999999988764  578999999999999999998888999999999999998777


Q ss_pred             cCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC-------------------CC--CCCCc----
Q 038724          357 KLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME-------------------EG--NCQSD----  411 (483)
Q Consensus       357 ~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~-------------------p~--~~~l~----  411 (483)
                      ..|..+..+++|++|++++|.+..++  +..+++|++|++++|.+...                   |.  ...++    
T Consensus       156 ~~~~~~~~l~~L~~L~l~~n~l~~~~--~~~l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l  233 (390)
T 3o6n_A          156 IEDDTFQATTSLQNLQLSSNRLTHVD--LSLIPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKL  233 (390)
T ss_dssp             CCTTTTSSCTTCCEEECCSSCCSBCC--GGGCTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEEC
T ss_pred             cChhhccCCCCCCEEECCCCcCCccc--cccccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEEC
Confidence            67778999999999999999988875  44566666666666654432                   11  11111    


Q ss_pred             --cchhhHhhhccccccccceeeccCcc-----ccCCCCCcccccceeeeeeeeec
Q 038724          412 --DAESLLKEMLCLEQLNIIRLTSCSLC-----SLCGLPTVQCLTSRRLNLEVEDW  460 (483)
Q Consensus       412 --~~~~~~~~l~~l~~L~~L~l~~~~l~-----~l~~l~~l~~l~l~~~~~~~~~~  460 (483)
                        .....+..+..+++|+.|++++|.+.     .+..+++|+.|++++|++...+.
T Consensus       234 ~~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~  289 (390)
T 3o6n_A          234 QHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNL  289 (390)
T ss_dssp             CSSCCCCCGGGGGCTTCSEEECCSSCCCEEESGGGTTCSSCCEEECCSSCCCEEEC
T ss_pred             CCCCCcccHHHcCCCCccEEECCCCcCCCcChhHccccccCCEEECCCCcCcccCc
Confidence              11112245777888999999998864     45778889999998888876543

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.58  E-value=3.7e-15  Score=144.11  Aligned_cols=153  Identities=18%  Similarity=0.142  Sum_probs=128.4

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhh-cCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQ-FMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~-~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      +.++++++.++.+|.. -...++.|+|++|.++.+++..+. .+++|++|+|++|++....|..+..+++|++|++++|.
T Consensus        21 ~~l~c~~~~l~~iP~~-~~~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~   99 (361)
T 2xot_A           21 NILSCSKQQLPNVPQS-LPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNH   99 (361)
T ss_dssp             TEEECCSSCCSSCCSS-CCTTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEeCCCCcCccCcc-CCCCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCc
Confidence            4689999999988753 346799999999999999988787 89999999999998766666789999999999999999


Q ss_pred             CCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc--------CCCCCcccc
Q 038724          378 TLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL--------CGLPTVQCL  448 (483)
Q Consensus       378 i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l--------~~l~~l~~l  448 (483)
                      +..+|.. +..+++|+.|+|++|.+..+           .+..+..+++|+.|++++|.+..+        ..+++|+.|
T Consensus       100 l~~~~~~~~~~l~~L~~L~L~~N~i~~~-----------~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~~l~~L~~L  168 (361)
T 2xot_A          100 LHTLDEFLFSDLQALEVLLLYNNHIVVV-----------DRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLL  168 (361)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSSCCCEE-----------CTTTTTTCTTCCEEECCSSCCCSCCGGGTC----CTTCCEE
T ss_pred             CCcCCHHHhCCCcCCCEEECCCCcccEE-----------CHHHhCCcccCCEEECCCCcCCeeCHHHhcCcccCCcCCEE
Confidence            9999875 88999999999999997644           234678899999999999998654        458899999


Q ss_pred             cceeeeeeeeecccc
Q 038724          449 TSRRLNLEVEDWHKC  463 (483)
Q Consensus       449 ~l~~~~~~~~~~~~~  463 (483)
                      ++++|++...+...+
T Consensus       169 ~L~~N~l~~l~~~~~  183 (361)
T 2xot_A          169 DLSSNKLKKLPLTDL  183 (361)
T ss_dssp             ECCSSCCCCCCHHHH
T ss_pred             ECCCCCCCccCHHHh
Confidence            999888876554433

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.57  E-value=5.4e-15  Score=139.64  Aligned_cols=173  Identities=18%  Similarity=0.173  Sum_probs=137.8

Q ss_pred             ccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccc-hhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKN-GFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~-~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      ..+++|+.|++++|.++.++.. ..+++|++|++++|.+..+++ ..+..+++|++|++++|.+....|..+..+++|++
T Consensus        75 ~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  154 (306)
T 2z66_A           75 FGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEV  154 (306)
T ss_dssp             HSCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCE
T ss_pred             ccccccCEEECCCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCE
Confidence            3567899999999999887653 578999999999999988876 56888999999999999877778888999999999


Q ss_pred             EeccCCCCCc--cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCC
Q 038724          371 LDISFTSTLE--LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLP  443 (483)
Q Consensus       371 L~l~~~~i~~--lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~  443 (483)
                      |++++|.+..  +|..+..+++|++|++++|.+...           .+..+..+++|+.|++++|.+..     +..++
T Consensus       155 L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~-----------~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~  223 (306)
T 2z66_A          155 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQL-----------SPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLN  223 (306)
T ss_dssp             EECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEE-----------CTTTTTTCTTCCEEECTTSCCSBCCSGGGTTCT
T ss_pred             EECCCCccccccchhHHhhCcCCCEEECCCCCcCCc-----------CHHHhcCCCCCCEEECCCCccCccChhhccCcc
Confidence            9999999765  788899999999999999986543           24457788999999999998743     56688


Q ss_pred             CcccccceeeeeeeeecccccCcc--ceeecCCcc
Q 038724          444 TVQCLTSRRLNLEVEDWHKCTGEV--HKVLQSGGS  476 (483)
Q Consensus       444 ~l~~l~l~~~~~~~~~~~~~~~~~--~~~~~~~~~  476 (483)
                      +|+.|++++|.+............  -..+++.++
T Consensus       224 ~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L~L~~N  258 (306)
T 2z66_A          224 SLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQN  258 (306)
T ss_dssp             TCCEEECTTSCCCBCSSSSCCCCCTTCCEEECTTC
T ss_pred             cCCEeECCCCCCcccCHHHHHhhhccCCEEEccCC
Confidence            999999999888765444333321  144444443

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.57  E-value=4.3e-15  Score=134.97  Aligned_cols=157  Identities=15%  Similarity=0.181  Sum_probs=76.6

Q ss_pred             ccccccceEEEEccccc-cccccCC--CCCCcccEEEecC-CccccccchhhhcCCCccEEEccCCccCccCCcccccCc
Q 038724          291 DALKWLGLRRMSLMNNQ-IKTLLNT--PSCPHLLTLFLND-NYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLV  366 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~-~~~~~~~--~~~~~L~~L~l~~-n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~  366 (483)
                      .+..+++++.|++++|. ++.+++.  ..+++|++|++++ |.++.+++..|..+++|++|++++|. +..+|. +..++
T Consensus        50 ~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~-l~~lp~-~~~l~  127 (239)
T 2xwt_C           50 AFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTG-LKMFPD-LTKVY  127 (239)
T ss_dssp             TTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEEC-CCSCCC-CTTCC
T ss_pred             HccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCC-Cccccc-ccccc
Confidence            33444455555555553 4444432  2445555555554 55555544444455555555555554 222443 44444


Q ss_pred             CCC---EEeccCC-CCCccCcc-ccCCcCCC-EEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccC-ccc-
Q 038724          367 SLQ---HLDISFT-STLELPEE-LKALEKLK-YLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS-LCS-  438 (483)
Q Consensus       367 ~L~---~L~l~~~-~i~~lp~~-~~~l~~L~-~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~-l~~-  438 (483)
                      +|+   +|++++| .+..+|.. +..+++|+ .|++++|.+..+|.           ..+.. ++|+.|++++|+ +.. 
T Consensus       128 ~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~-----------~~~~~-~~L~~L~L~~n~~l~~i  195 (239)
T 2xwt_C          128 STDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQG-----------YAFNG-TKLDAVYLNKNKYLTVI  195 (239)
T ss_dssp             BCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCCCCEECT-----------TTTTT-CEEEEEECTTCTTCCEE
T ss_pred             ccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCCCcccCH-----------hhcCC-CCCCEEEcCCCCCcccC
Confidence            444   5555555 45555443 44555555 55555554332221           11222 566666666663 432 


Q ss_pred             ----cCCC-CCcccccceeeeeeeeecc
Q 038724          439 ----LCGL-PTVQCLTSRRLNLEVEDWH  461 (483)
Q Consensus       439 ----l~~l-~~l~~l~l~~~~~~~~~~~  461 (483)
                          +..+ ++|+.|+++++++...+..
T Consensus       196 ~~~~~~~l~~~L~~L~l~~N~l~~l~~~  223 (239)
T 2xwt_C          196 DKDAFGGVYSGPSLLDVSQTSVTALPSK  223 (239)
T ss_dssp             CTTTTTTCSBCCSEEECTTCCCCCCCCT
T ss_pred             CHHHhhccccCCcEEECCCCccccCChh
Confidence                3445 5666666666666544433

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.57  E-value=8.2e-15  Score=146.47  Aligned_cols=89  Identities=21%  Similarity=0.236  Sum_probs=41.5

Q ss_pred             cccccceEEEEccccccccccCC--CCCCcccEEEecCCccccc--cchhhhcCCCccEEEccCCccCccCCcc-cccCc
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDI--KNGFFQFMPCLKVLNLSYNRFLTKLPSG-ISKLV  366 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~--~~~~~~~l~~L~~L~l~~n~~~~~~p~~-~~~l~  366 (483)
                      +..+++|+.|++++|.++.+.+.  ..+++|++|++++|.+.+.  ....+..+++|++|++++|.+.+..|.. +..++
T Consensus        75 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~l~  154 (455)
T 3v47_A           75 FRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMR  154 (455)
T ss_dssp             TTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECTTSCCBTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGGGGCT
T ss_pred             ccccccCCEEeCCCCccCccChhhccCcccCCEEeCCCCCCCccccCcccccCcccCCEEECCCCccCccCcccccCCCC
Confidence            33444455555555555444321  3445555555555554432  1222444555555555555443333433 44555


Q ss_pred             CCCEEeccCCCCCc
Q 038724          367 SLQHLDISFTSTLE  380 (483)
Q Consensus       367 ~L~~L~l~~~~i~~  380 (483)
                      +|++|++++|.+..
T Consensus       155 ~L~~L~L~~n~l~~  168 (455)
T 3v47_A          155 RFHVLDLTFNKVKS  168 (455)
T ss_dssp             TCCEEECTTCCBSC
T ss_pred             cccEEeCCCCcccc
Confidence            55555555555433

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.57  E-value=3.8e-15  Score=155.20  Aligned_cols=134  Identities=25%  Similarity=0.231  Sum_probs=114.6

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      ..++.|++++|.|+.+++.  ..+++|++|+|++|.++.++++.|..+++|++|+|++|++....|..|.++++|++|++
T Consensus        52 ~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~L  131 (635)
T 4g8a_A           52 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  131 (635)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEEC
T ss_pred             cCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEEC
Confidence            4688999999999999864  67899999999999999999988999999999999999754444456899999999999


Q ss_pred             cCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc
Q 038724          374 SFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       374 ~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      ++|++..+|+. ++++++|++|++++|.+...          ..+..+..+++|+.|++++|++..+
T Consensus       132 s~N~l~~l~~~~~~~L~~L~~L~Ls~N~l~~~----------~~~~~~~~l~~L~~L~L~~N~l~~~  188 (635)
T 4g8a_A          132 VETNLASLENFPIGHLKTLKELNVAHNLIQSF----------KLPEYFSNLTNLEHLDLSSNKIQSI  188 (635)
T ss_dssp             TTSCCCCSTTCCCTTCTTCCEEECCSSCCCCC----------CCCGGGGGCTTCCEEECCSSCCCEE
T ss_pred             CCCcCCCCChhhhhcCcccCeeccccCccccC----------CCchhhccchhhhhhcccCcccccc
Confidence            99999999875 89999999999999987532          2345678889999999999987543

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.57  E-value=1.1e-14  Score=139.22  Aligned_cols=181  Identities=17%  Similarity=0.171  Sum_probs=124.9

Q ss_pred             hhhhcccCccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccC--ccC
Q 038724          281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL--TKL  358 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~--~~~  358 (483)
                      .+.+....+..+..+++|+.|++++|.++.++.... ++|++|++++|.+..+++..|..+++|++|++++|.+.  +..
T Consensus        87 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~-~~L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~  165 (332)
T 2ft3_A           87 NNKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP-SSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFE  165 (332)
T ss_dssp             SSCCCEECGGGSTTCTTCCEEECCSSCCCSCCSSCC-TTCCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSC
T ss_pred             CCccCccCHhHhhCcCCCCEEECCCCcCCccCcccc-ccCCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCC
Confidence            344555556666777888888888888887765433 78888888888888888877888888999999888753  255


Q ss_pred             CcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccc
Q 038724          359 PSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQ  425 (483)
Q Consensus       359 p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~  425 (483)
                      |..+..+ +|++|++++|.+..+|..+.  ++|+.|++++|.+... |. +..+.           .....+..+..+++
T Consensus       166 ~~~~~~l-~L~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~  242 (332)
T 2ft3_A          166 PGAFDGL-KLNYLRISEAKLTGIPKDLP--ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPT  242 (332)
T ss_dssp             TTSSCSC-CCSCCBCCSSBCSSCCSSSC--SSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTT
T ss_pred             cccccCC-ccCEEECcCCCCCccCcccc--CCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCC
Confidence            6666666 67777777777766666543  5677777777766655 22 32221           11222345677888


Q ss_pred             cccceeeccCccc----cCCCCCcccccceeeeeeeeecccccC
Q 038724          426 LNIIRLTSCSLCS----LCGLPTVQCLTSRRLNLEVEDWHKCTG  465 (483)
Q Consensus       426 L~~L~l~~~~l~~----l~~l~~l~~l~l~~~~~~~~~~~~~~~  465 (483)
                      |+.|++++|.+..    +..+++|+.|++++|.+...+...+.+
T Consensus       243 L~~L~L~~N~l~~lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~  286 (332)
T 2ft3_A          243 LRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCP  286 (332)
T ss_dssp             CCEEECCSSCCCBCCTTGGGCTTCCEEECCSSCCCBCCTTSSSC
T ss_pred             CCEEECCCCcCeecChhhhcCccCCEEECCCCCCCccChhHccc
Confidence            8888888887744    455677888888888877665554443

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.56  E-value=4.7e-15  Score=153.80  Aligned_cols=133  Identities=21%  Similarity=0.136  Sum_probs=92.9

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      +.++.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|.+.+..|..++.+++|++|++
T Consensus        32 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L  111 (606)
T 3vq2_A           32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVA  111 (606)
T ss_dssp             TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEEC
T ss_pred             CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCCEEEc
Confidence            5677777777777776653  46777777777777777776666777777777777777655555777777777777777


Q ss_pred             cCCCCCccC-ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          374 SFTSTLELP-EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       374 ~~~~i~~lp-~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      ++|.+..+| ..++++++|++|++++|.+..          ...|..++.+++|+.|++++|.+..
T Consensus       112 ~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~----------~~lp~~~~~l~~L~~L~Ls~n~l~~  167 (606)
T 3vq2_A          112 VETKLASLESFPIGQLITLKKLNVAHNFIHS----------CKLPAYFSNLTNLVHVDLSYNYIQT  167 (606)
T ss_dssp             TTSCCCCSSSSCCTTCTTCCEEECCSSCCCC----------CCCCGGGGTCTTCCEEECCSSCCCE
T ss_pred             cCCccccccccccCCCCCCCEEeCCCCcccc----------eechHhHhhcCCCCEEEccCCccee
Confidence            777777666 447777777777777777542          1234456666677777777766543

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

Probab=99.56  E-value=1.9e-15  Score=157.22  Aligned_cols=173  Identities=12%  Similarity=0.143  Sum_probs=130.1

Q ss_pred             hhcccCccccccccceEEEEcccccccc------------------ccCC-C--CCCcccEEEecCCccccccchhhhcC
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKT------------------LLNT-P--SCPHLLTLFLNDNYLQDIKNGFFQFM  341 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~------------------~~~~-~--~~~~L~~L~l~~n~~~~~~~~~~~~l  341 (483)
                      .+.. ++..+..+++|+.|++++|.+++                  +|.. .  .+++|++|++++|.+....|..+..+
T Consensus       194 ~l~~-ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l  272 (636)
T 4eco_A          194 NITF-VSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKAL  272 (636)
T ss_dssp             EEEE-ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTC
T ss_pred             CCcc-CCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcC
Confidence            4455 66777788999999999999988                  6654 4  68999999999998877666678899


Q ss_pred             CCccEEEccCCc-cCc-cCCcccccC------cCCCEEeccCCCCCccCc--cccCCcCCCEEecCCCCCc-CCCCCCCC
Q 038724          342 PCLKVLNLSYNR-FLT-KLPSGISKL------VSLQHLDISFTSTLELPE--ELKALEKLKYLDMDDHQQV-MEEGNCQS  410 (483)
Q Consensus       342 ~~L~~L~l~~n~-~~~-~~p~~~~~l------~~L~~L~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~-~~p~~~~l  410 (483)
                      ++|++|++++|+ +.+ .+|..++.+      ++|++|++++|.+..+|.  .++.+++|++|++++|.+. .+|.++.+
T Consensus       273 ~~L~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip~~~~l  352 (636)
T 4eco_A          273 PEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSE  352 (636)
T ss_dssp             SSCCEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECCCCEEE
T ss_pred             CCCCEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchhhhCCC
Confidence            999999999997 666 788888877      899999999999889998  7999999999999999887 44643322


Q ss_pred             c----------cchhhHhhhccccc-cccceeeccCccccCC------CCCcccccceeeeee
Q 038724          411 D----------DAESLLKEMLCLEQ-LNIIRLTSCSLCSLCG------LPTVQCLTSRRLNLE  456 (483)
Q Consensus       411 ~----------~~~~~~~~l~~l~~-L~~L~l~~~~l~~l~~------l~~l~~l~l~~~~~~  456 (483)
                      .          .....|..+..+++ |+.|++++|.+..+..      +++|+.|++++|.+.
T Consensus       353 ~~L~~L~L~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~~lp~~~~~~~l~~L~~L~Ls~N~l~  415 (636)
T 4eco_A          353 IKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDFSYNEIG  415 (636)
T ss_dssp             EEESEEECCSSEEEECCTTSEEECTTCCEEECCSSCCSSCCSCCCTTCSSCEEEEECCSSCTT
T ss_pred             CCCCEEECCCCccccccHhhhhhcccCcEEEccCCcCcccchhhhhcccCccCEEECcCCcCC
Confidence            1          11245566777777 7777777777644322      224555555555554

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.56  E-value=1.5e-14  Score=149.43  Aligned_cols=175  Identities=17%  Similarity=0.166  Sum_probs=118.3

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP  359 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p  359 (483)
                      +.+..+.+..+..+++|+.|++++|.++.+++.  ..+++|++|+|++|.+..+++..|+.+++|++|+|++|.+. .+|
T Consensus        61 ~~l~~lp~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~-~l~  139 (597)
T 3oja_B           61 STMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-SLP  139 (597)
T ss_dssp             CEESEECTHHHHHCCCCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCC-CCC
T ss_pred             CCCCCcCHHHHccCCCCcEEECCCCCCCCCChHHhcCCCCCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCC-CCC
Confidence            334455555566778899999999998887753  57889999999999998888888888999999999999744 555


Q ss_pred             cc-cccCcCCCEEeccCCCCCccCc-cccCCcCCCEEecCCCCCcCCC-C-CCCCc---cchhhHhhhccccccccceee
Q 038724          360 SG-ISKLVSLQHLDISFTSTLELPE-ELKALEKLKYLDMDDHQQVMEE-G-NCQSD---DAESLLKEMLCLEQLNIIRLT  432 (483)
Q Consensus       360 ~~-~~~l~~L~~L~l~~~~i~~lp~-~~~~l~~L~~L~l~~n~~~~~p-~-~~~l~---~~~~~~~~l~~l~~L~~L~l~  432 (483)
                      .. ++.+++|++|++++|.+..+|+ .+..+++|++|++++|.+...| . +..+.   .....+..+...++|+.|+++
T Consensus       140 ~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l~~l~~~~~L~~L~ls  219 (597)
T 3oja_B          140 RGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEELDAS  219 (597)
T ss_dssp             TTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCCSEEECCTTCSEEECC
T ss_pred             HHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCccccccCCchhheeecc
Confidence            44 6888999999999998877766 4888899999999999876542 1 21111   111122223333445555555


Q ss_pred             ccCccccC--CCCCcccccceeeeeee
Q 038724          433 SCSLCSLC--GLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       433 ~~~l~~l~--~l~~l~~l~l~~~~~~~  457 (483)
                      +|.+..+.  ..++|+.|++++|++..
T Consensus       220 ~n~l~~~~~~~~~~L~~L~L~~n~l~~  246 (597)
T 3oja_B          220 HNSINVVRGPVNVELTILKLQHNNLTD  246 (597)
T ss_dssp             SSCCCEEECSCCSCCCEEECCSSCCCC
T ss_pred             CCcccccccccCCCCCEEECCCCCCCC
Confidence            55543321  12355555555555543

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.56  E-value=7.8e-15  Score=125.49  Aligned_cols=134  Identities=25%  Similarity=0.182  Sum_probs=106.9

Q ss_pred             cceEEEEccccccc--cccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          296 LGLRRMSLMNNQIK--TLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       296 ~~l~~l~l~~~~~~--~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ++++.|++++|.++  .++.. ..+++|++|++++|.++.+  ..+..+++|++|++++|.+.+.+|..+..+++|++|+
T Consensus        24 ~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~  101 (168)
T 2ell_A           24 AAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISV--SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLN  101 (168)
T ss_dssp             TSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCC--SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEE
T ss_pred             ccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCCh--hhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEe
Confidence            67888999999988  66655 5788999999999988887  4478889999999999986666787777799999999


Q ss_pred             ccCCCCCccC--ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc
Q 038724          373 ISFTSTLELP--EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       373 l~~~~i~~lp--~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      +++|.+..+|  ..+..+++|++|++++|.+...|.        .....+..+++|+.|++++|.+..+
T Consensus       102 Ls~N~l~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~--------~~~~~~~~l~~L~~L~l~~n~~~~~  162 (168)
T 2ell_A          102 LSGNKLKDISTLEPLKKLECLKSLDLFNCEVTNLND--------YRESVFKLLPQLTYLDGYDREDQEA  162 (168)
T ss_dssp             CBSSSCCSSGGGGGGSSCSCCCEEECCSSGGGTSTT--------HHHHHHTTCSSCCEETTEETTSCBC
T ss_pred             ccCCccCcchhHHHHhcCCCCCEEEeeCCcCcchHH--------HHHHHHHhCccCcEecCCCCChhhc
Confidence            9999988887  568889999999999998654421        1123577888999999988886544

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

Probab=99.56  E-value=2.5e-14  Score=146.84  Aligned_cols=156  Identities=20%  Similarity=0.258  Sum_probs=122.8

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++|+.|++++|.++.+++...+++|+.|+|++|.+..++.  +..+++|+.|+|++|.+. .+| .+..+++|+.|
T Consensus        61 l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~~--l~~l~~L~~L~Ls~N~l~-~l~-~l~~l~~L~~L  136 (605)
T 1m9s_A           61 IQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKIKDLSS--LKDLKKLKSLSLEHNGIS-DIN-GLVHLPQLESL  136 (605)
T ss_dssp             GGGCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCTT--STTCTTCCEEECTTSCCC-CCG-GGGGCTTCSEE
T ss_pred             HccCCCCCEEEeeCCCCCCChhhccCCCCCEEECcCCCCCCChh--hccCCCCCEEEecCCCCC-CCc-cccCCCccCEE
Confidence            45677888888888888888777788888888888888887653  778888888888888643 443 58888888888


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcc---ccCCCCCcccc
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC---SLCGLPTVQCL  448 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~---~l~~l~~l~~l  448 (483)
                      +|++|.+..+ ..+..+++|+.|+|++|.+...           .+  +..+++|+.|+|++|.+.   .+..+++|+.|
T Consensus       137 ~Ls~N~l~~l-~~l~~l~~L~~L~Ls~N~l~~~-----------~~--l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L  202 (605)
T 1m9s_A          137 YLGNNKITDI-TVLSRLTKLDTLSLEDNQISDI-----------VP--LAGLTKLQNLYLSKNHISDLRALAGLKNLDVL  202 (605)
T ss_dssp             ECCSSCCCCC-GGGGSCTTCSEEECCSSCCCCC-----------GG--GTTCTTCCEEECCSSCCCBCGGGTTCTTCSEE
T ss_pred             ECCCCccCCc-hhhcccCCCCEEECcCCcCCCc-----------hh--hccCCCCCEEECcCCCCCCChHHccCCCCCEE
Confidence            8888888887 4688888888888888886532           11  778899999999999874   45778889999


Q ss_pred             cceeeeeeeeecccccC
Q 038724          449 TSRRLNLEVEDWHKCTG  465 (483)
Q Consensus       449 ~l~~~~~~~~~~~~~~~  465 (483)
                      +++.|.+...+...+..
T Consensus       203 ~L~~N~l~~~p~~~~~~  219 (605)
T 1m9s_A          203 ELFSQECLNKPINHQSN  219 (605)
T ss_dssp             ECCSEEEECCCCCCCSS
T ss_pred             EccCCcCcCCccccccc
Confidence            99998888766555443

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.56  E-value=4.5e-15  Score=134.81  Aligned_cols=159  Identities=14%  Similarity=0.209  Sum_probs=128.9

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCc-cccccchhhhcCCCccEEEccC-CccCccCCcccccCcCCCEE
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNY-LQDIKNGFFQFMPCLKVLNLSY-NRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~-~~~~~~~~~~~l~~L~~L~l~~-n~~~~~~p~~~~~l~~L~~L  371 (483)
                      ..++.|++++|.++.+++.  ..+++|++|++++|. ++.+++..|..+++|++|++++ |.+....|..+..+++|++|
T Consensus        31 ~~l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L  110 (239)
T 2xwt_C           31 PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFL  110 (239)
T ss_dssp             TTCCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEE
T ss_pred             CcccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEE
Confidence            4788999999999998874  578999999999997 9999887899999999999998 87555555678899999999


Q ss_pred             eccCCCCCccCccccCCcCCC---EEecCCC-CCcCCCCCCCCccchhhHhhhccccccc-cceeeccCccccC----CC
Q 038724          372 DISFTSTLELPEELKALEKLK---YLDMDDH-QQVMEEGNCQSDDAESLLKEMLCLEQLN-IIRLTSCSLCSLC----GL  442 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~---~L~l~~n-~~~~~p~~~~l~~~~~~~~~l~~l~~L~-~L~l~~~~l~~l~----~l  442 (483)
                      ++++|.+..+|. +..+++|+   +|++++| .+..+|           +..+..+++|+ .|++++|.+..+.    ..
T Consensus       111 ~l~~n~l~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~-----------~~~~~~l~~L~~~L~l~~n~l~~i~~~~~~~  178 (239)
T 2xwt_C          111 GIFNTGLKMFPD-LTKVYSTDIFFILEITDNPYMTSIP-----------VNAFQGLCNETLTLKLYNNGFTSVQGYAFNG  178 (239)
T ss_dssp             EEEEECCCSCCC-CTTCCBCCSEEEEEEESCTTCCEEC-----------TTTTTTTBSSEEEEECCSCCCCEECTTTTTT
T ss_pred             eCCCCCCccccc-cccccccccccEEECCCCcchhhcC-----------cccccchhcceeEEEcCCCCCcccCHhhcCC
Confidence            999999999987 88888888   9999999 755432           23477899999 9999999886542    22


Q ss_pred             CCcccccceee-eeeeeecccccCc
Q 038724          443 PTVQCLTSRRL-NLEVEDWHKCTGE  466 (483)
Q Consensus       443 ~~l~~l~l~~~-~~~~~~~~~~~~~  466 (483)
                      ++|+.|++++| ++...+...+.+.
T Consensus       179 ~~L~~L~L~~n~~l~~i~~~~~~~l  203 (239)
T 2xwt_C          179 TKLDAVYLNKNKYLTVIDKDAFGGV  203 (239)
T ss_dssp             CEEEEEECTTCTTCCEECTTTTTTC
T ss_pred             CCCCEEEcCCCCCcccCCHHHhhcc
Confidence            68899999888 4776654444443

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

Probab=99.56  E-value=1.9e-14  Score=149.24  Aligned_cols=123  Identities=19%  Similarity=0.247  Sum_probs=77.8

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS  360 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~  360 (483)
                      ..+.++.+..+..+++++.|++++|.++.+|.. ..+++|++|++++|.+...++..+..+++|++|++++|.+.+.+|.
T Consensus       264 n~l~~~~~~~~~~l~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~  343 (606)
T 3t6q_A          264 HYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGT  343 (606)
T ss_dssp             CCCSSCCTTTTTTCTTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCS
T ss_pred             CccCccCHHHhccccCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccch
Confidence            344455555566677788888888877777653 5667778888877777776665566777777777777765544443


Q ss_pred             c-cccCcCCCEEeccCCCCCcc---CccccCCcCCCEEecCCCCCcCC
Q 038724          361 G-ISKLVSLQHLDISFTSTLEL---PEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       361 ~-~~~l~~L~~L~l~~~~i~~l---p~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      . +..+++|++|++++|.+..+   |..+..+++|+.|++++|.+...
T Consensus       344 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~  391 (606)
T 3t6q_A          344 GCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSL  391 (606)
T ss_dssp             STTTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEE
T ss_pred             hhhhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcC
Confidence            3 55666666666666665544   33455555555555555554443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.56  E-value=3.3e-14  Score=126.16  Aligned_cols=146  Identities=23%  Similarity=0.210  Sum_probs=120.6

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      +.++..++.++.++.. ..++|++|++++|.++.+++..|..+++|++|++++|++....+..+..+++|++|++++|.+
T Consensus        10 ~~v~c~~~~l~~~p~~-~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l   88 (208)
T 2o6s_A           10 TTVECYSQGRTSVPTG-IPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQL   88 (208)
T ss_dssp             TEEECCSSCCSSCCSC-CCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCCccCCCCC-CCCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcC
Confidence            3567778888777643 457999999999999999988889999999999999986555455678999999999999999


Q ss_pred             CccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCccccccee
Q 038724          379 LELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCLTSRR  452 (483)
Q Consensus       379 ~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l~l~~  452 (483)
                      ..+|.. +..+++|++|++++|.+...|.           ..+..+++|+.|++++|.+..     +..+++|+.|++++
T Consensus        89 ~~~~~~~~~~l~~L~~L~L~~N~l~~~~~-----------~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~  157 (208)
T 2o6s_A           89 QSLPNGVFDKLTQLKELALNTNQLQSLPD-----------GVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHD  157 (208)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCCCT-----------TTTTTCTTCCEEECCSSCCSCCCTTTTTTCTTCCEEECCS
T ss_pred             CccCHhHhcCccCCCEEEcCCCcCcccCH-----------hHhccCCcCCEEECCCCccceeCHHHhccCCCccEEEecC
Confidence            999876 6899999999999999765422           246789999999999998754     45678888888887


Q ss_pred             eeee
Q 038724          453 LNLE  456 (483)
Q Consensus       453 ~~~~  456 (483)
                      |.+.
T Consensus       158 N~~~  161 (208)
T 2o6s_A          158 NPWD  161 (208)
T ss_dssp             CCBC
T ss_pred             CCee
Confidence            7554

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.55  E-value=3.1e-14  Score=142.26  Aligned_cols=75  Identities=15%  Similarity=0.160  Sum_probs=39.0

Q ss_pred             ccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccccccceeeccCcc-----ccCCCCCcc
Q 038724          385 LKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCSLC-----SLCGLPTVQ  446 (483)
Q Consensus       385 ~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~l~-----~l~~l~~l~  446 (483)
                      +..+++|+.|++++|.+... |. +..++           .....+..+..+++|+.|++++|.+.     .+..+++|+
T Consensus       295 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~  374 (455)
T 3v47_A          295 FSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLK  374 (455)
T ss_dssp             TTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECGGGGTTCTTCCEEECCSSCCCEECTTTTTTCTTCC
T ss_pred             cccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCccCCcChhHhcCcccCCEEECCCCcccccChhhcccccccc
Confidence            55555555555555555544 22 22211           11222344566666666666666553     234556666


Q ss_pred             cccceeeeeeeee
Q 038724          447 CLTSRRLNLEVED  459 (483)
Q Consensus       447 ~l~l~~~~~~~~~  459 (483)
                      .|++++|++...+
T Consensus       375 ~L~L~~N~l~~~~  387 (455)
T 3v47_A          375 ELALDTNQLKSVP  387 (455)
T ss_dssp             EEECCSSCCSCCC
T ss_pred             EEECCCCccccCC
Confidence            6666666665443

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.55  E-value=1.6e-14  Score=126.44  Aligned_cols=132  Identities=23%  Similarity=0.305  Sum_probs=110.8

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccch-hhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNG-FFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~-~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      +.+++++|.++.+|.. ...++++|++++|.+..+++. .|..+++|++|++++|.+.+..|..+..+++|++|++++|.
T Consensus        11 ~~l~~s~~~l~~ip~~-~~~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~   89 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRD-IPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             TEEECTTSCCSSCCSC-CCTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             CEEEcCCCCcCcCccC-CCCCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCc
Confidence            5688999999888763 234899999999999988774 58899999999999998777778899999999999999999


Q ss_pred             CCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCCC
Q 038724          378 TLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGL  442 (483)
Q Consensus       378 i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~l  442 (483)
                      +..+|.. +..+++|++|++++|++...           .+..+..+++|+.|++++|++.+-..+
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N~l~~~-----------~~~~~~~l~~L~~L~L~~N~l~c~c~l  144 (192)
T 1w8a_A           90 IKEISNKMFLGLHQLKTLNLYDNQISCV-----------MPGSFEHLNSLTSLNLASNPFNCNCHL  144 (192)
T ss_dssp             CCEECSSSSTTCTTCCEEECCSSCCCEE-----------CTTSSTTCTTCCEEECTTCCBCCSGGG
T ss_pred             CCccCHHHhcCCCCCCEEECCCCcCCee-----------CHHHhhcCCCCCEEEeCCCCccCcCcc
Confidence            9888776 88999999999999997643           344577889999999999998765444

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

Probab=99.55  E-value=4.1e-15  Score=157.98  Aligned_cols=169  Identities=14%  Similarity=0.155  Sum_probs=133.3

Q ss_pred             CccccccccceEEEEcccccccc------------------ccCC-C--CCCcccEEEecCCccccccchhhhcCCCccE
Q 038724          288 VPSDALKWLGLRRMSLMNNQIKT------------------LLNT-P--SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKV  346 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~~~~~~------------------~~~~-~--~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~  346 (483)
                      +|..+..+++|+.|++++|.+++                  +|.. .  .+++|++|+|++|.+....|..+..+++|++
T Consensus       440 IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~  519 (876)
T 4ecn_A          440 ISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQS  519 (876)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCE
T ss_pred             hhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCE
Confidence            56677789999999999999998                  6655 4  7999999999999887766677999999999


Q ss_pred             EEccCCc-cCc-cCCcccccCc-------CCCEEeccCCCCCccCc--cccCCcCCCEEecCCCCCcCCCCCCCCc----
Q 038724          347 LNLSYNR-FLT-KLPSGISKLV-------SLQHLDISFTSTLELPE--ELKALEKLKYLDMDDHQQVMEEGNCQSD----  411 (483)
Q Consensus       347 L~l~~n~-~~~-~~p~~~~~l~-------~L~~L~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~p~~~~l~----  411 (483)
                      |++++|+ +.+ .+|..++.++       +|++|++++|.+..+|.  .++++++|+.|++++|.+..+|.++.++    
T Consensus       520 L~Ls~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp~~~~L~~L~~  599 (876)
T 4ecn_A          520 LNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTD  599 (876)
T ss_dssp             EECTTCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTSCCCBCCCCCTTSEESE
T ss_pred             EECcCCCCcccccchHHHHhhhhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCCCcccchhhcCCCcceE
Confidence            9999998 666 7888887776       99999999999999999  8999999999999999987557544332    


Q ss_pred             ------cchhhHhhhccccc-cccceeeccCccccCC----C--CCcccccceeeeee
Q 038724          412 ------DAESLLKEMLCLEQ-LNIIRLTSCSLCSLCG----L--PTVQCLTSRRLNLE  456 (483)
Q Consensus       412 ------~~~~~~~~l~~l~~-L~~L~l~~~~l~~l~~----l--~~l~~l~l~~~~~~  456 (483)
                            .....|..+..+++ |+.|++++|.+..+..    +  ++|+.|++++|.+.
T Consensus       600 L~Ls~N~l~~lp~~l~~l~~~L~~L~Ls~N~L~~lp~~~~~~~~~~L~~L~Ls~N~l~  657 (876)
T 4ecn_A          600 LKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIG  657 (876)
T ss_dssp             EECCSSCCSCCCTTSCEECTTCCEEECCSSCCCSCCSCCCTTCSSCEEEEECCSSCTT
T ss_pred             EECcCCccccchHHHhhccccCCEEECcCCCCCcCchhhhccccCCCCEEECcCCcCC
Confidence                  11245566777777 8888888877654422    2  23666666666654

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.55  E-value=3e-14  Score=136.19  Aligned_cols=171  Identities=19%  Similarity=0.202  Sum_probs=100.8

Q ss_pred             hcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc
Q 038724          284 LRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG  361 (483)
Q Consensus       284 l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~  361 (483)
                      +..+.+..+..+++|+.|++++|.++.+.+.  ..+++|++|++++|.+..++...+   ++|++|++++|.+....+..
T Consensus        66 i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~---~~L~~L~l~~n~i~~~~~~~  142 (332)
T 2ft3_A           66 ISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLP---SSLVELRIHDNRIRKVPKGV  142 (332)
T ss_dssp             CCEECTTTTTTCTTCCEEECCSSCCCEECGGGSTTCTTCCEEECCSSCCCSCCSSCC---TTCCEEECCSSCCCCCCSGG
T ss_pred             CCccCHhHhhCCCCCcEEECCCCccCccCHhHhhCcCCCCEEECCCCcCCccCcccc---ccCCEEECCCCccCccCHhH
Confidence            3334444455556666666666666655332  455666666666666665555432   55666666666543333334


Q ss_pred             cccCcCCCEEeccCCCCCc---cCccccCCcCCCEEecCCCCCcCCCC-C-CCCc--------cchhhHhhhcccccccc
Q 038724          362 ISKLVSLQHLDISFTSTLE---LPEELKALEKLKYLDMDDHQQVMEEG-N-CQSD--------DAESLLKEMLCLEQLNI  428 (483)
Q Consensus       362 ~~~l~~L~~L~l~~~~i~~---lp~~~~~l~~L~~L~l~~n~~~~~p~-~-~~l~--------~~~~~~~~l~~l~~L~~  428 (483)
                      +..+++|++|++++|.+..   .|..+..+ +|+.|++++|.+..+|. + ..++        .....+..+..+++|+.
T Consensus       143 ~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~  221 (332)
T 2ft3_A          143 FSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYR  221 (332)
T ss_dssp             GSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSC
T ss_pred             hCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCE
Confidence            6666666666666666542   23335555 66666666666655543 1 1121        22223356778888888


Q ss_pred             ceeeccCccc-----cCCCCCcccccceeeeeeee
Q 038724          429 IRLTSCSLCS-----LCGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       429 L~l~~~~l~~-----l~~l~~l~~l~l~~~~~~~~  458 (483)
                      |++++|.+..     +..+++|+.|++++|.+...
T Consensus       222 L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~l  256 (332)
T 2ft3_A          222 LGLGHNQIRMIENGSLSFLPTLRELHLDNNKLSRV  256 (332)
T ss_dssp             CBCCSSCCCCCCTTGGGGCTTCCEEECCSSCCCBC
T ss_pred             EECCCCcCCcCChhHhhCCCCCCEEECCCCcCeec
Confidence            8888887643     55678888888888877744

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.54  E-value=1.8e-14  Score=136.37  Aligned_cols=107  Identities=21%  Similarity=0.242  Sum_probs=59.6

Q ss_pred             ccceEEEEccccccccc-cCC---CCCCcccEEEecCCccccccchhhhcC-----CCccEEEccCCccCccCCcccccC
Q 038724          295 WLGLRRMSLMNNQIKTL-LNT---PSCPHLLTLFLNDNYLQDIKNGFFQFM-----PCLKVLNLSYNRFLTKLPSGISKL  365 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~-~~~---~~~~~L~~L~l~~n~~~~~~~~~~~~l-----~~L~~L~l~~n~~~~~~p~~~~~l  365 (483)
                      +++++.|++++|.+++. +..   ..+++|++|++++|.+...+ ..+..+     ++|++|++++|++.+..|..++.+
T Consensus        94 l~~L~~L~L~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~-~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l  172 (312)
T 1wwl_A           94 ISGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRD-AWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVF  172 (312)
T ss_dssp             TSCCCEEEEEEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSS-SHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCC
T ss_pred             cCCccEEEccCCcccchhHHHHHHhcCCCccEEEccCCCCcchh-HHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccC
Confidence            45566666666666532 221   34566666666666666553 334444     566666666665544444566666


Q ss_pred             cCCCEEeccCCCCCc---cCccc--cCCcCCCEEecCCCCCc
Q 038724          366 VSLQHLDISFTSTLE---LPEEL--KALEKLKYLDMDDHQQV  402 (483)
Q Consensus       366 ~~L~~L~l~~~~i~~---lp~~~--~~l~~L~~L~l~~n~~~  402 (483)
                      ++|++|++++|.+..   +|..+  ..+++|++|++++|.+.
T Consensus       173 ~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~  214 (312)
T 1wwl_A          173 PALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGME  214 (312)
T ss_dssp             SSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCC
T ss_pred             CCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCc
Confidence            666666666665322   23333  55666666666666544

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

Probab=99.53  E-value=2.2e-14  Score=147.24  Aligned_cols=148  Identities=22%  Similarity=0.301  Sum_probs=130.2

Q ss_pred             ccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..+..|+.|++++|.++.++....+++|+.|+|++|.+..+++  +..+++|+.|+|++|. +..+| .+..+++|++|+
T Consensus        40 ~~L~~L~~L~l~~n~i~~l~~l~~l~~L~~L~Ls~N~l~~~~~--l~~l~~L~~L~Ls~N~-l~~l~-~l~~l~~L~~L~  115 (605)
T 1m9s_A           40 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LTNLKNLGWLFLDENK-IKDLS-SLKDLKKLKSLS  115 (605)
T ss_dssp             HHHTTCCCCBCTTCCCCCCTTGGGCTTCCEEECTTSCCCCCGG--GGGCTTCCEEECCSSC-CCCCT-TSTTCTTCCEEE
T ss_pred             hcCCCCCEEECcCCCCCCChHHccCCCCCEEEeeCCCCCCChh--hccCCCCCEEECcCCC-CCCCh-hhccCCCCCEEE
Confidence            4577899999999999999877889999999999999999887  8899999999999997 45555 799999999999


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCccccc
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCLT  449 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l~  449 (483)
                      |++|.+..+| .+..+++|+.|+|++|.+..+             ..+..+++|+.|+|++|.+..   +..+++|+.|+
T Consensus       116 Ls~N~l~~l~-~l~~l~~L~~L~Ls~N~l~~l-------------~~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~  181 (605)
T 1m9s_A          116 LEHNGISDIN-GLVHLPQLESLYLGNNKITDI-------------TVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLY  181 (605)
T ss_dssp             CTTSCCCCCG-GGGGCTTCSEEECCSSCCCCC-------------GGGGSCTTCSEEECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             ecCCCCCCCc-cccCCCccCEEECCCCccCCc-------------hhhcccCCCCEEECcCCcCCCchhhccCCCCCEEE
Confidence            9999999885 589999999999999986532             467889999999999998744   67889999999


Q ss_pred             ceeeeeeee
Q 038724          450 SRRLNLEVE  458 (483)
Q Consensus       450 l~~~~~~~~  458 (483)
                      +++|.+...
T Consensus       182 Ls~N~i~~l  190 (605)
T 1m9s_A          182 LSKNHISDL  190 (605)
T ss_dssp             CCSSCCCBC
T ss_pred             CcCCCCCCC
Confidence            999988764

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.53  E-value=1.3e-14  Score=145.82  Aligned_cols=122  Identities=21%  Similarity=0.190  Sum_probs=63.3

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccch----------------hhhcCCCcc
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNG----------------FFQFMPCLK  345 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~----------------~~~~l~~L~  345 (483)
                      +.+.+..+..+..+++|+.|++++|.++..++...+++|++|+|++|.+..+++.                ....+++|+
T Consensus        44 n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~~~~~L~~L~L~~N~l~~~~~~~l~~L~  123 (487)
T 3oja_A           44 NPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGKK  123 (487)
T ss_dssp             SCCCCCCGGGGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEEEEEECTTCCEEECCSSCCCCEEECCCSSCE
T ss_pred             CcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCCCCCCCCCcCEEECcCCcCCCCCccccCCCC
Confidence            3444444455555666666666666666555555555666666655555443321                001234455


Q ss_pred             EEEccCCccCccCCcccccCcCCCEEeccCCCCCcc-Ccccc-CCcCCCEEecCCCCCcC
Q 038724          346 VLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLEL-PEELK-ALEKLKYLDMDDHQQVM  403 (483)
Q Consensus       346 ~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~l-p~~~~-~l~~L~~L~l~~n~~~~  403 (483)
                      +|++++|.+.+..|..++.+++|++|++++|.+..+ |..+. .+++|++|+|++|.+..
T Consensus       124 ~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~l~~  183 (487)
T 3oja_A          124 NIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYD  183 (487)
T ss_dssp             EEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCE
T ss_pred             EEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCcccc
Confidence            555555554444444555555555555555554442 22332 45555555555555443

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.53  E-value=6e-15  Score=139.65  Aligned_cols=188  Identities=19%  Similarity=0.109  Sum_probs=140.1

Q ss_pred             hhhhhcccCcccc--ccccceEEEEccccccccccCC-CC-----CCcccEEEecCCccccccchhhhcCCCccEEEccC
Q 038724          280 ILEKLRDVVPSDA--LKWLGLRRMSLMNNQIKTLLNT-PS-----CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSY  351 (483)
Q Consensus       280 ~~~~l~~~~~~~~--~~~~~l~~l~l~~~~~~~~~~~-~~-----~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~  351 (483)
                      ..+.+.+..+..+  ..+++|+.|++++|.++..+.. ..     +++|++|++++|.+..+++..+..+++|++|++++
T Consensus       103 ~~n~l~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~  182 (312)
T 1wwl_A          103 ENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSD  182 (312)
T ss_dssp             EEEBCBSCCCCCSSSCCSCCCSEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCS
T ss_pred             cCCcccchhHHHHHHhcCCCccEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCC
Confidence            3445555556554  7789999999999999988432 12     38999999999999999988899999999999999


Q ss_pred             CccCcc--CCccc--ccCcCCCEEeccCCCCCccC---cc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccc
Q 038724          352 NRFLTK--LPSGI--SKLVSLQHLDISFTSTLELP---EE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCL  423 (483)
Q Consensus       352 n~~~~~--~p~~~--~~l~~L~~L~l~~~~i~~lp---~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l  423 (483)
                      |++.+.  .|..+  +.+++|++|++++|.+..+|   .. +..+++|+.|++++|.+...+.          ...+..+
T Consensus       183 N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~----------~~~~~~l  252 (312)
T 1wwl_A          183 NPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAG----------APSCDWP  252 (312)
T ss_dssp             CTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCC----------CSCCCCC
T ss_pred             CCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccc----------hhhhhhc
Confidence            986654  34455  88999999999999998554   33 4678999999999999775421          1234557


Q ss_pred             cccccceeeccCccccCC-C-CCcccccceeeeeeeeecccccCccc-eeecCCccccc
Q 038724          424 EQLNIIRLTSCSLCSLCG-L-PTVQCLTSRRLNLEVEDWHKCTGEVH-KVLQSGGSEIF  479 (483)
Q Consensus       424 ~~L~~L~l~~~~l~~l~~-l-~~l~~l~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  479 (483)
                      ++|+.|++++|.+..+.. + ++|+.|++++|++...+.  ...... ..+++.++.+.
T Consensus       253 ~~L~~L~Ls~N~l~~ip~~~~~~L~~L~Ls~N~l~~~p~--~~~l~~L~~L~L~~N~l~  309 (312)
T 1wwl_A          253 SQLNSLNLSFTGLKQVPKGLPAKLSVLDLSYNRLDRNPS--PDELPQVGNLSLKGNPFL  309 (312)
T ss_dssp             TTCCEEECTTSCCSSCCSSCCSEEEEEECCSSCCCSCCC--TTTSCEEEEEECTTCTTT
T ss_pred             CCCCEEECCCCccChhhhhccCCceEEECCCCCCCCChh--HhhCCCCCEEeccCCCCC
Confidence            899999999998865532 1 578889998888876532  222222 55666665543

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

Probab=99.53  E-value=5e-15  Score=154.02  Aligned_cols=140  Identities=16%  Similarity=0.191  Sum_probs=106.1

Q ss_pred             CCCCcccEEEecCCcccc------------------ccchhhh--cCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          315 PSCPHLLTLFLNDNYLQD------------------IKNGFFQ--FMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       315 ~~~~~L~~L~l~~n~~~~------------------~~~~~~~--~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      ..+++|++|+|++|.+++                  +|+. +.  .+++|++|++++|++.+.+|..++.+++|++|+++
T Consensus       203 ~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~-l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls  281 (636)
T 4eco_A          203 MRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTED-LKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVA  281 (636)
T ss_dssp             GGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSC-CCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECT
T ss_pred             hcccCCCEEECcCCccccccccccccccccchhcccCchh-hhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECc
Confidence            568899999999999988                  5555 66  89999999999998889999999999999999999


Q ss_pred             CCC-CC--ccCccccCC------cCCCEEecCCCCCcCCCC---CCCCc-----------cchhhHhhhcccccccccee
Q 038724          375 FTS-TL--ELPEELKAL------EKLKYLDMDDHQQVMEEG---NCQSD-----------DAESLLKEMLCLEQLNIIRL  431 (483)
Q Consensus       375 ~~~-i~--~lp~~~~~l------~~L~~L~l~~n~~~~~p~---~~~l~-----------~~~~~~~~l~~l~~L~~L~l  431 (483)
                      +|. +.  .+|..++.+      ++|++|++++|.+..+|.   ++.+.           .....| .+..+++|+.|++
T Consensus       282 ~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~~~l~~L~~L~L  360 (636)
T 4eco_A          282 CNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLP-AFGSEIKLASLNL  360 (636)
T ss_dssp             TCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCSSCCCHHHHTTCTTCCEEECCSCCCEEECC-CCEEEEEESEEEC
T ss_pred             CCCCCccccchHHHHhhhccccCCCCCEEECCCCcCCccCchhhhccCCCCCEEeCcCCcCccchh-hhCCCCCCCEEEC
Confidence            998 77  488888776      899999999999876554   33332           111333 5666677777777


Q ss_pred             eccCccc----cCCCCC-cccccceeeeee
Q 038724          432 TSCSLCS----LCGLPT-VQCLTSRRLNLE  456 (483)
Q Consensus       432 ~~~~l~~----l~~l~~-l~~l~l~~~~~~  456 (483)
                      ++|.+..    +..++. |+.|++++|.+.
T Consensus       361 ~~N~l~~lp~~l~~l~~~L~~L~Ls~N~l~  390 (636)
T 4eco_A          361 AYNQITEIPANFCGFTEQVENLSFAHNKLK  390 (636)
T ss_dssp             CSSEEEECCTTSEEECTTCCEEECCSSCCS
T ss_pred             CCCccccccHhhhhhcccCcEEEccCCcCc
Confidence            7776543    344555 677777766665

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.53  E-value=5.9e-14  Score=122.76  Aligned_cols=132  Identities=18%  Similarity=0.249  Sum_probs=111.1

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      +.+++++|.++.+|.. ..++|++|++++|.++.++. .|..+++|++|++++|.+....|..|..+++|++|++++|.+
T Consensus        13 ~~l~~~~~~l~~ip~~-~~~~l~~L~L~~n~i~~ip~-~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l   90 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKG-IPRDVTELYLDGNQFTLVPK-ELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL   90 (193)
T ss_dssp             TEEECTTSCCSSCCSC-CCTTCCEEECCSSCCCSCCG-GGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEcCCCCCCcCCCC-CCCCCCEEECCCCcCchhHH-HhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCcc
Confidence            4688999999988753 34789999999999998874 589999999999999987666667899999999999999999


Q ss_pred             CccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCCCC
Q 038724          379 LELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLP  443 (483)
Q Consensus       379 ~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~l~  443 (483)
                      ..+|+. +..+++|++|+|++|.+..+|.           ..+..+++|+.|++++|++.+-+.+.
T Consensus        91 ~~i~~~~f~~l~~L~~L~L~~N~l~~~~~-----------~~~~~l~~L~~L~L~~N~~~C~c~l~  145 (193)
T 2wfh_A           91 RCIPPRTFDGLKSLRLLSLHGNDISVVPE-----------GAFNDLSALSHLAIGANPLYCDCNMQ  145 (193)
T ss_dssp             CBCCTTTTTTCTTCCEEECCSSCCCBCCT-----------TTTTTCTTCCEEECCSSCEECSGGGH
T ss_pred             CEeCHHHhCCCCCCCEEECCCCCCCeeCh-----------hhhhcCccccEEEeCCCCeecCCcCH
Confidence            998874 8999999999999999765532           24677899999999999987655544

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.52  E-value=1.7e-14  Score=148.49  Aligned_cols=154  Identities=23%  Similarity=0.198  Sum_probs=114.2

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      +.++.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|++....|..++.+++|++|++
T Consensus        28 ~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L  107 (570)
T 2z63_A           28 FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA  107 (570)
T ss_dssp             SSCCEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEEC
T ss_pred             ccccEEEccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccccccc
Confidence            4678888888888877653  57888888888888888888777888888888888888766666678888888888888


Q ss_pred             cCCCCCccCc-cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc-----CCCCCc--
Q 038724          374 SFTSTLELPE-ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL-----CGLPTV--  445 (483)
Q Consensus       374 ~~~~i~~lp~-~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l-----~~l~~l--  445 (483)
                      ++|.+..+|. .++.+++|++|++++|.+...          ..|..+..+++|+.|++++|.+..+     ..+++|  
T Consensus       108 ~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~----------~lp~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  177 (570)
T 2z63_A          108 VETNLASLENFPIGHLKTLKELNVAHNLIQSF----------KLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPL  177 (570)
T ss_dssp             TTSCCCCSTTCSCTTCTTCCEEECCSSCCCCC----------CCCGGGGGCTTCCEEECTTSCCCEECGGGGHHHHTCTT
T ss_pred             cccccccCCCccccccccccEEecCCCcccee----------cChhhhcccCCCCEEeCcCCccceecHHHccchhccch
Confidence            8888888876 488888888888888876531          2345677788888888888876432     233333  


Q ss_pred             --ccccceeeeeeeee
Q 038724          446 --QCLTSRRLNLEVED  459 (483)
Q Consensus       446 --~~l~l~~~~~~~~~  459 (483)
                        ..++++++.+....
T Consensus       178 ~~~~L~l~~n~l~~~~  193 (570)
T 2z63_A          178 LNLSLDLSLNPMNFIQ  193 (570)
T ss_dssp             CCCEEECTTCCCCEEC
T ss_pred             hhhhcccCCCCceecC
Confidence              45566665555443

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.52  E-value=2.1e-14  Score=146.12  Aligned_cols=144  Identities=17%  Similarity=0.119  Sum_probs=98.1

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      +.+++++|.++.+|.... ++|++|++++|.+..+++..|..+++|++|++++|++.+..|..++.+++|++|++++|.+
T Consensus         3 ~~l~ls~n~l~~ip~~~~-~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l   81 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS-QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKL   81 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC-TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSCC
T ss_pred             ceEecCCCCccccccccc-ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCce
Confidence            357777777777665332 6777778877777777766677777788888877776555577777777788888877777


Q ss_pred             CccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc--cCCCCCc--ccccceeee
Q 038724          379 LELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS--LCGLPTV--QCLTSRRLN  454 (483)
Q Consensus       379 ~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~--l~~l~~l--~~l~l~~~~  454 (483)
                      ..+|..  .+++|++|++++|.+...          ..|..++.+++|+.|++++|.+..  +..++.|  +.|+++++.
T Consensus        82 ~~lp~~--~l~~L~~L~L~~N~l~~~----------~~p~~~~~l~~L~~L~L~~n~l~~~~~~~l~~L~L~~L~l~~n~  149 (520)
T 2z7x_B           82 VKISCH--PTVNLKHLDLSFNAFDAL----------PICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVLLVLGE  149 (520)
T ss_dssp             CEEECC--CCCCCSEEECCSSCCSSC----------CCCGGGGGCTTCCEEEEEESSCCGGGGGGGTTSCEEEEEEEECT
T ss_pred             eecCcc--ccCCccEEeccCCccccc----------cchhhhccCCcceEEEecCcccchhhccccccceeeEEEeeccc
Confidence            777765  677777888877775431          233456677777777777776632  3444444  555555554


Q ss_pred             e
Q 038724          455 L  455 (483)
Q Consensus       455 ~  455 (483)
                      +
T Consensus       150 l  150 (520)
T 2z7x_B          150 T  150 (520)
T ss_dssp             T
T ss_pred             c
Confidence            4

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.52  E-value=8.3e-14  Score=132.96  Aligned_cols=114  Identities=15%  Similarity=0.200  Sum_probs=70.1

Q ss_pred             cccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCC
Q 038724          290 SDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQ  369 (483)
Q Consensus       290 ~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~  369 (483)
                      ..+..+++|+.|++++|.++.++... .++|++|++++|.+..+++..+..+++|++|++++|.+.+..|..+..+++|+
T Consensus       165 ~~~~~l~~L~~L~l~~n~l~~l~~~~-~~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~  243 (330)
T 1xku_A          165 GAFQGMKKLSYIRIADTNITTIPQGL-PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLR  243 (330)
T ss_dssp             TGGGGCTTCCEEECCSSCCCSCCSSC-CTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCC
T ss_pred             hhccCCCCcCEEECCCCccccCCccc-cccCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCceeChhhccCCCCCC
Confidence            34445566666666666666554332 25666666666666666555566666666666666654444444566666666


Q ss_pred             EEeccCCCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          370 HLDISFTSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       370 ~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      +|++++|.+..+|..+..+++|+.|++++|.+..+
T Consensus       244 ~L~L~~N~l~~lp~~l~~l~~L~~L~l~~N~i~~~  278 (330)
T 1xku_A          244 ELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAI  278 (330)
T ss_dssp             EEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCC
T ss_pred             EEECCCCcCccCChhhccCCCcCEEECCCCcCCcc
Confidence            66666666666666666666666666666665554

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

Probab=99.52  E-value=8.8e-14  Score=133.74  Aligned_cols=109  Identities=20%  Similarity=0.278  Sum_probs=60.9

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++|+.|++++|.++.++....+++|++|++++|.+..+++  +..+++|++|++++|.....++ .+..+++|++|
T Consensus        84 ~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~l~~n~~~~~~~-~~~~l~~L~~L  160 (347)
T 4fmz_A           84 LSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNEDNISDISP--LANLTKMYSLNLGANHNLSDLS-PLSNMTGLNYL  160 (347)
T ss_dssp             GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECTTSCCCCCGG--GTTCTTCCEEECTTCTTCCCCG-GGTTCTTCCEE
T ss_pred             hhcCCcCCEEEccCCcccCchHHcCCCcCCEEECcCCcccCchh--hccCCceeEEECCCCCCccccc-chhhCCCCcEE
Confidence            34455566666666666655544556666666666666655544  5555666666666654333333 35555555555


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      ++++|.+..++. +..+++|+.|++++|.+...
T Consensus       161 ~l~~~~~~~~~~-~~~l~~L~~L~l~~n~l~~~  192 (347)
T 4fmz_A          161 TVTESKVKDVTP-IANLTDLYSLSLNYNQIEDI  192 (347)
T ss_dssp             ECCSSCCCCCGG-GGGCTTCSEEECTTSCCCCC
T ss_pred             EecCCCcCCchh-hccCCCCCEEEccCCccccc
Confidence            555555555543 55555555555555554443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.52  E-value=1.7e-14  Score=136.44  Aligned_cols=170  Identities=18%  Similarity=0.081  Sum_probs=124.8

Q ss_pred             hhhhhhcccCcccc--ccccceEEEEccccccccccC------CCCCCcccEEEecCCccccccchhhhcCCCccEEEcc
Q 038724          279 DILEKLRDVVPSDA--LKWLGLRRMSLMNNQIKTLLN------TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS  350 (483)
Q Consensus       279 ~~~~~l~~~~~~~~--~~~~~l~~l~l~~~~~~~~~~------~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~  350 (483)
                      ...+.+.+..+..+  ..+++|+.|++++|.++...+      ...+++|++|++++|.+...++..+..+++|++|+++
T Consensus        98 l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls  177 (310)
T 4glp_A           98 LEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLS  177 (310)
T ss_dssp             EESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECC
T ss_pred             eeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECC
Confidence            34455566666555  677888899999998886432      1357899999999999988888778889999999999


Q ss_pred             CCccCcc--C--CcccccCcCCCEEeccCCCCCccCcc----ccCCcCCCEEecCCCCCcCC-CC-CCCCccchhhHhhh
Q 038724          351 YNRFLTK--L--PSGISKLVSLQHLDISFTSTLELPEE----LKALEKLKYLDMDDHQQVME-EG-NCQSDDAESLLKEM  420 (483)
Q Consensus       351 ~n~~~~~--~--p~~~~~l~~L~~L~l~~~~i~~lp~~----~~~l~~L~~L~l~~n~~~~~-p~-~~~l~~~~~~~~~l  420 (483)
                      +|++.+.  +  +..++.+++|++|++++|.+..+|..    +..+++|++|++++|.+... |. +          ..+
T Consensus       178 ~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~----------~~~  247 (310)
T 4glp_A          178 DNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSA----------PRC  247 (310)
T ss_dssp             SCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCC----------SSC
T ss_pred             CCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCCCCccchhhH----------Hhc
Confidence            9975542  2  22346788899999999998877653    46778999999999987655 43 1          112


Q ss_pred             ccccccccceeeccCccccCC--CCCcccccceeeeeeee
Q 038724          421 LCLEQLNIIRLTSCSLCSLCG--LPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       421 ~~l~~L~~L~l~~~~l~~l~~--l~~l~~l~l~~~~~~~~  458 (483)
                      ..+++|+.|++++|.+..+..  .++|+.|++++|++...
T Consensus       248 ~~~~~L~~L~Ls~N~l~~lp~~~~~~L~~L~Ls~N~l~~~  287 (310)
T 4glp_A          248 MWSSALNSLNLSFAGLEQVPKGLPAKLRVLDLSSNRLNRA  287 (310)
T ss_dssp             CCCTTCCCEECCSSCCCSCCSCCCSCCSCEECCSCCCCSC
T ss_pred             cCcCcCCEEECCCCCCCchhhhhcCCCCEEECCCCcCCCC
Confidence            223689999999998866532  36888888888888753

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.52  E-value=3.3e-14  Score=147.41  Aligned_cols=146  Identities=18%  Similarity=0.096  Sum_probs=80.9

Q ss_pred             ccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccc-hhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKN-GFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~-~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      ..+++++.|++++|.++.++.. ..+++|+.|++++|.+...++ ..+..+++|++|++++|.+.+..|..++.+++|++
T Consensus       373 ~~~~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~  452 (606)
T 3vq2_A          373 LGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNT  452 (606)
T ss_dssp             HCCSCCCEEECCSCSEEEECCCCTTCTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCE
T ss_pred             ccCCcccEeECCCCccccchhhccCCCCCCeeECCCCccCCccChhhhhccccCCEEECcCCCCCccchhhhcCCCCCCE
Confidence            3445555566666555554422 345566666666666555544 34555666666666666555555555666666666


Q ss_pred             EeccCCCCCc--cCccccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccccccceeeccC
Q 038724          371 LDISFTSTLE--LPEELKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCS  435 (483)
Q Consensus       371 L~l~~~~i~~--lp~~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~  435 (483)
                      |++++|.+..  +|..+..+++|+.|++++|.+... |. +..++           .....+..+..+++|+.|++++|+
T Consensus       453 L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~l~~N~  532 (606)
T 3vq2_A          453 LKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFNR  532 (606)
T ss_dssp             EECTTCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSCEEGGGTTTCTTCCEEECTTSC
T ss_pred             EECCCCcCCCcchHHhhccCCCCCEEECCCCcCCccChhhhcccccCCEEECCCCcCCCcCHHHccCCCcCCEEECCCCc
Confidence            6666666443  455556666666666666655444 22 22111           112234556666667777777776


Q ss_pred             ccc
Q 038724          436 LCS  438 (483)
Q Consensus       436 l~~  438 (483)
                      +..
T Consensus       533 l~~  535 (606)
T 3vq2_A          533 IET  535 (606)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            644

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.51  E-value=3e-14  Score=122.82  Aligned_cols=133  Identities=20%  Similarity=0.260  Sum_probs=99.9

Q ss_pred             ccccceEEEEccccccccccCCCCCC-cccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc-cccCcCCCE
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNTPSCP-HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG-ISKLVSLQH  370 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~~~~~-~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~-~~~l~~L~~  370 (483)
                      ....+++.|++++|.++.++....+. +|++|++++|.++.+ + .+..+++|++|++++|.+. .+|.. +..+++|++
T Consensus        16 ~~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~-~-~l~~l~~L~~L~Ls~N~l~-~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           16 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKL-D-GFPLLRRLKTLLVNNNRIC-RIGEGLDQALPDLTE   92 (176)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEE-C-CCCCCSSCCEEECCSSCCC-EECSCHHHHCTTCCE
T ss_pred             CCcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcc-c-ccccCCCCCEEECCCCccc-ccCcchhhcCCCCCE
Confidence            34667888899988888776554444 888999998888877 2 3788888899999888744 44544 488888999


Q ss_pred             EeccCCCCCccCc--cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc
Q 038724          371 LDISFTSTLELPE--ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       371 L~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                      |++++|.++.+|.  .+..+++|++|++++|.+...|.        .....+..+++|+.|++++|..
T Consensus        93 L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~--------~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKH--------YRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             EECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTT--------HHHHHHHHCTTCSEETTEECCH
T ss_pred             EECCCCcCCcchhhHhhhcCCCCCEEEecCCCCCCcHh--------HHHHHHHHCCccceeCCCcCCH
Confidence            9998888888887  68888888999998888653322        1112367788888888888875

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.51  E-value=6.1e-14  Score=146.08  Aligned_cols=149  Identities=17%  Similarity=0.093  Sum_probs=124.0

Q ss_pred             EEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCc
Q 038724          301 MSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLE  380 (483)
Q Consensus       301 l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~  380 (483)
                      .+-++..++.+|..- -+++++|+|++|.++.+++..|..+++|++|+|++|.+.+..|..|.++++|++|+|++|++..
T Consensus        36 ~~c~~~~l~~vP~~l-p~~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~  114 (635)
T 4g8a_A           36 YQCMELNFYKIPDNL-PFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQS  114 (635)
T ss_dssp             EECTTSCCSSCCSSS-CTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCE
T ss_pred             EECCCCCcCccCCCC-CcCCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCC
Confidence            455556677776531 2589999999999999999889999999999999998666566779999999999999999999


Q ss_pred             cCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc------cCCCCCcccccceee
Q 038724          381 LPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS------LCGLPTVQCLTSRRL  453 (483)
Q Consensus       381 lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~------l~~l~~l~~l~l~~~  453 (483)
                      +|.. |.++++|++|++++|++..+|.           ..++.+++|+.|++++|.+..      +..++.|+.|++++|
T Consensus       115 l~~~~f~~L~~L~~L~Ls~N~l~~l~~-----------~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N  183 (635)
T 4g8a_A          115 LALGAFSGLSSLQKLVAVETNLASLEN-----------FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN  183 (635)
T ss_dssp             ECGGGGTTCTTCCEEECTTSCCCCSTT-----------CCCTTCTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECCSS
T ss_pred             CCHHHhcCCCCCCEEECCCCcCCCCCh-----------hhhhcCcccCeeccccCccccCCCchhhccchhhhhhcccCc
Confidence            9976 7999999999999999775532           247889999999999998743      456889999999998


Q ss_pred             eeeeeecc
Q 038724          454 NLEVEDWH  461 (483)
Q Consensus       454 ~~~~~~~~  461 (483)
                      .+......
T Consensus       184 ~l~~~~~~  191 (635)
T 4g8a_A          184 KIQSIYCT  191 (635)
T ss_dssp             CCCEECGG
T ss_pred             cccccccc
Confidence            88765433

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.50  E-value=2e-14  Score=147.27  Aligned_cols=162  Identities=20%  Similarity=0.213  Sum_probs=99.1

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      +.++.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|.+.+..|..++.+++|++|++
T Consensus        26 ~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L  105 (549)
T 2z81_A           26 AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL  105 (549)
T ss_dssp             TTCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEEC
T ss_pred             CCccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEEC
Confidence            4677777777777766543  56777777777777777777666777777777777777654444445777777777777


Q ss_pred             cCCCCCcc--CccccCCcCCCEEecCCCCCcCC-CC--CCCCc-----------cchhhHhhhccccccccceeeccCcc
Q 038724          374 SFTSTLEL--PEELKALEKLKYLDMDDHQQVME-EG--NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCSLC  437 (483)
Q Consensus       374 ~~~~i~~l--p~~~~~l~~L~~L~l~~n~~~~~-p~--~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~l~  437 (483)
                      ++|.+..+  |..++++++|++|++++|..... |.  +..++           .....+..+..+++|+.|++++|.+.
T Consensus       106 s~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~~~  185 (549)
T 2z81_A          106 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESA  185 (549)
T ss_dssp             TTCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSBST
T ss_pred             CCCcccccchhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCccc
Confidence            77776643  45577777777777777763322 21  22111           11223344555556666666655542


Q ss_pred             cc-----CCCCCcccccceeeeeee
Q 038724          438 SL-----CGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       438 ~l-----~~l~~l~~l~l~~~~~~~  457 (483)
                      .+     ..+++|+.|++++|++..
T Consensus       186 ~~~~~~~~~l~~L~~L~L~~n~l~~  210 (549)
T 2z81_A          186 FLLEIFADILSSVRYLELRDTNLAR  210 (549)
T ss_dssp             THHHHHHHSTTTBSEEEEESCBCTT
T ss_pred             ccchhhHhhcccccEEEccCCcccc
Confidence            21     235666667666666654

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.50  E-value=3.4e-14  Score=118.88  Aligned_cols=128  Identities=26%  Similarity=0.163  Sum_probs=92.9

Q ss_pred             ccceEEEEccccccc--cccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          295 WLGLRRMSLMNNQIK--TLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~--~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      .++++.|++++|.++  .++.. ..+++|++|++++|.+..+  ..+..+++|++|++++|.+.+.+|..+..+++|++|
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L   93 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHL   93 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEE
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEE
Confidence            356778888888887  55544 5678888888888888777  347778888888888887655577777778888888


Q ss_pred             eccCCCCCccC--ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceee
Q 038724          372 DISFTSTLELP--EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLT  432 (483)
Q Consensus       372 ~l~~~~i~~lp--~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~  432 (483)
                      ++++|.+..+|  ..+..+++|++|++++|.+...|.        .....+..+++|+.|+++
T Consensus        94 ~ls~N~i~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~--------~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           94 NLSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLND--------YRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             ECTTSCCCSHHHHGGGGGCTTCCEEECTTCGGGGSTT--------HHHHHHHHCTTCCEETTB
T ss_pred             ECCCCcCCChHHHHHHhhCCCCCEEeCcCCcccchHH--------HHHHHHHHCCCcccccCC
Confidence            88888887765  567888888888888887553321        112356677777777765

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

Probab=99.50  E-value=8.4e-14  Score=144.38  Aligned_cols=176  Identities=20%  Similarity=0.219  Sum_probs=91.7

Q ss_pred             cccccceEEEEcccccccccc--C--CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcc-cccCc
Q 038724          292 ALKWLGLRRMSLMNNQIKTLL--N--TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSG-ISKLV  366 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~--~--~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~-~~~l~  366 (483)
                      +..+++++.|++++|.++...  +  ...+++|++|++++|.+...++..+..+++|++|++++|.+.+..|.. +..++
T Consensus       346 ~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~  425 (606)
T 3t6q_A          346 LENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLH  425 (606)
T ss_dssp             TTTCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCSCEEECTTTTTTCTTCSEEECTTCCEECCTTCCTTTTCT
T ss_pred             hhccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCcCCcCCHHHhcCCccCCeEECCCCcCCCcccchhhhCcc
Confidence            334455555555555555443  1  234555555555555555555555555555666666555544443322 55555


Q ss_pred             CCCEEeccCCCCCcc-CccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcc-----ccC
Q 038724          367 SLQHLDISFTSTLEL-PEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC-----SLC  440 (483)
Q Consensus       367 ~L~~L~l~~~~i~~l-p~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~-----~l~  440 (483)
                      +|++|++++|.+... |..+..+++|+.|++++|.+...        ....+..+..+++|+.|++++|.+.     .+.
T Consensus       426 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~--------~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~  497 (606)
T 3t6q_A          426 LLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKG--------NIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFT  497 (606)
T ss_dssp             TCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGG--------EECSSCGGGGCTTCCEEECTTSCCCEECTTTTT
T ss_pred             cCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCcc--------ccccchhhccCCCccEEECCCCccCccChhhhc
Confidence            566666665554443 23355555666666666554321        0011134566667777777777653     245


Q ss_pred             CCCCcccccceeeeeeeeecccccCccceeecCCc
Q 038724          441 GLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQSGG  475 (483)
Q Consensus       441 ~l~~l~~l~l~~~~~~~~~~~~~~~~~~~~~~~~~  475 (483)
                      .+++|+.|++++|++.......+..+....+++.+
T Consensus       498 ~l~~L~~L~Ls~N~l~~~~~~~l~~l~~L~L~L~~  532 (606)
T 3t6q_A          498 SLKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLAS  532 (606)
T ss_dssp             TCTTCCEEECCSSCCCGGGGGGGTTCCSCEEECCS
T ss_pred             cccCCCEEECCCCccCcCChhHhCcccccEEECcC
Confidence            56666777776666655443333333333444444

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.50  E-value=4.1e-14  Score=144.88  Aligned_cols=177  Identities=22%  Similarity=0.201  Sum_probs=141.9

Q ss_pred             hhhhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc-c
Q 038724          281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT-K  357 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~-~  357 (483)
                      ...+.+..+..+..++++++|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|.+.+ .
T Consensus        35 ~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~  114 (549)
T 2z81_A           35 FNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLG  114 (549)
T ss_dssp             SSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSC
T ss_pred             CCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccc
Confidence            3445566666777889999999999999988763  678999999999999999999889999999999999998654 4


Q ss_pred             CCcccccCcCCCEEeccCCC-CCccCc-cccCCcCCCEEecCCCCCcCC-CC-CCCCc----------cchhhHhh-hcc
Q 038724          358 LPSGISKLVSLQHLDISFTS-TLELPE-ELKALEKLKYLDMDDHQQVME-EG-NCQSD----------DAESLLKE-MLC  422 (483)
Q Consensus       358 ~p~~~~~l~~L~~L~l~~~~-i~~lp~-~~~~l~~L~~L~l~~n~~~~~-p~-~~~l~----------~~~~~~~~-l~~  422 (483)
                      .|..++.+++|++|++++|. ++.+|. .+.++++|++|++++|.+... |. +..++          .....+.. +..
T Consensus       115 ~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~~~~~~~~~~~~  194 (549)
T 2z81_A          115 VTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADI  194 (549)
T ss_dssp             SSCSCTTCTTCCEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSBSTTHHHHHHHS
T ss_pred             hhhhhhccCCccEEECCCCccccccCHhhhhcccccCeeeccCCcccccChhhhhccccCceEecccCcccccchhhHhh
Confidence            57789999999999999998 888875 599999999999999998876 55 55443          11223333 356


Q ss_pred             ccccccceeeccCcccc--------CCCCCcccccceeeeeee
Q 038724          423 LEQLNIIRLTSCSLCSL--------CGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       423 l~~L~~L~l~~~~l~~l--------~~l~~l~~l~l~~~~~~~  457 (483)
                      +++|+.|++++|.+..+        ..++.|+.|+++++.+..
T Consensus       195 l~~L~~L~L~~n~l~~~~~~~~~~~~~~~~L~~L~l~~n~l~~  237 (549)
T 2z81_A          195 LSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTD  237 (549)
T ss_dssp             TTTBSEEEEESCBCTTCCCCCCSSCCCCCCCCEEEEESCEEEH
T ss_pred             cccccEEEccCCccccccccccchhhhhhcccceeccccccch
Confidence            89999999999987653        345677888877776653

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.50  E-value=6.7e-14  Score=143.69  Aligned_cols=145  Identities=19%  Similarity=0.212  Sum_probs=106.3

Q ss_pred             eEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       298 l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      .+.+++++|.++.+|... .++|++|++++|.+..+++..|..+++|++|++++|.+.+..|..+..+++|++|++++|.
T Consensus        33 ~~~l~ls~~~L~~ip~~~-~~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~  111 (562)
T 3a79_B           33 ESMVDYSNRNLTHVPKDL-PPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR  111 (562)
T ss_dssp             CCEEECTTSCCCSCCTTS-CTTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSC
T ss_pred             CcEEEcCCCCCccCCCCC-CCCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCc
Confidence            367888888888776532 3788888888888888877778888888888888887666667778888888888888888


Q ss_pred             CCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc--cCCCCCc--ccccceee
Q 038724          378 TLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS--LCGLPTV--QCLTSRRL  453 (483)
Q Consensus       378 i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~--l~~l~~l--~~l~l~~~  453 (483)
                      +..+|..  .+++|++|++++|.+...          ..+..+..+++|+.|++++|.+..  +..++.|  +.|+++.+
T Consensus       112 l~~lp~~--~l~~L~~L~Ls~N~l~~l----------~~p~~~~~l~~L~~L~L~~n~l~~~~~~~l~~L~L~~L~L~~n  179 (562)
T 3a79_B          112 LQNISCC--PMASLRHLDLSFNDFDVL----------PVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLV  179 (562)
T ss_dssp             CCEECSC--CCTTCSEEECCSSCCSBC----------CCCGGGGGCTTCCEEEEECSBCCTTTTGGGTTSCEEEEEEEES
T ss_pred             CCccCcc--ccccCCEEECCCCCcccc----------CchHhhcccCcccEEecCCCccccCchhhhhhceeeEEEeecc
Confidence            8888876  788888888888886532          123467778888888888887643  3333444  66666665


Q ss_pred             ee
Q 038724          454 NL  455 (483)
Q Consensus       454 ~~  455 (483)
                      .+
T Consensus       180 ~l  181 (562)
T 3a79_B          180 SY  181 (562)
T ss_dssp             SC
T ss_pred             cc
Confidence            54

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.49  E-value=2e-13  Score=117.73  Aligned_cols=128  Identities=22%  Similarity=0.198  Sum_probs=105.4

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      +.+++.++.++.++. ...++|+.|++++|.++.+++..+..+++|++|++++|++....+..+..+++|++|++++|.+
T Consensus        10 ~~l~~~~~~l~~~p~-~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l   88 (177)
T 2o6r_A           10 TEIRCNSKGLTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKL   88 (177)
T ss_dssp             TEEECCSSCCSSCCT-TCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CEEEecCCCCccCCC-CCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCc
Confidence            468888888888774 3457999999999999998888788999999999999976554455578999999999999999


Q ss_pred             CccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          379 LELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       379 ~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      ..+|.. +..+++|++|++++|.+..+|.           ..+..+++|+.|++++|++.+
T Consensus        89 ~~~~~~~~~~l~~L~~L~l~~N~l~~~~~-----------~~~~~l~~L~~L~l~~N~~~~  138 (177)
T 2o6r_A           89 QSLPNGVFDKLTQLKELALDTNQLKSVPD-----------GIFDRLTSLQKIWLHTNPWDC  138 (177)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCSCCCT-----------TTTTTCTTCCEEECCSSCBCC
T ss_pred             cccCHHHhhCCcccCEEECcCCcceEeCH-----------HHhcCCcccCEEEecCCCeec
Confidence            998876 6889999999999998765432           235678899999999998754

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.49  E-value=1.6e-13  Score=136.65  Aligned_cols=161  Identities=20%  Similarity=0.161  Sum_probs=73.5

Q ss_pred             cccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .+++++.|++++|.++.++ ...+++|++|++++|.++.++   +..+++|++|++++|++.+ +|  ++.+++|++|++
T Consensus        62 ~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~l~~~~---~~~l~~L~~L~L~~N~l~~-l~--~~~l~~L~~L~l  134 (457)
T 3bz5_A           62 KLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNKLTNLD---VTPLTKLTYLNCDTNKLTK-LD--VSQNPLLTYLNC  134 (457)
T ss_dssp             GCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSCCSCCC---CTTCTTCCEEECCSSCCSC-CC--CTTCTTCCEEEC
T ss_pred             ccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCCCceee---cCCCCcCCEEECCCCcCCe-ec--CCCCCcCCEEEC
Confidence            3444555555555544442 344445555555555544432   3445555555555554222 33  445555555555


Q ss_pred             cCCCCCccCccccCCcCCCEEecCCCCCcCCCC---CCCCc-------cchhhHhhhccccccccceeeccCccc--cCC
Q 038724          374 SFTSTLELPEELKALEKLKYLDMDDHQQVMEEG---NCQSD-------DAESLLKEMLCLEQLNIIRLTSCSLCS--LCG  441 (483)
Q Consensus       374 ~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~---~~~l~-------~~~~~~~~l~~l~~L~~L~l~~~~l~~--l~~  441 (483)
                      ++|.+..+|  ++.+++|+.|++++|.......   ...++       .....+  +..+++|+.|++++|.+..  +..
T Consensus       135 ~~N~l~~l~--l~~l~~L~~L~l~~n~~~~~~~~~~l~~L~~L~ls~n~l~~l~--l~~l~~L~~L~l~~N~l~~~~l~~  210 (457)
T 3bz5_A          135 ARNTLTEID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTNNITKLDLNQ  210 (457)
T ss_dssp             TTSCCSCCC--CTTCTTCCEEECTTCSCCCCCCCTTCTTCCEEECCSSCCCCCC--CTTCTTCCEEECCSSCCSCCCCTT
T ss_pred             CCCccceec--cccCCcCCEEECCCCCcccccccccCCcCCEEECCCCccceec--cccCCCCCEEECcCCcCCeecccc
Confidence            555544443  4444555555555543221100   11110       000011  4445555555555555432  345


Q ss_pred             CCCcccccceeeeeeeeecccccC
Q 038724          442 LPTVQCLTSRRLNLEVEDWHKCTG  465 (483)
Q Consensus       442 l~~l~~l~l~~~~~~~~~~~~~~~  465 (483)
                      +++|+.|++++|++...++..+..
T Consensus       211 l~~L~~L~Ls~N~l~~ip~~~l~~  234 (457)
T 3bz5_A          211 NIQLTFLDCSSNKLTEIDVTPLTQ  234 (457)
T ss_dssp             CTTCSEEECCSSCCSCCCCTTCTT
T ss_pred             CCCCCEEECcCCcccccCccccCC
Confidence            556666666666666544443333

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.49  E-value=4.6e-14  Score=133.90  Aligned_cols=146  Identities=16%  Similarity=0.170  Sum_probs=73.5

Q ss_pred             ceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccc-cCcCCCEEeccC
Q 038724          297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS-KLVSLQHLDISF  375 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~-~l~~L~~L~l~~  375 (483)
                      +++.|++++|.++.++. ..+++|+.|++++|.++.+++..+..+++|++|++++|.+....|..+. .+++|++|++++
T Consensus       100 ~L~~L~l~~n~l~~~~~-~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~  178 (317)
T 3o53_A          100 SIETLHAANNNISRVSC-SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY  178 (317)
T ss_dssp             TCCEEECCSSCCSEEEE-CCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTT
T ss_pred             CcCEEECCCCccCCcCc-cccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCC
Confidence            34444444444443332 1245555555555555555554455555566666665554443344332 455555555555


Q ss_pred             CCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc----cCCCCCcccccce
Q 038724          376 TSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS----LCGLPTVQCLTSR  451 (483)
Q Consensus       376 ~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~----l~~l~~l~~l~l~  451 (483)
                      |.+..+|. ...+++|+.|++++|.+..+            +..+..+++|+.|++++|.+..    +..+++|+.|+++
T Consensus       179 N~l~~~~~-~~~l~~L~~L~Ls~N~l~~l------------~~~~~~l~~L~~L~L~~N~l~~l~~~~~~l~~L~~L~l~  245 (317)
T 3o53_A          179 NFIYDVKG-QVVFAKLKTLDLSSNKLAFM------------GPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLR  245 (317)
T ss_dssp             SCCCEEEC-CCCCTTCCEEECCSSCCCEE------------CGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEECT
T ss_pred             CcCccccc-ccccccCCEEECCCCcCCcc------------hhhhcccCcccEEECcCCcccchhhHhhcCCCCCEEEcc
Confidence            55555543 22355555555555554322            2234555566666666665533    3344555555555


Q ss_pred             eeeee
Q 038724          452 RLNLE  456 (483)
Q Consensus       452 ~~~~~  456 (483)
                      +|.+.
T Consensus       246 ~N~~~  250 (317)
T 3o53_A          246 GNGFH  250 (317)
T ss_dssp             TCCCB
T ss_pred             CCCcc
Confidence            55443

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

Probab=99.49  E-value=1.5e-13  Score=132.17  Aligned_cols=160  Identities=15%  Similarity=0.219  Sum_probs=85.9

Q ss_pred             cccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .+++++.+++.++.++.++....+++|++|++++|.+..+++  +..+++|++|++++|. +..+| .+..+++|++|++
T Consensus        42 ~l~~L~~L~l~~~~i~~~~~~~~~~~L~~L~l~~n~i~~~~~--~~~l~~L~~L~L~~n~-i~~~~-~~~~l~~L~~L~l  117 (347)
T 4fmz_A           42 ELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTNK-ITDIS-ALQNLTNLRELYL  117 (347)
T ss_dssp             HHTTCSEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCG-GGTTCTTCSEEEC
T ss_pred             hcccccEEEEeCCccccchhhhhcCCccEEEccCCccccchh--hhcCCcCCEEEccCCc-ccCch-HHcCCCcCCEEEC
Confidence            344555555555555555444455555555555555555444  4555555555555554 22333 3555555555555


Q ss_pred             cCCCCCccCccccCCcCCCEEecCCCCCcCC-CCCCCCc---------cchhhHhhhccccccccceeeccCccc---cC
Q 038724          374 SFTSTLELPEELKALEKLKYLDMDDHQQVME-EGNCQSD---------DAESLLKEMLCLEQLNIIRLTSCSLCS---LC  440 (483)
Q Consensus       374 ~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~-p~~~~l~---------~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~  440 (483)
                      ++|.+..+|. +..+++|++|++++|..... +.+..+.         ........+..+++|+.|++++|.+..   +.
T Consensus       118 ~~n~i~~~~~-~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~  196 (347)
T 4fmz_A          118 NEDNISDISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLA  196 (347)
T ss_dssp             TTSCCCCCGG-GTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCSEEECTTSCCCCCGGGG
T ss_pred             cCCcccCchh-hccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchhhccCCCCCEEEccCCccccccccc
Confidence            5555555544 55555555555555533322 2111110         000111126778888888888887644   45


Q ss_pred             CCCCcccccceeeeeeee
Q 038724          441 GLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       441 ~l~~l~~l~l~~~~~~~~  458 (483)
                      .++.|+.++++++.+...
T Consensus       197 ~l~~L~~L~l~~n~l~~~  214 (347)
T 4fmz_A          197 SLTSLHYFTAYVNQITDI  214 (347)
T ss_dssp             GCTTCCEEECCSSCCCCC
T ss_pred             CCCccceeecccCCCCCC
Confidence            667777787777766644

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.49  E-value=9.4e-14  Score=118.69  Aligned_cols=131  Identities=19%  Similarity=0.205  Sum_probs=108.4

Q ss_pred             CCCCcccEEEecCCccc--cccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCc-cCccccCCcCC
Q 038724          315 PSCPHLLTLFLNDNYLQ--DIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLE-LPEELKALEKL  391 (483)
Q Consensus       315 ~~~~~L~~L~l~~n~~~--~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~-lp~~~~~l~~L  391 (483)
                      ...++|+.|++++|.+.  .++.. +..+++|++|++++|.+.. + ..+..+++|++|++++|.+.. +|..+..+++|
T Consensus        21 ~~~~~L~~L~l~~n~l~~~~i~~~-~~~l~~L~~L~l~~n~l~~-~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L   97 (168)
T 2ell_A           21 RTPAAVRELVLDNCKSNDGKIEGL-TAEFVNLEFLSLINVGLIS-V-SNLPKLPKLKKLELSENRIFGGLDMLAEKLPNL   97 (168)
T ss_dssp             SCTTSCSEEECCSCBCBTTBCSSC-CGGGGGCCEEEEESSCCCC-C-SSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTC
T ss_pred             CCcccCCEEECCCCCCChhhHHHH-HHhCCCCCEEeCcCCCCCC-h-hhhccCCCCCEEECcCCcCchHHHHHHhhCCCC
Confidence            34588999999999998  56554 7899999999999998544 4 689999999999999999888 77667789999


Q ss_pred             CEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc--------cCCCCCcccccceeeeeeee
Q 038724          392 KYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS--------LCGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       392 ~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~--------l~~l~~l~~l~l~~~~~~~~  458 (483)
                      ++|++++|.+...|          .+..+..+++|+.|++++|++..        +..+++|+.|+++.+.+...
T Consensus        98 ~~L~Ls~N~l~~~~----------~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~~n~~~~~  162 (168)
T 2ell_A           98 THLNLSGNKLKDIS----------TLEPLKKLECLKSLDLFNCEVTNLNDYRESVFKLLPQLTYLDGYDREDQEA  162 (168)
T ss_dssp             CEEECBSSSCCSSG----------GGGGGSSCSCCCEEECCSSGGGTSTTHHHHHHTTCSSCCEETTEETTSCBC
T ss_pred             CEEeccCCccCcch----------hHHHHhcCCCCCEEEeeCCcCcchHHHHHHHHHhCccCcEecCCCCChhhc
Confidence            99999999976432          23568889999999999998754        45689999999988776543

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.49  E-value=1.3e-14  Score=133.52  Aligned_cols=145  Identities=19%  Similarity=0.247  Sum_probs=121.3

Q ss_pred             ccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      +.++..+++..+.++.++....+++|++|++++|.+..++.  +..+++|++|++++|. +..+|. +..+++|++|+++
T Consensus        18 l~~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~L~~N~-i~~~~~-l~~l~~L~~L~L~   93 (263)
T 1xeu_A           18 LANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLAG--MQFFTNLKELHLSHNQ-ISDLSP-LKDLTKLEELSVN   93 (263)
T ss_dssp             HHHHHHHHHTCSCTTSEECHHHHTTCSEEECTTSCCCCCTT--GGGCTTCCEEECCSSC-CCCCGG-GTTCSSCCEEECC
T ss_pred             HHHHHHHHhcCCCcccccchhhcCcCcEEECcCCCcccchH--HhhCCCCCEEECCCCc-cCCChh-hccCCCCCEEECC
Confidence            44455677888888888766788999999999999998873  8899999999999997 455555 9999999999999


Q ss_pred             CCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccccce
Q 038724          375 FTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCLTSR  451 (483)
Q Consensus       375 ~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l~l~  451 (483)
                      +|.+..+|....  ++|++|++++|.+...             ..+..+++|+.|++++|.+..   +..+++|+.|+++
T Consensus        94 ~N~l~~l~~~~~--~~L~~L~L~~N~l~~~-------------~~l~~l~~L~~L~Ls~N~i~~~~~l~~l~~L~~L~L~  158 (263)
T 1xeu_A           94 RNRLKNLNGIPS--ACLSRLFLDNNELRDT-------------DSLIHLKNLEILSIRNNKLKSIVMLGFLSKLEVLDLH  158 (263)
T ss_dssp             SSCCSCCTTCCC--SSCCEEECCSSCCSBS-------------GGGTTCTTCCEEECTTSCCCBCGGGGGCTTCCEEECT
T ss_pred             CCccCCcCcccc--CcccEEEccCCccCCC-------------hhhcCcccccEEECCCCcCCCChHHccCCCCCEEECC
Confidence            999999986433  9999999999986532             357889999999999998754   5677899999999


Q ss_pred             eeeeeee
Q 038724          452 RLNLEVE  458 (483)
Q Consensus       452 ~~~~~~~  458 (483)
                      +|.+...
T Consensus       159 ~N~i~~~  165 (263)
T 1xeu_A          159 GNEITNT  165 (263)
T ss_dssp             TSCCCBC
T ss_pred             CCcCcch
Confidence            8888755

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.48  E-value=1.4e-13  Score=141.56  Aligned_cols=118  Identities=23%  Similarity=0.278  Sum_probs=65.8

Q ss_pred             cCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCccccc
Q 038724          287 VVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISK  364 (483)
Q Consensus       287 ~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~  364 (483)
                      +.+..+..+++|+.|++++|.++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|++....+..++.
T Consensus        43 ~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~  122 (570)
T 2z63_A           43 LGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGH  122 (570)
T ss_dssp             ECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCSCTT
T ss_pred             cChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCccccccccccccccccCCCccccc
Confidence            3333444555666666666666555432  34566666666666666555555666666666666666433222224556


Q ss_pred             CcCCCEEeccCCCCCc--cCccccCCcCCCEEecCCCCCcCC
Q 038724          365 LVSLQHLDISFTSTLE--LPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       365 l~~L~~L~l~~~~i~~--lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      +++|++|++++|.+..  +|..++++++|++|++++|.+...
T Consensus       123 l~~L~~L~L~~n~l~~~~lp~~~~~l~~L~~L~l~~n~l~~~  164 (570)
T 2z63_A          123 LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI  164 (570)
T ss_dssp             CTTCCEEECCSSCCCCCCCCGGGGGCTTCCEEECTTSCCCEE
T ss_pred             cccccEEecCCCccceecChhhhcccCCCCEEeCcCCcccee
Confidence            6666666666665543  455566666666666666654433

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

Probab=99.48  E-value=1.6e-13  Score=144.28  Aligned_cols=172  Identities=20%  Similarity=0.208  Sum_probs=104.0

Q ss_pred             hhcccCccccccccceEEEEccccccccc-cC--CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccC--cc
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTL-LN--TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFL--TK  357 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~-~~--~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~--~~  357 (483)
                      .+....+..+..+++++.|++++|.++.. ++  ...+++|++|++++|.+..+++..|..+++|+.|++++|.+.  +.
T Consensus       392 ~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~L~~L~l~~n~l~~~~~  471 (680)
T 1ziw_A          392 KISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDS  471 (680)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCSEEECCTTTTTTCTTCCEEECTTSCCBCTTC
T ss_pred             CCCeEChhhhhCCCCCCEEeCCCCcCccccCcccccCcccccEEecCCCCcceeChhhhhcCcccccchhcccccccccc
Confidence            34444444555666777777777776542 21  245677777777777776666666677777777777777543  45


Q ss_pred             CCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCC--CCCCccchhhHhhhccccccccceeecc
Q 038724          358 LPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEG--NCQSDDAESLLKEMLCLEQLNIIRLTSC  434 (483)
Q Consensus       358 ~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~--~~~l~~~~~~~~~l~~l~~L~~L~l~~~  434 (483)
                      .|..++.+++|++|++++|.+..+|+. +..+++|+.|++++|.+...+.  +.     ...+..+..+++|+.|++++|
T Consensus       472 ~p~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~-----~~~~~~~~~l~~L~~L~L~~N  546 (680)
T 1ziw_A          472 SPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANP-----GGPIYFLKGLSHLHILNLESN  546 (680)
T ss_dssp             SSCTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCGGGGSTTST-----TSCCCTTTTCTTCCEEECCSS
T ss_pred             CCcccccCCCCCEEECCCCCCCcCChhhhccccccCEEeCCCCCccccchhhcc-----CCcchhhcCCCCCCEEECCCC
Confidence            677777788888888888887777665 6777888888888887664411  00     000112445555555555555


Q ss_pred             Cccc-----cCCCCCcccccceeeeeeeee
Q 038724          435 SLCS-----LCGLPTVQCLTSRRLNLEVED  459 (483)
Q Consensus       435 ~l~~-----l~~l~~l~~l~l~~~~~~~~~  459 (483)
                      .+..     +.++++|+.|++++|++...+
T Consensus       547 ~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~  576 (680)
T 1ziw_A          547 GFDEIPVEVFKDLFELKIIDLGLNNLNTLP  576 (680)
T ss_dssp             CCCCCCTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             CCCCCCHHHcccccCcceeECCCCCCCcCC
Confidence            5432     334455555555555555433

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.48  E-value=9.8e-14  Score=131.17  Aligned_cols=160  Identities=16%  Similarity=0.078  Sum_probs=124.9

Q ss_pred             ccceEEEEccccccccccCC----CCCCcccEEEecCCccccccc----hhhhcCCCccEEEccCCccCccCCcccccCc
Q 038724          295 WLGLRRMSLMNNQIKTLLNT----PSCPHLLTLFLNDNYLQDIKN----GFFQFMPCLKVLNLSYNRFLTKLPSGISKLV  366 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~----~~~~~L~~L~l~~n~~~~~~~----~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~  366 (483)
                      .++++.|++++|.+++..+.    ..+++|++|++++|.+....+    ..+..+++|++|++++|.+....|..++.++
T Consensus        90 ~~~L~~L~l~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~  169 (310)
T 4glp_A           90 YSRLKELTLEDLKITGTMPPLPLEATGLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFP  169 (310)
T ss_dssp             HSCCCEEEEESCCCBSCCCCCSSSCCCBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCT
T ss_pred             cCceeEEEeeCCEeccchhhhhhhccCCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCC
Confidence            45699999999999876554    568999999999999886432    3345789999999999987777778999999


Q ss_pred             CCCEEeccCCCCCc---cCcc--ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhh-hccccccccceeeccCcccc-
Q 038724          367 SLQHLDISFTSTLE---LPEE--LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKE-MLCLEQLNIIRLTSCSLCSL-  439 (483)
Q Consensus       367 ~L~~L~l~~~~i~~---lp~~--~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~-l~~l~~L~~L~l~~~~l~~l-  439 (483)
                      +|++|++++|.+..   +|..  +..+++|++|++++|.+...|         ..+.. +..+++|+.|++++|.+..+ 
T Consensus       170 ~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~---------~~~~~l~~~l~~L~~L~Ls~N~l~~~~  240 (310)
T 4glp_A          170 ALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPT---------GVCAALAAAGVQPHSLDLSHNSLRATV  240 (310)
T ss_dssp             TCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHH---------HHHHHHHHHTCCCSSEECTTSCCCCCC
T ss_pred             CCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchH---------HHHHHHHhcCCCCCEEECCCCCCCccc
Confidence            99999999999654   4333  478999999999999865321         22222 57889999999999988553 


Q ss_pred             ----CCC---CCcccccceeeeeeeeecccc
Q 038724          440 ----CGL---PTVQCLTSRRLNLEVEDWHKC  463 (483)
Q Consensus       440 ----~~l---~~l~~l~l~~~~~~~~~~~~~  463 (483)
                          ..+   ++|+.|++++|.+...+-..+
T Consensus       241 p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~~  271 (310)
T 4glp_A          241 NPSAPRCMWSSALNSLNLSFAGLEQVPKGLP  271 (310)
T ss_dssp             CSCCSSCCCCTTCCCEECCSSCCCSCCSCCC
T ss_pred             hhhHHhccCcCcCCEEECCCCCCCchhhhhc
Confidence                344   689999999999885544333

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

Probab=99.48  E-value=1e-13  Score=138.95  Aligned_cols=101  Identities=17%  Similarity=0.239  Sum_probs=45.2

Q ss_pred             ceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCC
Q 038724          297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT  376 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~  376 (483)
                      +++.|++.++.++.++....+++|++|++++|.+..+++  +..+++|++|++++|.+. .+|. ++.+++|++|++++|
T Consensus        47 ~l~~L~l~~~~i~~l~~~~~l~~L~~L~Ls~n~l~~~~~--~~~l~~L~~L~l~~n~l~-~~~~-~~~l~~L~~L~L~~n  122 (466)
T 1o6v_A           47 QVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQIA-DITP-LANLTNLTGLTLFNN  122 (466)
T ss_dssp             TCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCC-CCGG-GTTCTTCCEEECCSS
T ss_pred             cccEEecCCCCCccCcchhhhcCCCEEECCCCccCCchh--hhccccCCEEECCCCccc-cChh-hcCCCCCCEEECCCC
Confidence            444444444444444433344444444444444444433  444444444444444322 2222 444444444444444


Q ss_pred             CCCccCccccCCcCCCEEecCCCCCc
Q 038724          377 STLELPEELKALEKLKYLDMDDHQQV  402 (483)
Q Consensus       377 ~i~~lp~~~~~l~~L~~L~l~~n~~~  402 (483)
                      .+..+|. +..+++|++|++++|.+.
T Consensus       123 ~l~~~~~-~~~l~~L~~L~l~~n~l~  147 (466)
T 1o6v_A          123 QITDIDP-LKNLTNLNRLELSSNTIS  147 (466)
T ss_dssp             CCCCCGG-GTTCTTCSEEEEEEEEEC
T ss_pred             CCCCChH-HcCCCCCCEEECCCCccC
Confidence            4444433 444444444444444433

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

Probab=99.47  E-value=3.2e-13  Score=141.99  Aligned_cols=178  Identities=25%  Similarity=0.237  Sum_probs=135.3

Q ss_pred             hhhhcccCccccccccceEEEEccccccccccC--CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccC
Q 038724          281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLN--TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKL  358 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~--~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~  358 (483)
                      ...+....+..+..+++|+.|++++|.++.+++  ...+++|++|++++|.+..+++..|..+++|++|++++|.+.+..
T Consensus        58 ~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~  137 (680)
T 1ziw_A           58 FNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTK  137 (680)
T ss_dssp             SSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSCCSCCC
T ss_pred             CCccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEECCCCccCccChhHccccCCCCEEECCCCcccccC
Confidence            345666667777788899999999999998886  367899999999999999888877899999999999999877777


Q ss_pred             CcccccCcCCCEEeccCCCCCccCcc-c--cCCcCCCEEecCCCCCcCC-CC-CCCCc----------------------
Q 038724          359 PSGISKLVSLQHLDISFTSTLELPEE-L--KALEKLKYLDMDDHQQVME-EG-NCQSD----------------------  411 (483)
Q Consensus       359 p~~~~~l~~L~~L~l~~~~i~~lp~~-~--~~l~~L~~L~l~~n~~~~~-p~-~~~l~----------------------  411 (483)
                      |..++.+++|++|++++|.+..++.. +  ..+++|+.|++++|.+... |. +..+.                      
T Consensus       138 ~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~~~l~~~~~~~~~~  217 (680)
T 1ziw_A          138 LGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCL  217 (680)
T ss_dssp             CCSSSCCTTCCEEECCSSCCCCBCHHHHGGGTTCEESEEECTTCCCCCBCTTGGGGSSEECEEECTTCCCHHHHHHHHHH
T ss_pred             chhhcccccCCEEEccCCcccccCHHHhhccccccccEEECCCCcccccChhhhhhhhhhhhhhccccccChhhHHHHHH
Confidence            88888999999999999998888764 3  3568899999999987776 43 22211                      


Q ss_pred             ----------------cchhhHhhhccccc--cccceeeccCcc-----ccCCCCCcccccceeeeeeee
Q 038724          412 ----------------DAESLLKEMLCLEQ--LNIIRLTSCSLC-----SLCGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       412 ----------------~~~~~~~~l~~l~~--L~~L~l~~~~l~-----~l~~l~~l~~l~l~~~~~~~~  458 (483)
                                      .....+..+..++.  |+.|++++|.+.     .+..+++|+.|++++|++...
T Consensus       218 ~l~~~~L~~L~L~~n~l~~~~~~~~~~l~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~  287 (680)
T 1ziw_A          218 ELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHL  287 (680)
T ss_dssp             HHTTSCCCEEECTTSCCCEECTTTTGGGGGSCCCEEECTTSCCCEECTTTTTTCTTCCEEECCSCCBSEE
T ss_pred             HhhhccccEEEccCCcccccChhHhhccCcCCCCEEECCCCCcCccCcccccCcccccEeeCCCCccCcc
Confidence                            01112334455544  888888888763     356677888888887777654

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.47  E-value=7.6e-14  Score=132.35  Aligned_cols=165  Identities=19%  Similarity=0.171  Sum_probs=87.0

Q ss_pred             hhhhcccCccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccch----------------hhhcCCCc
Q 038724          281 LEKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNG----------------FFQFMPCL  344 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~----------------~~~~l~~L  344 (483)
                      .+.+.+..+..+..+++|+.|++++|.++..++...+++|++|++++|.++.+++.                ....+++|
T Consensus        43 ~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~L~~L~l~~n~l~~~~~~~~~~L  122 (317)
T 3o53_A           43 GNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVSCSRGQGK  122 (317)
T ss_dssp             TSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEEEEEECTTCCEEECCSSCCSEEEECCCSSC
T ss_pred             CCccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCccccccCCCCcCEEECCCCccCCcCccccCCC
Confidence            34445555555556667777777777776655555666666666666666554421                00113344


Q ss_pred             cEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-c-cCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhcc
Q 038724          345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-L-KALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLC  422 (483)
Q Consensus       345 ~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~-~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~  422 (483)
                      ++|++++|++....|..++.+++|++|++++|.+..++.. + ..+++|++|++++|.+...|             ....
T Consensus       123 ~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~l~~~~-------------~~~~  189 (317)
T 3o53_A          123 KNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVK-------------GQVV  189 (317)
T ss_dssp             EEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSCCCEEE-------------CCCC
T ss_pred             CEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCcCcccc-------------cccc
Confidence            4444444443333333444445555555555554443222 2 23445555555555433221             1223


Q ss_pred             ccccccceeeccCccc----cCCCCCcccccceeeeeeee
Q 038724          423 LEQLNIIRLTSCSLCS----LCGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       423 l~~L~~L~l~~~~l~~----l~~l~~l~~l~l~~~~~~~~  458 (483)
                      +++|+.|++++|.+..    +..+++|+.|++++|.+...
T Consensus       190 l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~L~~N~l~~l  229 (317)
T 3o53_A          190 FAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLI  229 (317)
T ss_dssp             CTTCCEEECCSSCCCEECGGGGGGTTCSEEECTTSCCCEE
T ss_pred             cccCCEEECCCCcCCcchhhhcccCcccEEECcCCcccch
Confidence            6677777777776633    44566677777777666643

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

Probab=99.47  E-value=1.2e-13  Score=148.48  Aligned_cols=153  Identities=22%  Similarity=0.241  Sum_probs=111.9

Q ss_pred             cccceEEEEccccccccccCC--CCCCcccEEEecCC-ccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n-~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      ..++++.|++++|.++.+.+.  ..+++|++|+|++| ....+++..|..+++|++|+|++|++.+..|..++.+++|++
T Consensus        22 lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~  101 (844)
T 3j0a_A           22 VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFE  101 (844)
T ss_dssp             SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCC
T ss_pred             CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCE
Confidence            346788899999988877553  57888999999888 444566677888889999999988877777888888999999


Q ss_pred             EeccCCCCCc-cCcc--ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc-----CCC
Q 038724          371 LDISFTSTLE-LPEE--LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL-----CGL  442 (483)
Q Consensus       371 L~l~~~~i~~-lp~~--~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l-----~~l  442 (483)
                      |++++|.+.. +|..  +.++++|++|++++|.+...+          .+..++.+++|+.|++++|.+..+     ..+
T Consensus       102 L~Ls~n~l~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~----------~~~~~~~L~~L~~L~Ls~N~i~~~~~~~l~~l  171 (844)
T 3j0a_A          102 LRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLY----------LHPSFGKLNSLKSIDFSSNQIFLVCEHELEPL  171 (844)
T ss_dssp             EECTTCCCSSCCSTTCCCSSCSSCCEEEEESCCCCCCC----------CCGGGGTCSSCCEEEEESSCCCCCCSGGGHHH
T ss_pred             eeCcCCCCCcccccCccccccCCCCEEECCCCcccccc----------cchhHhhCCCCCEEECCCCcCCeeCHHHcccc
Confidence            9999888665 5554  788889999999988866441          123466777777777777765332     222


Q ss_pred             --CCcccccceeeeee
Q 038724          443 --PTVQCLTSRRLNLE  456 (483)
Q Consensus       443 --~~l~~l~l~~~~~~  456 (483)
                        ++|+.|+++.+.+.
T Consensus       172 ~~~~L~~L~L~~n~l~  187 (844)
T 3j0a_A          172 QGKTLSFFSLAANSLY  187 (844)
T ss_dssp             HHCSSCCCEECCSBSC
T ss_pred             cCCccceEECCCCccc
Confidence              55666666655554

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.47  E-value=1.3e-13  Score=115.34  Aligned_cols=123  Identities=18%  Similarity=0.218  Sum_probs=101.4

Q ss_pred             CCCcccEEEecCCccc--cccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCc-cCccccCCcCCC
Q 038724          316 SCPHLLTLFLNDNYLQ--DIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLE-LPEELKALEKLK  392 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~--~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~-lp~~~~~l~~L~  392 (483)
                      ..++|+.|++++|.+.  .++. .+..+++|++|++++|.+...  ..++.+++|++|++++|.+.. +|..+..+++|+
T Consensus        15 ~~~~l~~L~l~~n~l~~~~~~~-~~~~l~~L~~L~l~~n~l~~~--~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~   91 (149)
T 2je0_A           15 TPSDVKELVLDNSRSNEGKLEG-LTDEFEELEFLSTINVGLTSI--ANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLT   91 (149)
T ss_dssp             CGGGCSEEECTTCBCBTTBCCS-CCTTCTTCCEEECTTSCCCCC--TTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCC
T ss_pred             CCccCeEEEccCCcCChhHHHH-HHhhcCCCcEEECcCCCCCCc--hhhhcCCCCCEEECCCCcccchHHHHhhhCCCCC
Confidence            4578999999999998  4554 578999999999999975444  679999999999999999888 777778899999


Q ss_pred             EEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccC--------CCCCcccccce
Q 038724          393 YLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLC--------GLPTVQCLTSR  451 (483)
Q Consensus       393 ~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~--------~l~~l~~l~l~  451 (483)
                      +|++++|.+..          ...+..+..+++|+.|++++|++..+.        .+++|+.|+++
T Consensus        92 ~L~ls~N~i~~----------~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           92 HLNLSGNKIKD----------LSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             EEECTTSCCCS----------HHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             EEECCCCcCCC----------hHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHHHHCCCcccccCC
Confidence            99999999652          224477899999999999999885543        46777777664

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

Probab=99.46  E-value=1.2e-13  Score=148.63  Aligned_cols=148  Identities=16%  Similarity=0.144  Sum_probs=126.4

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccC-CcccccCcCCCEEeccCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKL-PSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~-p~~~~~l~~L~~L~l~~~~  377 (483)
                      +..+.+++.++.+|.  ..+++++|+|++|.++.+.+..|..+++|++|++++|.....+ |..++++++|++|++++|.
T Consensus         7 ~~~dcs~~~L~~vP~--lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~   84 (844)
T 3j0a_A            7 RIAFYRFCNLTQVPQ--VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSK   84 (844)
T ss_dssp             EEEEESCCCSSCCCS--SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCC
T ss_pred             eEEEccCCCCCCCCC--CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCc
Confidence            357778889999987  5689999999999999998888999999999999999766666 7889999999999999999


Q ss_pred             CCcc-CccccCCcCCCEEecCCCCCcCC-CCCCCCccchhhHhhhccccccccceeeccCcc------ccCCCCCccccc
Q 038724          378 TLEL-PEELKALEKLKYLDMDDHQQVME-EGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC------SLCGLPTVQCLT  449 (483)
Q Consensus       378 i~~l-p~~~~~l~~L~~L~l~~n~~~~~-p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~------~l~~l~~l~~l~  449 (483)
                      +..+ |..+.++++|++|+|++|.+... |.          ...+..+++|+.|++++|.+.      .+.++++|+.|+
T Consensus        85 l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~----------~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~  154 (844)
T 3j0a_A           85 IYFLHPDAFQGLFHLFELRLYFCGLSDAVLK----------DGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSID  154 (844)
T ss_dssp             CCEECTTSSCSCSSCCCEECTTCCCSSCCST----------TCCCSSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEE
T ss_pred             CcccCHhHccCCcccCEeeCcCCCCCccccc----------CccccccCCCCEEECCCCcccccccchhHhhCCCCCEEE
Confidence            8887 66799999999999999987642 21          113788999999999999873      367889999999


Q ss_pred             ceeeeeeee
Q 038724          450 SRRLNLEVE  458 (483)
Q Consensus       450 l~~~~~~~~  458 (483)
                      ++.|.+...
T Consensus       155 Ls~N~i~~~  163 (844)
T 3j0a_A          155 FSSNQIFLV  163 (844)
T ss_dssp             EESSCCCCC
T ss_pred             CCCCcCCee
Confidence            998887653

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.46  E-value=8.6e-14  Score=139.86  Aligned_cols=147  Identities=16%  Similarity=0.163  Sum_probs=101.5

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccc-cCcCCCEEecc
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS-KLVSLQHLDIS  374 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~-~l~~L~~L~l~  374 (483)
                      ++|+.|++++|.++.+++ ..+++|+.|++++|.+..+++..+..+++|++|++++|.+.+..|..+. .+++|++|+++
T Consensus        99 ~~L~~L~L~~N~l~~~~~-~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls  177 (487)
T 3oja_A           99 PSIETLHAANNNISRVSC-SRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQ  177 (487)
T ss_dssp             TTCCEEECCSSCCCCEEE-CCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECT
T ss_pred             CCcCEEECcCCcCCCCCc-cccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecC
Confidence            445555666665555544 2467788888888888877776677788888888888877666676665 67888888888


Q ss_pred             CCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc----cCCCCCcccccc
Q 038724          375 FTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS----LCGLPTVQCLTS  450 (483)
Q Consensus       375 ~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~----l~~l~~l~~l~l  450 (483)
                      +|.+..+|. ...+++|+.|+|++|.+..+            +..+..+++|+.|++++|.+..    +..+++|+.|++
T Consensus       178 ~N~l~~~~~-~~~l~~L~~L~Ls~N~l~~~------------~~~~~~l~~L~~L~Ls~N~l~~lp~~l~~l~~L~~L~l  244 (487)
T 3oja_A          178 YNFIYDVKG-QVVFAKLKTLDLSSNKLAFM------------GPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDL  244 (487)
T ss_dssp             TSCCCEEEC-CCCCTTCCEEECCSSCCCEE------------CGGGGGGTTCSEEECTTSCCCEECTTCCCCTTCCEEEC
T ss_pred             CCccccccc-cccCCCCCEEECCCCCCCCC------------CHhHcCCCCccEEEecCCcCcccchhhccCCCCCEEEc
Confidence            888777754 34578888888888875533            2335667777777777777644    344566666666


Q ss_pred             eeeeee
Q 038724          451 RRLNLE  456 (483)
Q Consensus       451 ~~~~~~  456 (483)
                      ++|.+.
T Consensus       245 ~~N~l~  250 (487)
T 3oja_A          245 RGNGFH  250 (487)
T ss_dssp             TTCCBC
T ss_pred             CCCCCc
Confidence            665554

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.46  E-value=8.7e-14  Score=119.88  Aligned_cols=136  Identities=18%  Similarity=0.225  Sum_probs=108.6

Q ss_pred             cccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccc-c
Q 038724          308 IKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEEL-K  386 (483)
Q Consensus       308 ~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~-~  386 (483)
                      +...+....+.+|+.|++++|.++.++ ......++|++|++++|.+.+ + ..++.+++|++|++++|.+..+|+.+ .
T Consensus         9 i~~~~~~~~~~~L~~L~l~~n~l~~i~-~~~~~~~~L~~L~Ls~N~l~~-~-~~l~~l~~L~~L~Ls~N~l~~~~~~~~~   85 (176)
T 1a9n_A            9 IEQAAQYTNAVRDRELDLRGYKIPVIE-NLGATLDQFDAIDFSDNEIRK-L-DGFPLLRRLKTLLVNNNRICRIGEGLDQ   85 (176)
T ss_dssp             HHTSCEEECTTSCEEEECTTSCCCSCC-CGGGGTTCCSEEECCSSCCCE-E-CCCCCCSSCCEEECCSSCCCEECSCHHH
T ss_pred             HHHHHhcCCcCCceEEEeeCCCCchhH-HhhhcCCCCCEEECCCCCCCc-c-cccccCCCCCEEECCCCcccccCcchhh
Confidence            333334456889999999999999874 334444599999999997554 4 57999999999999999999999775 8


Q ss_pred             CCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc--------cCCCCCcccccceeeeee
Q 038724          387 ALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS--------LCGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       387 ~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~--------l~~l~~l~~l~l~~~~~~  456 (483)
                      .+++|++|++++|.+...|.          ...+..+++|+.|++++|++..        +..+++|+.|+++.+...
T Consensus        86 ~l~~L~~L~L~~N~i~~~~~----------~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~~~l~~L~~Ld~~~n~~~  153 (176)
T 1a9n_A           86 ALPDLTELILTNNSLVELGD----------LDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQKVKLK  153 (176)
T ss_dssp             HCTTCCEEECCSCCCCCGGG----------GGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTEECCHH
T ss_pred             cCCCCCEEECCCCcCCcchh----------hHhhhcCCCCCEEEecCCCCCCcHhHHHHHHHHCCccceeCCCcCCHH
Confidence            99999999999999653321          2367889999999999999854        455788999998877654

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.45  E-value=2.5e-13  Score=138.13  Aligned_cols=142  Identities=22%  Similarity=0.163  Sum_probs=82.8

Q ss_pred             CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCc--cCCcccccCcCCCEEeccCCCCCc-cCcc-ccCCcC
Q 038724          315 PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLT--KLPSGISKLVSLQHLDISFTSTLE-LPEE-LKALEK  390 (483)
Q Consensus       315 ~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~--~~p~~~~~l~~L~~L~l~~~~i~~-lp~~-~~~l~~  390 (483)
                      ..+++|++|++++|.+....+..+..+++|++|++++|++.+  .+|..++.+++|++|++++|.+.. +|.. +..+++
T Consensus       321 ~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~  400 (520)
T 2z7x_B          321 SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS  400 (520)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTT
T ss_pred             hhCCcccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCcc
Confidence            355666666666666665444445666666666666665443  344556666666666666666555 6554 555666


Q ss_pred             CCEEecCCCCCcCC-CC-C-CCCc-------cchhhHhhhccccccccceeeccCcccc-----CCCCCcccccceeeee
Q 038724          391 LKYLDMDDHQQVME-EG-N-CQSD-------DAESLLKEMLCLEQLNIIRLTSCSLCSL-----CGLPTVQCLTSRRLNL  455 (483)
Q Consensus       391 L~~L~l~~n~~~~~-p~-~-~~l~-------~~~~~~~~l~~l~~L~~L~l~~~~l~~l-----~~l~~l~~l~l~~~~~  455 (483)
                      |+.|++++|.+... |. + ..++       .....|..+..+++|+.|++++|++..+     ..+++|+.|++++|.+
T Consensus       401 L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~l~~ip~~~~~l~~L~~L~L~~N~l~~l~~~~~~~l~~L~~L~l~~N~~  480 (520)
T 2z7x_B          401 LLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHTNPW  480 (520)
T ss_dssp             CCEEECCSSCCCGGGGGSCCTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCB
T ss_pred             CCEEECcCCCCCcchhhhhcccCCEEECCCCcccccchhhhcCCCCCEEECCCCcCCccCHHHhccCCcccEEECcCCCC
Confidence            66666666665433 22 1 1111       1124455566788888888888877543     4455666666666554


Q ss_pred             e
Q 038724          456 E  456 (483)
Q Consensus       456 ~  456 (483)
                      .
T Consensus       481 ~  481 (520)
T 2z7x_B          481 D  481 (520)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.45  E-value=4.9e-13  Score=142.16  Aligned_cols=87  Identities=21%  Similarity=0.231  Sum_probs=59.5

Q ss_pred             CcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccC--------cCCCEEeccCCCCCccCcccc--C
Q 038724          318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKL--------VSLQHLDISFTSTLELPEELK--A  387 (483)
Q Consensus       318 ~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l--------~~L~~L~l~~~~i~~lp~~~~--~  387 (483)
                      ++|+.|++++|.+..++...+..+++|+.|+|++|.+ ..+|..+...        ++|++|++++|.+..+|..+.  .
T Consensus       673 ~~L~~L~Ls~N~L~~lp~~~~~~l~~L~~L~Ls~N~L-~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~~~~  751 (876)
T 4ecn_A          673 INASTVTLSYNEIQKFPTELFATGSPISTIILSNNLM-TSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATT  751 (876)
T ss_dssp             CCEEEEECCSSCCCSCCHHHHHTTCCCSEEECCSCCC-SCCCTTSSSCTTSCCTTGGGCCEEECCSSCCCCCCGGGSTTT
T ss_pred             CCcCEEEccCCcCCccCHHHHccCCCCCEEECCCCcC-CccChHHhccccccccccCCccEEECCCCCCccchHHhhhcc
Confidence            3666777777776666666666677777777777753 3666554432        277777777777777777765  7


Q ss_pred             CcCCCEEecCCCCCcCCC
Q 038724          388 LEKLKYLDMDDHQQVMEE  405 (483)
Q Consensus       388 l~~L~~L~l~~n~~~~~p  405 (483)
                      +++|+.|+|++|.+..+|
T Consensus       752 l~~L~~L~Ls~N~L~~lp  769 (876)
T 4ecn_A          752 LPYLSNMDVSYNCFSSFP  769 (876)
T ss_dssp             CTTCCEEECCSSCCSSCC
T ss_pred             CCCcCEEEeCCCCCCccc
Confidence            777777777777766544

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

Probab=99.43  E-value=8.6e-13  Score=132.14  Aligned_cols=162  Identities=17%  Similarity=0.201  Sum_probs=88.4

Q ss_pred             cccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .+++|+.|++++|.++.++....+++|++|++++|.+...++  +..+++|++|++++|.+. .+|. +..+++|++|++
T Consensus       219 ~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~--~~~l~~L~~L~l~~n~l~-~~~~-~~~l~~L~~L~L  294 (466)
T 1o6v_A          219 ILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQIS-NISP-LAGLTALTNLEL  294 (466)
T ss_dssp             GCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCC-CCGG-GTTCTTCSEEEC
T ss_pred             ccCCCCEEECCCCCcccchhhhcCCCCCEEECCCCccccchh--hhcCCCCCEEECCCCccC-cccc-ccCCCccCeEEc
Confidence            344555555555555554444445555555555555554443  445555555555555422 2222 445555555555


Q ss_pred             cCCCCCccCccccCCcCCCEEecCCCCCcCCCCCC---CCc------cchhhHhhhccccccccceeeccCccc---cCC
Q 038724          374 SFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNC---QSD------DAESLLKEMLCLEQLNIIRLTSCSLCS---LCG  441 (483)
Q Consensus       374 ~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~---~l~------~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~  441 (483)
                      ++|.+..+|. +..+++|+.|++++|.+...+.+.   .++      ........+..+++|+.|++++|++..   +..
T Consensus       295 ~~n~l~~~~~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~~~~  373 (466)
T 1o6v_A          295 NENQLEDISP-ISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDVSSLANLTNINWLSAGHNQISDLTPLAN  373 (466)
T ss_dssp             CSSCCSCCGG-GGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCBCGGGTT
T ss_pred             CCCcccCchh-hcCCCCCCEEECcCCcCCCchhhccCccCCEeECCCCccCCchhhccCCCCCEEeCCCCccCccchhhc
Confidence            5555555443 445555555555555544431111   111      001112457788899999999998743   567


Q ss_pred             CCCcccccceeeeeeeeec
Q 038724          442 LPTVQCLTSRRLNLEVEDW  460 (483)
Q Consensus       442 l~~l~~l~l~~~~~~~~~~  460 (483)
                      +++|+.|++++|.+...+.
T Consensus       374 l~~L~~L~l~~n~~~~~p~  392 (466)
T 1o6v_A          374 LTRITQLGLNDQAWTNAPV  392 (466)
T ss_dssp             CTTCCEEECCCEEEECCCB
T ss_pred             CCCCCEEeccCCcccCCch
Confidence            7888888888888776443

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.43  E-value=9.5e-13  Score=131.07  Aligned_cols=150  Identities=21%  Similarity=0.193  Sum_probs=84.8

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++|+.|++++|.++.++ ...+++|++|++++|.++.++   ++.+++|++|++++|+..+.+  .++.+++|++|
T Consensus       102 ~~~l~~L~~L~L~~N~l~~l~-~~~l~~L~~L~l~~N~l~~l~---l~~l~~L~~L~l~~n~~~~~~--~~~~l~~L~~L  175 (457)
T 3bz5_A          102 VTPLTKLTYLNCDTNKLTKLD-VSQNPLLTYLNCARNTLTEID---VSHNTQLTELDCHLNKKITKL--DVTPQTQLTTL  175 (457)
T ss_dssp             CTTCTTCCEEECCSSCCSCCC-CTTCTTCCEEECTTSCCSCCC---CTTCTTCCEEECTTCSCCCCC--CCTTCTTCCEE
T ss_pred             cCCCCcCCEEECCCCcCCeec-CCCCCcCCEEECCCCccceec---cccCCcCCEEECCCCCccccc--ccccCCcCCEE
Confidence            334556666666666666553 455666666666666665542   455566666666666444444  25566666666


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc--cCCCCCccccc
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS--LCGLPTVQCLT  449 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~--l~~l~~l~~l~  449 (483)
                      ++++|.+..+|  +..+++|+.|++++|.+...              .+..+++|+.|++++|.+..  +..+++|+.|+
T Consensus       176 ~ls~n~l~~l~--l~~l~~L~~L~l~~N~l~~~--------------~l~~l~~L~~L~Ls~N~l~~ip~~~l~~L~~L~  239 (457)
T 3bz5_A          176 DCSFNKITELD--VSQNKLLNRLNCDTNNITKL--------------DLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFD  239 (457)
T ss_dssp             ECCSSCCCCCC--CTTCTTCCEEECCSSCCSCC--------------CCTTCTTCSEEECCSSCCSCCCCTTCTTCSEEE
T ss_pred             ECCCCccceec--cccCCCCCEEECcCCcCCee--------------ccccCCCCCEEECcCCcccccCccccCCCCEEE
Confidence            66666666665  55666666666666664432              24455556666666655433  33445555555


Q ss_pred             ceeeeeeeeecccc
Q 038724          450 SRRLNLEVEDWHKC  463 (483)
Q Consensus       450 l~~~~~~~~~~~~~  463 (483)
                      +++|.+...+...+
T Consensus       240 l~~N~l~~~~~~~l  253 (457)
T 3bz5_A          240 CSVNPLTELDVSTL  253 (457)
T ss_dssp             CCSSCCSCCCCTTC
T ss_pred             eeCCcCCCcCHHHC
Confidence            55555554443333

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.41  E-value=1e-13  Score=141.40  Aligned_cols=107  Identities=21%  Similarity=0.303  Sum_probs=93.9

Q ss_pred             cccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCC
Q 038724          319 HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD  398 (483)
Q Consensus       319 ~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~  398 (483)
                      .|+.|+|++|.++.+|.  +..+++|++|+|++|. +..+|..++.+++|++|++++|.+..+| .++.+++|+.|+|++
T Consensus       442 ~L~~L~Ls~n~l~~lp~--~~~l~~L~~L~Ls~N~-l~~lp~~~~~l~~L~~L~Ls~N~l~~lp-~l~~l~~L~~L~Ls~  517 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCH--LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCN  517 (567)
T ss_dssp             TCSEEECTTSCCSSCCC--GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCS
T ss_pred             CceEEEecCCCCCCCcC--ccccccCcEeecCccc-ccccchhhhcCCCCCEEECCCCCCCCCc-ccCCCCCCcEEECCC
Confidence            58999999999999875  8899999999999997 5588999999999999999999999998 899999999999999


Q ss_pred             CCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc
Q 038724          399 HQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       399 n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      |.+...          ..|..+..+++|+.|++++|++..+
T Consensus       518 N~l~~~----------~~p~~l~~l~~L~~L~L~~N~l~~~  548 (567)
T 1dce_A          518 NRLQQS----------AAIQPLVSCPRLVLLNLQGNSLCQE  548 (567)
T ss_dssp             SCCCSS----------STTGGGGGCTTCCEEECTTSGGGGS
T ss_pred             CCCCCC----------CCcHHHhcCCCCCEEEecCCcCCCC
Confidence            986532          1166788999999999999998654

>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=99.40  E-value=1.1e-12  Score=126.61  Aligned_cols=156  Identities=16%  Similarity=0.207  Sum_probs=103.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC-----c-------------
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE-----L-------------   62 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~-----~-------------   62 (483)
                      |||++++++|.+ +..   +++.|+|++|+|||+|+++++++.   ..  . .+|+.+...     .             
T Consensus        16 ~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~---~~--~-~~~~~~~~~~~~~~~~~~~~~~~l~~~l   85 (357)
T 2fna_A           16 FDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL---NL--P-YIYLDLRKFEERNYISYKDFLLELQKEI   85 (357)
T ss_dssp             CCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH---TC--C-EEEEEGGGGTTCSCCCHHHHHHHHHHHH
T ss_pred             cChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc---CC--C-EEEEEchhhccccCCCHHHHHHHHHHHH
Confidence            799999999999 775   599999999999999999999876   22  2 467765431     0             


Q ss_pred             -------------------------------------CccchhHHhhhcC-CcEEEEEcCCCCcc-----ccccccCCCC
Q 038724           63 -------------------------------------KLETSQDDMILST-KKFLLLLDDLWETI-----DLSKIGVPLP   99 (483)
Q Consensus        63 -------------------------------------~~~~~~~~i~l~~-~~~LlvlDdv~~~~-----~~~~l~~~~~   99 (483)
                                                           ...++...+.-.. ++++|||||++...     ++..+...+.
T Consensus        86 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l~~~~  165 (357)
T 2fna_A           86 NKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYAY  165 (357)
T ss_dssp             HHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHHH
T ss_pred             HHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHHHHHH
Confidence                                                 0111222221111 49999999996532     2222211111


Q ss_pred             CCCCCCEEEEecCChhh-------------------h---hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcC
Q 038724          100 SQKIVSKVVFTTHSEEV-------------------C---VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCG  157 (483)
Q Consensus       100 ~~~~gs~ilvTtR~~~~-------------------~---l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~  157 (483)
                      +...+.++++|+|....                   .   +.+|+.+++.+++......... ...   + ...|++.|+
T Consensus       166 ~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~-~~~---~-~~~i~~~t~  240 (357)
T 2fna_A          166 DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADI-DFK---D-YEVVYEKIG  240 (357)
T ss_dssp             HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTC-CCC---C-HHHHHHHHC
T ss_pred             HcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCC-CCC---c-HHHHHHHhC
Confidence            11135788888886421                   0   7899999999999875532110 111   1 288999999


Q ss_pred             CchHHHHHHHHHhc
Q 038724          158 GLPLALTIVGRAMA  171 (483)
Q Consensus       158 g~Plal~~~~~~l~  171 (483)
                      |+|+++..++..+.
T Consensus       241 G~P~~l~~~~~~~~  254 (357)
T 2fna_A          241 GIPGWLTYFGFIYL  254 (357)
T ss_dssp             SCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHc
Confidence            99999999887664

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.39  E-value=2.8e-13  Score=142.52  Aligned_cols=116  Identities=23%  Similarity=0.279  Sum_probs=98.3

Q ss_pred             cCccccccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccC
Q 038724          287 VVPSDALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKL  365 (483)
Q Consensus       287 ~~~~~~~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l  365 (483)
                      ..++.+..+..|+.|++++|.+..++.. ..+++|++|+|++|.++.+|.. |..+++|++|+|++|.+ ..+|..++.+
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~-~~~l~~L~~L~Ls~N~l-~~lp~~~~~l  292 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAE-IKNLSNLRVLDLSHNRL-TSLPAELGSC  292 (727)
T ss_dssp             -------CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGG-GGGGTTCCEEECTTSCC-SSCCSSGGGG
T ss_pred             cChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCcccChh-hhCCCCCCEEeCcCCcC-CccChhhcCC
Confidence            3455666788899999999999988754 5789999999999999977755 78999999999999975 4889999999


Q ss_pred             cCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          366 VSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       366 ~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      ++|++|+|++|.++.+|..|+.|++|++|+|++|.+...
T Consensus       293 ~~L~~L~L~~N~l~~lp~~~~~l~~L~~L~L~~N~l~~~  331 (727)
T 4b8c_D          293 FQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQ  331 (727)
T ss_dssp             TTCSEEECCSSCCCCCCSSTTSCTTCCCEECTTSCCCSH
T ss_pred             CCCCEEECCCCCCCccChhhhcCCCccEEeCCCCccCCC
Confidence            999999999999999999999999999999999997755

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.39  E-value=1.9e-12  Score=133.08  Aligned_cols=52  Identities=23%  Similarity=0.272  Sum_probs=26.8

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCc
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNR  353 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~  353 (483)
                      ++++.|++++|.++.++.  .+++|++|+|++|.++.++.    .+++|++|++++|+
T Consensus        61 ~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~----~l~~L~~L~Ls~N~  112 (622)
T 3g06_A           61 AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPV----LPPGLLELSIFSNP  112 (622)
T ss_dssp             TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCCCSCCCC----CCTTCCEEEECSCC
T ss_pred             CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCC----CCCCCCEEECcCCc
Confidence            345555555555555544  34555555555555554443    33445555555553

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.39  E-value=2.3e-12  Score=132.41  Aligned_cols=97  Identities=26%  Similarity=0.224  Sum_probs=47.0

Q ss_pred             ccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      +++|+.|++++|.++.++.  .+++|+.|++++|.++.++..    +++|++|++++|+ +..+|..+   .+|+.|+++
T Consensus       100 l~~L~~L~Ls~N~l~~l~~--~l~~L~~L~L~~N~l~~lp~~----l~~L~~L~Ls~N~-l~~l~~~~---~~L~~L~L~  169 (622)
T 3g06_A          100 PPGLLELSIFSNPLTHLPA--LPSGLCKLWIFGNQLTSLPVL----PPGLQELSVSDNQ-LASLPALP---SELCKLWAY  169 (622)
T ss_dssp             CTTCCEEEECSCCCCCCCC--CCTTCCEEECCSSCCSCCCCC----CTTCCEEECCSSC-CSCCCCCC---TTCCEEECC
T ss_pred             CCCCCEEECcCCcCCCCCC--CCCCcCEEECCCCCCCcCCCC----CCCCCEEECcCCc-CCCcCCcc---CCCCEEECC
Confidence            3455555555555555443  445555555555555554442    3556666666664 33333322   233333333


Q ss_pred             CCCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          375 FTSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       375 ~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      +|.+..+|   ..+++|+.|++++|.+..+
T Consensus       170 ~N~l~~l~---~~~~~L~~L~Ls~N~l~~l  196 (622)
T 3g06_A          170 NNQLTSLP---MLPSGLQELSVSDNQLASL  196 (622)
T ss_dssp             SSCCSCCC---CCCTTCCEEECCSSCCSCC
T ss_pred             CCCCCCCc---ccCCCCcEEECCCCCCCCC
Confidence            33333333   1224555555555555544

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.39  E-value=8.9e-13  Score=135.31  Aligned_cols=149  Identities=19%  Similarity=0.156  Sum_probs=97.0

Q ss_pred             ccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccc--hhhhcCCCccEEEccCCccCccCCc-ccccCcC
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKN--GFFQFMPCLKVLNLSYNRFLTKLPS-GISKLVS  367 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~--~~~~~l~~L~~L~l~~n~~~~~~p~-~~~~l~~  367 (483)
                      ..+++++.|++++|.++...+.  ..+++|++|++++|.++.++.  ..+..+++|++|++++|.+.+.+|. .+..+++
T Consensus       350 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~  429 (562)
T 3a79_B          350 PSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAES  429 (562)
T ss_dssp             SSCCCCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTT
T ss_pred             cCCCCceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCccc
Confidence            3566777888888877764332  567788888888887776542  3467777888888888876554554 3667777


Q ss_pred             CCEEeccCCCCC-ccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCC
Q 038724          368 LQHLDISFTSTL-ELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCG  441 (483)
Q Consensus       368 L~~L~l~~~~i~-~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~  441 (483)
                      |++|++++|.+. .+|..+.  ++|+.|++++|++..+|            ..+..+++|+.|++++|.+..     +..
T Consensus       430 L~~L~l~~n~l~~~~~~~l~--~~L~~L~L~~N~l~~ip------------~~~~~l~~L~~L~L~~N~l~~l~~~~~~~  495 (562)
T 3a79_B          430 ILVLNLSSNMLTGSVFRCLP--PKVKVLDLHNNRIMSIP------------KDVTHLQALQELNVASNQLKSVPDGVFDR  495 (562)
T ss_dssp             CCEEECCSSCCCGGGGSSCC--TTCSEEECCSSCCCCCC------------TTTTSSCCCSEEECCSSCCCCCCTTSTTT
T ss_pred             CCEEECCCCCCCcchhhhhc--CcCCEEECCCCcCcccC------------hhhcCCCCCCEEECCCCCCCCCCHHHHhc
Confidence            888888777753 3333332  57777888777755332            234467777777777777644     344


Q ss_pred             CCCcccccceeeee
Q 038724          442 LPTVQCLTSRRLNL  455 (483)
Q Consensus       442 l~~l~~l~l~~~~~  455 (483)
                      +++|+.|++++|.+
T Consensus       496 l~~L~~L~l~~N~~  509 (562)
T 3a79_B          496 LTSLQYIWLHDNPW  509 (562)
T ss_dssp             CTTCCCEECCSCCB
T ss_pred             CCCCCEEEecCCCc
Confidence            55566666555544

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.38  E-value=1.5e-13  Score=131.42  Aligned_cols=151  Identities=21%  Similarity=0.197  Sum_probs=114.2

Q ss_pred             cccceEEEEcccccccc--ccC-CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCC-ccCc-cCCcccccCcCC
Q 038724          294 KWLGLRRMSLMNNQIKT--LLN-TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN-RFLT-KLPSGISKLVSL  368 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~--~~~-~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n-~~~~-~~p~~~~~l~~L  368 (483)
                      .+++++.|++++|.++.  ++. ...+++|++|++++|.+....+..+..+++|++|++++| .+.+ .+|..+..+++|
T Consensus        91 ~~~~L~~L~L~~~~l~~~~~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L  170 (336)
T 2ast_B           91 SPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRL  170 (336)
T ss_dssp             CCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTC
T ss_pred             cCCCCCEEEccCCCcCHHHHHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCC
Confidence            56788888888888764  222 256788888888888877655556777888888888888 3333 356667788888


Q ss_pred             CEEeccCC-CCCc--cCccccCCc-CCCEEecCCCC--CcCCCCCCCCccchhhHhhhccccccccceeeccC-c-----
Q 038724          369 QHLDISFT-STLE--LPEELKALE-KLKYLDMDDHQ--QVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS-L-----  436 (483)
Q Consensus       369 ~~L~l~~~-~i~~--lp~~~~~l~-~L~~L~l~~n~--~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~-l-----  436 (483)
                      ++|++++| .+..  +|..+..++ +|++|++++|.  +.          ....+..+..+++|+.|++++|. +     
T Consensus       171 ~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~----------~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~  240 (336)
T 2ast_B          171 DELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQ----------KSDLSTLVRRCPNLVHLDLSDSVMLKNDCF  240 (336)
T ss_dssp             CEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSC----------HHHHHHHHHHCTTCSEEECTTCTTCCGGGG
T ss_pred             CEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCC----------HHHHHHHHhhCCCCCEEeCCCCCcCCHHHH
Confidence            88888888 6765  566678888 88888888884  21          24456677889999999999998 4     


Q ss_pred             cccCCCCCcccccceeee
Q 038724          437 CSLCGLPTVQCLTSRRLN  454 (483)
Q Consensus       437 ~~l~~l~~l~~l~l~~~~  454 (483)
                      ..+..+++|+.|++++|.
T Consensus       241 ~~l~~l~~L~~L~l~~~~  258 (336)
T 2ast_B          241 QEFFQLNYLQHLSLSRCY  258 (336)
T ss_dssp             GGGGGCTTCCEEECTTCT
T ss_pred             HHHhCCCCCCEeeCCCCC
Confidence            346778899999998873

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.38  E-value=1.7e-12  Score=131.88  Aligned_cols=96  Identities=21%  Similarity=0.220  Sum_probs=52.6

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccC
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISF  375 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~  375 (483)
                      ++++.|++++|.++.++  ..+++|++|++++|.++.++.  +..  +|++|++++|.+. .+|.   .+++|++|++++
T Consensus        80 ~~L~~L~Ls~N~l~~ip--~~l~~L~~L~Ls~N~l~~ip~--l~~--~L~~L~Ls~N~l~-~lp~---~l~~L~~L~Ls~  149 (571)
T 3cvr_A           80 PQITVLEITQNALISLP--ELPASLEYLDACDNRLSTLPE--LPA--SLKHLDVDNNQLT-MLPE---LPALLEYINADN  149 (571)
T ss_dssp             TTCSEEECCSSCCSCCC--CCCTTCCEEECCSSCCSCCCC--CCT--TCCEEECCSSCCS-CCCC---CCTTCCEEECCS
T ss_pred             CCCCEEECcCCCCcccc--cccCCCCEEEccCCCCCCcch--hhc--CCCEEECCCCcCC-CCCC---cCccccEEeCCC
Confidence            44666666666666555  445566666666666655444  222  5666666666432 2444   355556666665


Q ss_pred             CCCCccCccccCCcCCCEEecCCCCCcCC
Q 038724          376 TSTLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       376 ~~i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      |.+..+|.   .+++|+.|++++|.+..+
T Consensus       150 N~l~~lp~---~l~~L~~L~Ls~N~L~~l  175 (571)
T 3cvr_A          150 NQLTMLPE---LPTSLEVLSVRNNQLTFL  175 (571)
T ss_dssp             SCCSCCCC---CCTTCCEEECCSSCCSCC
T ss_pred             CccCcCCC---cCCCcCEEECCCCCCCCc
Confidence            55555554   345555555555554433

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.38  E-value=9.5e-13  Score=134.23  Aligned_cols=123  Identities=21%  Similarity=0.260  Sum_probs=104.7

Q ss_pred             ceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCC
Q 038724          297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT  376 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~  376 (483)
                      .++.|++++|.++.+|....+++|+.|+|++|.++.+|.. ++.+++|++|+|++|.+. .+| .++.+++|++|++++|
T Consensus       442 ~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~~lp~~-~~~l~~L~~L~Ls~N~l~-~lp-~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPA-LAALRCLEVLQASDNALE-NVD-GVANLPRLQELLLCNN  518 (567)
T ss_dssp             TCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSSCCC-CCG-GGTTCSSCCEEECCSS
T ss_pred             CceEEEecCCCCCCCcCccccccCcEeecCcccccccchh-hhcCCCCCEEECCCCCCC-CCc-ccCCCCCCcEEECCCC
Confidence            5889999999999998878899999999999999988764 899999999999999754 578 8999999999999999


Q ss_pred             CCCcc--CccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccce
Q 038724          377 STLEL--PEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIR  430 (483)
Q Consensus       377 ~i~~l--p~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~  430 (483)
                      .+..+  |..++.+++|+.|+|++|.+...|..        ...-+..+++|+.|+
T Consensus       519 ~l~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~--------~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          519 RLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGI--------QERLAEMLPSVSSIL  566 (567)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTTSGGGGSSSC--------TTHHHHHCTTCSEEE
T ss_pred             CCCCCCCcHHHhcCCCCCEEEecCCcCCCCccH--------HHHHHHHCcccCccC
Confidence            99998  88899999999999999998766431        112234467777765

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.38  E-value=1.7e-12  Score=113.39  Aligned_cols=107  Identities=25%  Similarity=0.294  Sum_probs=97.5

Q ss_pred             cceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          296 LGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      .+++.|++++|.++.++.. ..+++|+.|+|++|.++.+++..|..+++|++|+|++|++....|..+..+++|++|+++
T Consensus        31 ~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~L~  110 (193)
T 2wfh_A           31 RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLH  110 (193)
T ss_dssp             TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECC
T ss_pred             CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCccCEeCHHHhCCCCCCCEEECC
Confidence            5789999999999988743 578999999999999999999889999999999999998777777789999999999999


Q ss_pred             CCCCCccCcc-ccCCcCCCEEecCCCCCc
Q 038724          375 FTSTLELPEE-LKALEKLKYLDMDDHQQV  402 (483)
Q Consensus       375 ~~~i~~lp~~-~~~l~~L~~L~l~~n~~~  402 (483)
                      +|.+..+|.. +..+++|+.|++++|.+.
T Consensus       111 ~N~l~~~~~~~~~~l~~L~~L~L~~N~~~  139 (193)
T 2wfh_A          111 GNDISVVPEGAFNDLSALSHLAIGANPLY  139 (193)
T ss_dssp             SSCCCBCCTTTTTTCTTCCEEECCSSCEE
T ss_pred             CCCCCeeChhhhhcCccccEEEeCCCCee
Confidence            9999999986 889999999999999865

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.37  E-value=2.8e-12  Score=110.01  Aligned_cols=105  Identities=18%  Similarity=0.255  Sum_probs=80.4

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      +.+++++|.++.+|... .++|+.|+|++|.++.+++..|..+++|++|+|++|++.+..+..+..+++|++|++++|.+
T Consensus        15 ~~l~~~~n~l~~iP~~~-~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~l   93 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGI-PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHL   93 (174)
T ss_dssp             SEEECCSSCCSSCCSCC-CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             cEEEeCCCCCCccCCCc-CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCcc
Confidence            46788888887776532 37888888888888888777788888888888888864443333457888888888888888


Q ss_pred             CccCcc-ccCCcCCCEEecCCCCCcCC
Q 038724          379 LELPEE-LKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       379 ~~lp~~-~~~l~~L~~L~l~~n~~~~~  404 (483)
                      ..+|.. +..+++|++|+|++|.+...
T Consensus        94 ~~l~~~~~~~l~~L~~L~L~~N~~~c~  120 (174)
T 2r9u_A           94 KSIPRGAFDNLKSLTHIYLYNNPWDCE  120 (174)
T ss_dssp             CCCCTTTTTTCTTCSEEECCSSCBCTT
T ss_pred             ceeCHHHhccccCCCEEEeCCCCcccc
Confidence            888876 77888888888888876544

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.37  E-value=1.5e-12  Score=113.78  Aligned_cols=107  Identities=20%  Similarity=0.230  Sum_probs=96.8

Q ss_pred             ceEEEEccccccccccCC---CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          297 GLRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~---~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .++.|++++|.++.+++.   ..+++|++|+|++|.++.+++..|..+++|++|+|++|++.+..|..+..+++|++|++
T Consensus        30 ~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L  109 (192)
T 1w8a_A           30 HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNL  109 (192)
T ss_dssp             TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEEC
T ss_pred             CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCcCCccCHHHhcCCCCCCEEEC
Confidence            788999999999988763   57899999999999999998888999999999999999877777777999999999999


Q ss_pred             cCCCCCcc-CccccCCcCCCEEecCCCCCcC
Q 038724          374 SFTSTLEL-PEELKALEKLKYLDMDDHQQVM  403 (483)
Q Consensus       374 ~~~~i~~l-p~~~~~l~~L~~L~l~~n~~~~  403 (483)
                      ++|.+..+ |..+..+++|++|++++|.+..
T Consensus       110 ~~N~l~~~~~~~~~~l~~L~~L~L~~N~l~c  140 (192)
T 1w8a_A          110 YDNQISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CSSCCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             CCCcCCeeCHHHhhcCCCCCEEEeCCCCccC
Confidence            99998877 5568999999999999999764

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.37  E-value=2.8e-12  Score=109.61  Aligned_cols=106  Identities=16%  Similarity=0.206  Sum_probs=86.0

Q ss_pred             eEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       298 l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      .+.+++++|.++.+|... .++|++|+|++|.++.+++..|..+++|++|+|++|++.+..|..+..+++|++|++++|.
T Consensus        11 ~~~l~~s~n~l~~ip~~~-~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~   89 (170)
T 3g39_A           11 GTTVDCSGKSLASVPTGI-PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ   89 (170)
T ss_dssp             TTEEECTTSCCSSCCSCC-CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCEEEeCCCCcCccCccC-CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCc
Confidence            356888888888877543 4788999999999988888878889999999999997555444556888999999999999


Q ss_pred             CCccCcc-ccCCcCCCEEecCCCCCcCC
Q 038724          378 TLELPEE-LKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       378 i~~lp~~-~~~l~~L~~L~l~~n~~~~~  404 (483)
                      +..+|.. +..+++|++|+|++|.+...
T Consensus        90 l~~~~~~~~~~l~~L~~L~L~~N~~~c~  117 (170)
T 3g39_A           90 LKSIPRGAFDNLKSLTHIWLLNNPWDCA  117 (170)
T ss_dssp             CCCCCTTTTTTCTTCCEEECCSSCBCTT
T ss_pred             cCEeCHHHhcCCCCCCEEEeCCCCCCCC
Confidence            8888875 78889999999999886544

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.36  E-value=2.1e-13  Score=130.40  Aligned_cols=165  Identities=18%  Similarity=0.243  Sum_probs=126.0

Q ss_pred             CccccccccceEEEEccccccccccC--CCCCCcccEEEecCC-ccccc-cchhhhcCCCccEEEccCC-ccCcc-CCcc
Q 038724          288 VPSDALKWLGLRRMSLMNNQIKTLLN--TPSCPHLLTLFLNDN-YLQDI-KNGFFQFMPCLKVLNLSYN-RFLTK-LPSG  361 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~~~~~~~~~--~~~~~~L~~L~l~~n-~~~~~-~~~~~~~l~~L~~L~l~~n-~~~~~-~p~~  361 (483)
                      ++..+..+++|+.|++++|.++...+  ...+++|++|++++| .++.. .+..+..+++|++|++++| .+... +|..
T Consensus       110 ~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~  189 (336)
T 2ast_B          110 LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVA  189 (336)
T ss_dssp             HHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHH
T ss_pred             HHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHH
Confidence            44455678899999999998774322  256899999999999 67642 3445788999999999999 65543 5677


Q ss_pred             cccCc-CCCEEeccCCC--C--CccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccC-
Q 038724          362 ISKLV-SLQHLDISFTS--T--LELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS-  435 (483)
Q Consensus       362 ~~~l~-~L~~L~l~~~~--i--~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~-  435 (483)
                      +..++ +|++|++++|.  +  ..+|..+..+++|++|++++|...          ....+..+..+++|+.|++++|. 
T Consensus       190 ~~~l~~~L~~L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l----------~~~~~~~l~~l~~L~~L~l~~~~~  259 (336)
T 2ast_B          190 VAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVML----------KNDCFQEFFQLNYLQHLSLSRCYD  259 (336)
T ss_dssp             HHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTC----------CGGGGGGGGGCTTCCEEECTTCTT
T ss_pred             HHhcccCCCEEEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcC----------CHHHHHHHhCCCCCCEeeCCCCCC
Confidence            88899 99999999994  3  557777888999999999999832          24456678889999999999994 


Q ss_pred             c-----cccCCCCCcccccceeeeeeeeecccc
Q 038724          436 L-----CSLCGLPTVQCLTSRRLNLEVEDWHKC  463 (483)
Q Consensus       436 l-----~~l~~l~~l~~l~l~~~~~~~~~~~~~  463 (483)
                      +     ..+..+++|+.|+++++ +....+...
T Consensus       260 ~~~~~~~~l~~~~~L~~L~l~~~-i~~~~~~~l  291 (336)
T 2ast_B          260 IIPETLLELGEIPTLKTLQVFGI-VPDGTLQLL  291 (336)
T ss_dssp             CCGGGGGGGGGCTTCCEEECTTS-SCTTCHHHH
T ss_pred             CCHHHHHHHhcCCCCCEEeccCc-cCHHHHHHH
Confidence            3     24677899999999877 544444433

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.36  E-value=4.8e-12  Score=128.49  Aligned_cols=148  Identities=23%  Similarity=0.314  Sum_probs=109.5

Q ss_pred             ceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCC
Q 038724          297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT  376 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~  376 (483)
                      +++.|++++|.++++|.. .+++|++|+|++|.++.+|    ..+++|++|++++|++.+ +|. +..  +|++|++++|
T Consensus        60 ~L~~L~Ls~n~L~~lp~~-l~~~L~~L~Ls~N~l~~ip----~~l~~L~~L~Ls~N~l~~-ip~-l~~--~L~~L~Ls~N  130 (571)
T 3cvr_A           60 QFSELQLNRLNLSSLPDN-LPPQITVLEITQNALISLP----ELPASLEYLDACDNRLST-LPE-LPA--SLKHLDVDNN  130 (571)
T ss_dssp             TCSEEECCSSCCSCCCSC-CCTTCSEEECCSSCCSCCC----CCCTTCCEEECCSSCCSC-CCC-CCT--TCCEEECCSS
T ss_pred             CccEEEeCCCCCCccCHh-HcCCCCEEECcCCCCcccc----cccCCCCEEEccCCCCCC-cch-hhc--CCCEEECCCC
Confidence            688999999999997764 3589999999999999887    347899999999997554 887 665  9999999999


Q ss_pred             CCCccCccccCCcCCCEEecCCCCCcCCCC-CCCCc-------cchhhHhhhccccccccceeeccCccccCCCC-Cc--
Q 038724          377 STLELPEELKALEKLKYLDMDDHQQVMEEG-NCQSD-------DAESLLKEMLCLEQLNIIRLTSCSLCSLCGLP-TV--  445 (483)
Q Consensus       377 ~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~-~~~l~-------~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~l~-~l--  445 (483)
                      .+..+|.   .+++|+.|++++|.+..+|. ...+.       ....+|. +.  ++|+.|++++|.+..+..++ +|  
T Consensus       131 ~l~~lp~---~l~~L~~L~Ls~N~l~~lp~~l~~L~~L~Ls~N~L~~lp~-l~--~~L~~L~Ls~N~L~~lp~~~~~L~~  204 (571)
T 3cvr_A          131 QLTMLPE---LPALLEYINADNNQLTMLPELPTSLEVLSVRNNQLTFLPE-LP--ESLEALDVSTNLLESLPAVPVRNHH  204 (571)
T ss_dssp             CCSCCCC---CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCCC-CC--TTCCEEECCSSCCSSCCCCC-----
T ss_pred             cCCCCCC---cCccccEEeCCCCccCcCCCcCCCcCEEECCCCCCCCcch-hh--CCCCEEECcCCCCCchhhHHHhhhc
Confidence            9999998   68999999999999887654 22222       1111222 33  67777777777765544332 44  


Q ss_pred             -----ccccceeeeeeeee
Q 038724          446 -----QCLTSRRLNLEVED  459 (483)
Q Consensus       446 -----~~l~l~~~~~~~~~  459 (483)
                           +.|++++|.+...+
T Consensus       205 ~~~~L~~L~Ls~N~l~~lp  223 (571)
T 3cvr_A          205 SEETEIFFRCRENRITHIP  223 (571)
T ss_dssp             ---CCEEEECCSSCCCCCC
T ss_pred             ccccceEEecCCCcceecC
Confidence                 66677766666443

>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=99.36  E-value=4.1e-12  Score=115.45  Aligned_cols=167  Identities=14%  Similarity=0.118  Sum_probs=109.4

Q ss_pred             CCChhHHHHHHHHHhcCC-eEEEEEEcCCCCcHHHHHHHHHhhcccCCC------------------CCCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKD-VGIIGLFGTGGVGKTTILKQINNRFCSERP------------------GFDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~-~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~------------------~f~~~~~v~~~~~   61 (483)
                      |||++.++.+.+++..+. .+.+.|+|++|+||||+|+++++.......                  .+.....+.....
T Consensus        26 ~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (250)
T 1njg_A           26 VGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASR  105 (250)
T ss_dssp             CSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEEETTCG
T ss_pred             hCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEecCccc
Confidence            699999999999998764 357999999999999999999887621110                  0111222322221


Q ss_pred             cCcc---chhHHh---hhcCCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCChhhh------------hccC
Q 038724           62 LKLE---TSQDDM---ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCF  121 (483)
Q Consensus        62 ~~~~---~~~~~i---~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L  121 (483)
                      ....   .+...+   ...+++.+||+||++..  ..+..+...+.....+..+|+||+.....            ++++
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l  185 (250)
T 1njg_A          106 TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKAL  185 (250)
T ss_dssp             GGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             ccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhccCCCC
Confidence            1111   111111   24567899999999753  33444443333334467888887655322            8899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHh
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAM  170 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l  170 (483)
                      +.++..+++...+....   ..-..+..+.|++.|+|+|..+..+...+
T Consensus       186 ~~~e~~~~l~~~~~~~~---~~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          186 DVEQIRHQLEHILNEEH---IAHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             CHHHHHHHHHHHHHHTT---CCBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            99999999988774332   12234668899999999999987766543

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.35  E-value=9.6e-13  Score=138.40  Aligned_cols=109  Identities=27%  Similarity=0.255  Sum_probs=96.0

Q ss_pred             CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEE
Q 038724          315 PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYL  394 (483)
Q Consensus       315 ~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L  394 (483)
                      ..+++|+.|+|++|.+..+++..+ .+++|++|+|++|.+ ..+|..++.+++|++|+|++|.+..+|..++.|++|++|
T Consensus       221 ~~l~~L~~L~Ls~n~l~~l~~~~~-~l~~L~~L~Ls~N~l-~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L  298 (727)
T 4b8c_D          221 YDDQLWHALDLSNLQIFNISANIF-KYDFLTRLYLNGNSL-TELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF  298 (727)
T ss_dssp             -CCCCCCEEECTTSCCSCCCGGGG-GCCSCSCCBCTTSCC-SCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEE
T ss_pred             ccCCCCcEEECCCCCCCCCChhhc-CCCCCCEEEeeCCcC-cccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEE
Confidence            467899999999999998888744 899999999999975 489999999999999999999999999999999999999


Q ss_pred             ecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcc
Q 038724          395 DMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC  437 (483)
Q Consensus       395 ~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~  437 (483)
                      +|++|.+..+            |..++.|++|+.|+|++|++.
T Consensus       299 ~L~~N~l~~l------------p~~~~~l~~L~~L~L~~N~l~  329 (727)
T 4b8c_D          299 YFFDNMVTTL------------PWEFGNLCNLQFLGVEGNPLE  329 (727)
T ss_dssp             ECCSSCCCCC------------CSSTTSCTTCCCEECTTSCCC
T ss_pred             ECCCCCCCcc------------ChhhhcCCCccEEeCCCCccC
Confidence            9999986543            345778889999999998864

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.34  E-value=5e-12  Score=108.89  Aligned_cols=110  Identities=20%  Similarity=0.282  Sum_probs=97.3

Q ss_pred             ccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          295 WLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      .++++.|++++|.++.+++.  ..+++|++|++++|.++.+++..|..+++|++|++++|.+.+..+..+..+++|++|+
T Consensus        27 ~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~  106 (177)
T 2o6r_A           27 PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELA  106 (177)
T ss_dssp             CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCccccCHHHhhCCcccCEEE
Confidence            35789999999999988764  5789999999999999999998889999999999999986655555678999999999


Q ss_pred             ccCCCCCccCcc-ccCCcCCCEEecCCCCCcCC
Q 038724          373 ISFTSTLELPEE-LKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       373 l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~  404 (483)
                      +++|.+..+|.. +..+++|++|++++|.+...
T Consensus       107 l~~N~l~~~~~~~~~~l~~L~~L~l~~N~~~~~  139 (177)
T 2o6r_A          107 LDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCS  139 (177)
T ss_dssp             CCSSCCSCCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             CcCCcceEeCHHHhcCCcccCEEEecCCCeecc
Confidence            999999999987 57899999999999997644

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.33  E-value=1e-11  Score=123.56  Aligned_cols=151  Identities=26%  Similarity=0.294  Sum_probs=80.5

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccC
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISF  375 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~  375 (483)
                      .+++.|++++|.++.++...  ++|++|++++|.++.++ . +..+++|++|++++|++ ..+|..+   .+|++|++++
T Consensus       111 ~~L~~L~l~~n~l~~l~~~~--~~L~~L~L~~n~l~~lp-~-~~~l~~L~~L~l~~N~l-~~lp~~~---~~L~~L~L~~  182 (454)
T 1jl5_A          111 QSLKSLLVDNNNLKALSDLP--PLLEYLGVSNNQLEKLP-E-LQNSSFLKIIDVDNNSL-KKLPDLP---PSLEFIAAGN  182 (454)
T ss_dssp             TTCCEEECCSSCCSCCCSCC--TTCCEEECCSSCCSSCC-C-CTTCTTCCEEECCSSCC-SCCCCCC---TTCCEEECCS
T ss_pred             CCCcEEECCCCccCcccCCC--CCCCEEECcCCCCCCCc-c-cCCCCCCCEEECCCCcC-cccCCCc---ccccEEECcC
Confidence            44555666666555544321  46666666666666554 2 56666666666666643 3344332   3566666666


Q ss_pred             CCCCccCccccCCcCCCEEecCCCCCcCCCC-CCCCc-------cchhhHhhhccccccccceeeccCccccCC-CCCcc
Q 038724          376 TSTLELPEELKALEKLKYLDMDDHQQVMEEG-NCQSD-------DAESLLKEMLCLEQLNIIRLTSCSLCSLCG-LPTVQ  446 (483)
Q Consensus       376 ~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~-~~~l~-------~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~-l~~l~  446 (483)
                      |.+..+| .++.+++|++|++++|.+...|. ...++       .....+ .+..+++|+.|++++|.+..+.. +++|+
T Consensus       183 n~l~~l~-~~~~l~~L~~L~l~~N~l~~l~~~~~~L~~L~l~~n~l~~lp-~~~~l~~L~~L~l~~N~l~~l~~~~~~L~  260 (454)
T 1jl5_A          183 NQLEELP-ELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELP-ELQNLPFLTTIYADNNLLKTLPDLPPSLE  260 (454)
T ss_dssp             SCCSSCC-CCTTCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCCSSCC-CCTTCTTCCEEECCSSCCSSCCSCCTTCC
T ss_pred             CcCCcCc-cccCCCCCCEEECCCCcCCcCCCCcCcccEEECcCCcCCccc-ccCCCCCCCEEECCCCcCCcccccccccC
Confidence            6666555 45666666666666666555433 11121       011222 35566677777777766654422 24555


Q ss_pred             cccceeeeee
Q 038724          447 CLTSRRLNLE  456 (483)
Q Consensus       447 ~l~l~~~~~~  456 (483)
                      .|++++|.+.
T Consensus       261 ~L~l~~N~l~  270 (454)
T 1jl5_A          261 ALNVRDNYLT  270 (454)
T ss_dssp             EEECCSSCCS
T ss_pred             EEECCCCccc
Confidence            5555554444

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.33  E-value=3.1e-12  Score=122.95  Aligned_cols=156  Identities=15%  Similarity=0.149  Sum_probs=105.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc------C-----------
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL------K-----------   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~------~-----------   63 (483)
                      |||++++++|.+++..+  +++.|+|++|+|||+|+++++++.   .     .+|+++....      +           
T Consensus        15 ~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~   84 (350)
T 2qen_A           15 FDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELIKELQST   84 (350)
T ss_dssp             CSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHHHHHHHH
Confidence            79999999999999875  699999999999999999999865   1     5677654321      1           


Q ss_pred             ----------------------------ccchhHHh--hhc-CCcEEEEEcCCCCccc---------cccccCCCCCCCC
Q 038724           64 ----------------------------LETSQDDM--ILS-TKKFLLLLDDLWETID---------LSKIGVPLPSQKI  103 (483)
Q Consensus        64 ----------------------------~~~~~~~i--~l~-~~~~LlvlDdv~~~~~---------~~~l~~~~~~~~~  103 (483)
                                                  ..++...+  ... .++++|||||++....         +..+.... ....
T Consensus        85 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~-~~~~  163 (350)
T 2qen_A           85 ISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAY-DSLP  163 (350)
T ss_dssp             SCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHH-HHCT
T ss_pred             HHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHH-HhcC
Confidence                                        01111111  111 2389999999976432         11111111 1113


Q ss_pred             CCEEEEecCChhh------------------h----hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH
Q 038724          104 VSKVVFTTHSEEV------------------C----VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       104 gs~ilvTtR~~~~------------------~----l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  161 (483)
                      +.++++|++....                  .    +.+|+.+++.+++.........   .-..+.++.+++.|+|+|+
T Consensus       164 ~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~---~~~~~~~~~i~~~tgG~P~  240 (350)
T 2qen_A          164 NLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNL---DVPENEIEEAVELLDGIPG  240 (350)
T ss_dssp             TEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTC---CCCHHHHHHHHHHHTTCHH
T ss_pred             CeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhCCCHH
Confidence            5788888765321                  0    7899999999999876533221   1234568899999999999


Q ss_pred             HHHHHHHHh
Q 038724          162 ALTIVGRAM  170 (483)
Q Consensus       162 al~~~~~~l  170 (483)
                      ++..++..+
T Consensus       241 ~l~~~~~~~  249 (350)
T 2qen_A          241 WLVVFGVEY  249 (350)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988654

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.33  E-value=9.1e-12  Score=123.86  Aligned_cols=100  Identities=22%  Similarity=0.289  Sum_probs=64.4

Q ss_pred             cceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccC
Q 038724          296 LGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISF  375 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~  375 (483)
                      ++++.|++++|.+++++.  .+++|++|++++|.+..++..    .++|++|++++|.+. .+| .++.+++|++|++++
T Consensus        91 ~~L~~L~l~~n~l~~lp~--~~~~L~~L~l~~n~l~~l~~~----~~~L~~L~L~~n~l~-~lp-~~~~l~~L~~L~l~~  162 (454)
T 1jl5_A           91 PHLESLVASCNSLTELPE--LPQSLKSLLVDNNNLKALSDL----PPLLEYLGVSNNQLE-KLP-ELQNSSFLKIIDVDN  162 (454)
T ss_dssp             TTCSEEECCSSCCSSCCC--CCTTCCEEECCSSCCSCCCSC----CTTCCEEECCSSCCS-SCC-CCTTCTTCCEEECCS
T ss_pred             CCCCEEEccCCcCCcccc--ccCCCcEEECCCCccCcccCC----CCCCCEEECcCCCCC-CCc-ccCCCCCCCEEECCC
Confidence            456666666666666543  236677777777766655431    256777777777543 466 477777777777777


Q ss_pred             CCCCccCccccCCcCCCEEecCCCCCcCCCC
Q 038724          376 TSTLELPEELKALEKLKYLDMDDHQQVMEEG  406 (483)
Q Consensus       376 ~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~  406 (483)
                      |.+..+|..+   .+|++|++++|.+..+|.
T Consensus       163 N~l~~lp~~~---~~L~~L~L~~n~l~~l~~  190 (454)
T 1jl5_A          163 NSLKKLPDLP---PSLEFIAAGNNQLEELPE  190 (454)
T ss_dssp             SCCSCCCCCC---TTCCEEECCSSCCSSCCC
T ss_pred             CcCcccCCCc---ccccEEECcCCcCCcCcc
Confidence            7777776543   467777777777655444

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.32  E-value=6.7e-12  Score=107.21  Aligned_cols=108  Identities=22%  Similarity=0.237  Sum_probs=93.2

Q ss_pred             cccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecC
Q 038724          319 HLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMD  397 (483)
Q Consensus       319 ~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~  397 (483)
                      ..+.+++++|.++.+|...   .++|++|+|++|.+.+..|..+..+++|++|++++|.+..+|.. +..+++|++|+|+
T Consensus        10 ~~~~l~~s~n~l~~ip~~~---~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~   86 (170)
T 3g39_A           10 SGTTVDCSGKSLASVPTGI---PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN   86 (170)
T ss_dssp             ETTEEECTTSCCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEeCCCCcCccCccC---CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECC
Confidence            4578999999999988763   37899999999987777788899999999999999999999987 6899999999999


Q ss_pred             CCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccC
Q 038724          398 DHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLC  440 (483)
Q Consensus       398 ~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~  440 (483)
                      +|++..+|.           ..+..+++|+.|++++|++.+.+
T Consensus        87 ~N~l~~~~~-----------~~~~~l~~L~~L~L~~N~~~c~c  118 (170)
T 3g39_A           87 DNQLKSIPR-----------GAFDNLKSLTHIWLLNNPWDCAC  118 (170)
T ss_dssp             SSCCCCCCT-----------TTTTTCTTCCEEECCSSCBCTTB
T ss_pred             CCccCEeCH-----------HHhcCCCCCCEEEeCCCCCCCCc
Confidence            999775532           34778999999999999987654

>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=99.31  E-value=4.9e-12  Score=113.23  Aligned_cols=163  Identities=9%  Similarity=0.038  Sum_probs=108.1

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---h-----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---I-----   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---~-----   72 (483)
                      |||++.++++.+++.....+.+.|+|++|+|||++|+++++... ....-...+.+..+.......+...+   .     
T Consensus        20 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (226)
T 2chg_A           20 VGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHKIKEFARTAPI   98 (226)
T ss_dssp             CSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHH-GGGGGGGEEEEETTCTTCHHHHHHHHHHHHTSCCS
T ss_pred             cCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHh-ccccccceEEeccccccChHHHHHHHHHHhcccCC
Confidence            69999999999999987666699999999999999999998751 11111123344444443333333322   1     


Q ss_pred             hcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCCc
Q 038724           73 LSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        73 l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      ..+++.+||+||++...  ....+...+.....+.++|+||+.....            +.+++.++..+++...+....
T Consensus        99 ~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~~~  178 (226)
T 2chg_A           99 GGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEG  178 (226)
T ss_dssp             TTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT
T ss_pred             CccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHHHHHHHHHHcC
Confidence            13688999999997652  2333333332334457888887765322            889999999999988764322


Q ss_pred             ccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      .   .-..+..+.+++.++|.|..+..+.
T Consensus       179 ~---~~~~~~~~~l~~~~~g~~r~l~~~l  204 (226)
T 2chg_A          179 V---KITEDGLEALIYISGGDFRKAINAL  204 (226)
T ss_dssp             C---CBCHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             C---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            1   1234567889999999998654433

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.31  E-value=3.2e-12  Score=122.87  Aligned_cols=86  Identities=21%  Similarity=0.221  Sum_probs=44.5

Q ss_pred             ceEEEEccccccccccCC--CCCCcccEEEecCCccc-cccchhhhcCCCccE-EEccCCccCccCCcccccCcCCCEEe
Q 038724          297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQ-DIKNGFFQFMPCLKV-LNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~-~~~~~~~~~l~~L~~-L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      +++.|++++|+++.+++.  ..+++|++|+|++|.+. .+++..|.+++++.. +.+++|++....|..+..+++|++|+
T Consensus        31 ~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~  110 (350)
T 4ay9_X           31 NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLL  110 (350)
T ss_dssp             TCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEE
T ss_pred             CCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhcccccccc
Confidence            455566666666655543  34566666666666543 244444555555433 33444443333344555555555555


Q ss_pred             ccCCCCCccC
Q 038724          373 ISFTSTLELP  382 (483)
Q Consensus       373 l~~~~i~~lp  382 (483)
                      +++|.+..+|
T Consensus       111 l~~n~l~~~~  120 (350)
T 4ay9_X          111 ISNTGIKHLP  120 (350)
T ss_dssp             EEEECCSSCC
T ss_pred             ccccccccCC
Confidence            5555554444

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.30  E-value=9.6e-12  Score=106.61  Aligned_cols=107  Identities=21%  Similarity=0.205  Sum_probs=92.6

Q ss_pred             ccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCC
Q 038724          320 LLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDD  398 (483)
Q Consensus       320 L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~  398 (483)
                      -+.+++++|.+..+|...   .++|++|+|++|.+.+..|..+..+++|++|++++|.+..+|.. +..+++|++|+|++
T Consensus        14 ~~~l~~~~n~l~~iP~~~---~~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~   90 (174)
T 2r9u_A           14 QTLVNCQNIRLASVPAGI---PTDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLND   90 (174)
T ss_dssp             SSEEECCSSCCSSCCSCC---CTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CcEEEeCCCCCCccCCCc---CCCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCC
Confidence            378999999999988763   37899999999987777788899999999999999999999987 58999999999999


Q ss_pred             CCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccC
Q 038724          399 HQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLC  440 (483)
Q Consensus       399 n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~  440 (483)
                      |++..+|.           ..+..+++|+.|++++|++.+..
T Consensus        91 N~l~~l~~-----------~~~~~l~~L~~L~L~~N~~~c~~  121 (174)
T 2r9u_A           91 NHLKSIPR-----------GAFDNLKSLTHIYLYNNPWDCEC  121 (174)
T ss_dssp             SCCCCCCT-----------TTTTTCTTCSEEECCSSCBCTTB
T ss_pred             CccceeCH-----------HHhccccCCCEEEeCCCCccccc
Confidence            99765532           23778999999999999987654

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.30  E-value=8.9e-13  Score=128.68  Aligned_cols=132  Identities=20%  Similarity=0.201  Sum_probs=68.5

Q ss_pred             CcccEEEecCCccccc-cc---hhhhcCCCccEEEccCCccCc-----cCCcccccCcCCCEEeccCCCC-----CccCc
Q 038724          318 PHLLTLFLNDNYLQDI-KN---GFFQFMPCLKVLNLSYNRFLT-----KLPSGISKLVSLQHLDISFTST-----LELPE  383 (483)
Q Consensus       318 ~~L~~L~l~~n~~~~~-~~---~~~~~l~~L~~L~l~~n~~~~-----~~p~~~~~l~~L~~L~l~~~~i-----~~lp~  383 (483)
                      ++|++|++++|.+... .+   ..+..+++|++|++++|++..     ..|..+..+++|++|++++|.+     ..+|.
T Consensus       159 ~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~  238 (386)
T 2ca6_A          159 PPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAI  238 (386)
T ss_dssp             CCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHH
T ss_pred             CCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHH
Confidence            5566666666655411 11   224455566666666664321     2232455566666666666665     44555


Q ss_pred             cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhc--cccccccceeeccCccc-----c-----CCCCCcccccce
Q 038724          384 ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEML--CLEQLNIIRLTSCSLCS-----L-----CGLPTVQCLTSR  451 (483)
Q Consensus       384 ~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~--~l~~L~~L~l~~~~l~~-----l-----~~l~~l~~l~l~  451 (483)
                      .+..+++|++|+|++|.+...       .....+..+.  .+++|+.|++++|.+..     +     ..+++|+.|+++
T Consensus       239 ~l~~~~~L~~L~L~~n~i~~~-------~~~~l~~~l~~~~~~~L~~L~L~~n~i~~~g~~~l~~~l~~~l~~L~~L~l~  311 (386)
T 2ca6_A          239 ALKSWPNLRELGLNDCLLSAR-------GAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELN  311 (386)
T ss_dssp             HGGGCTTCCEEECTTCCCCHH-------HHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECT
T ss_pred             HHccCCCcCEEECCCCCCchh-------hHHHHHHHHhhccCCCeEEEECcCCcCCHHHHHHHHHHHHhcCCCceEEEcc
Confidence            555666666666666653311       0011334442  26666666666666543     2     235666666666


Q ss_pred             eeeee
Q 038724          452 RLNLE  456 (483)
Q Consensus       452 ~~~~~  456 (483)
                      +|.++
T Consensus       312 ~N~l~  316 (386)
T 2ca6_A          312 GNRFS  316 (386)
T ss_dssp             TSBSC
T ss_pred             CCcCC
Confidence            66555

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.29  E-value=7.8e-13  Score=129.09  Aligned_cols=160  Identities=17%  Similarity=0.159  Sum_probs=102.8

Q ss_pred             cccccceEEEEccccccccccC------------CCCCCcccEEEecCCcccc----ccchhhhcCCCccEEEccCCccC
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLN------------TPSCPHLLTLFLNDNYLQD----IKNGFFQFMPCLKVLNLSYNRFL  355 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~------------~~~~~~L~~L~l~~n~~~~----~~~~~~~~l~~L~~L~l~~n~~~  355 (483)
                      +..+++|+.|++++|.+..+..            ...+++|++|+|++|.+..    ..+..+..+++|++|+|++|.+.
T Consensus        56 l~~~~~L~~L~Ls~~~~~~l~~~~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~  135 (386)
T 2ca6_A           56 IASKKDLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLG  135 (386)
T ss_dssp             TTTCTTCCEEECCSCCTTSCGGGSHHHHHHHHHHHTTCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCH
T ss_pred             HHhCCCccEEeCcccccCccccchhHHHHHHHHHHhhCCcccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCC
Confidence            3356677777777765443221            0356777777887777765    23334667777888888777653


Q ss_pred             ccCC----cccccC---------cCCCEEeccCCCCC--ccC---ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhH
Q 038724          356 TKLP----SGISKL---------VSLQHLDISFTSTL--ELP---EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLL  417 (483)
Q Consensus       356 ~~~p----~~~~~l---------~~L~~L~l~~~~i~--~lp---~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~  417 (483)
                      ...+    ..+..+         ++|++|++++|.+.  .+|   ..+..+++|++|++++|.+...       ......
T Consensus       136 ~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~-------g~~~l~  208 (386)
T 2ca6_A          136 PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPE-------GIEHLL  208 (386)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHH-------HHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHh-------HHHHHH
Confidence            3222    223333         67778888777764  344   3456677788888887764310       000122


Q ss_pred             h-hhccccccccceeeccCcc---------ccCCCCCcccccceeeeeeee
Q 038724          418 K-EMLCLEQLNIIRLTSCSLC---------SLCGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       418 ~-~l~~l~~L~~L~l~~~~l~---------~l~~l~~l~~l~l~~~~~~~~  458 (483)
                      . .+..+++|+.|++++|.+.         .+..+++|+.|++++|.+...
T Consensus       209 ~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~  259 (386)
T 2ca6_A          209 LEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSAR  259 (386)
T ss_dssp             HTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHH
T ss_pred             HHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCCCchh
Confidence            3 6788889999999999872         357788899999988888654

>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=99.28  E-value=7.3e-12  Score=123.28  Aligned_cols=212  Identities=12%  Similarity=0.109  Sum_probs=122.7

Q ss_pred             CCChhHHHHHHHHH-hc------CCeEEEEE--EcCCCCcHHHHHHHHHhhcccC--CCCCC-EEEEEEeCCCcCccchh
Q 038724            1 IENPKQFYQVWRFL-VK------KDVGIIGL--FGTGGVGKTTILKQINNRFCSE--RPGFD-VVIWVVVSKELKLETSQ   68 (483)
Q Consensus         1 vgr~~~~~~l~~~l-~~------~~~~~v~i--~G~~GiGKTtLa~~~~~~~~~~--~~~f~-~~~~v~~~~~~~~~~~~   68 (483)
                      |||+++++++.+++ ..      ...+.+.|  +|++|+|||+||+++++.....  ..++. .++|+.+....+...+.
T Consensus        25 ~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (412)
T 1w5s_A           25 RVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTIL  104 (412)
T ss_dssp             SSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHH
T ss_pred             CChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHH
Confidence            69999999999998 42      24567777  9999999999999999876210  00122 35677754433322222


Q ss_pred             HH----------------------h----hhcCCcEEEEEcCCCCcc--------ccccccCCC---CCCC--CCCEEEE
Q 038724           69 DD----------------------M----ILSTKKFLLLLDDLWETI--------DLSKIGVPL---PSQK--IVSKVVF  109 (483)
Q Consensus        69 ~~----------------------i----~l~~~~~LlvlDdv~~~~--------~~~~l~~~~---~~~~--~gs~ilv  109 (483)
                      ..                      +    .-.+++++|||||++...        .+..+...+   +..+  ....+|+
T Consensus       105 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~lI~  184 (412)
T 1w5s_A          105 SLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLL  184 (412)
T ss_dssp             HHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEE
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEEEEE
Confidence            11                      1    223679999999997632        122221211   1111  3345777


Q ss_pred             ecCChh-------------------hhhccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcC------CchHHHH
Q 038724          110 TTHSEE-------------------VCVDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCG------GLPLALT  164 (483)
Q Consensus       110 TtR~~~-------------------~~l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~------g~Plal~  164 (483)
                      ||+...                   +.+++++.++++++|........ ....-..+..+.+++.|+      |.|..+.
T Consensus       185 ~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~~~~G~p~~~~  263 (412)
T 1w5s_A          185 VASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGL-RDTVWEPRHLELISDVYGEDKGGDGSARRAI  263 (412)
T ss_dssp             EEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHB-CTTSCCHHHHHHHHHHHCGGGTSCCCHHHHH
T ss_pred             EeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcC-CCCCCChHHHHHHHHHHHHhccCCCcHHHHH
Confidence            776432                   11889999999999976542111 011223567888999999      9997655


Q ss_pred             HHHHHhc------CC--CCHHHHHHHHHHHHhcccCCCChHHHHHhhhcccCCCCchhhhHHHhhhcCC
Q 038724          165 IVGRAMA------YK--KTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSPF  225 (483)
Q Consensus       165 ~~~~~l~------~~--~~~~~w~~~~~~l~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~~~a~f  225 (483)
                      .+.....      ..  -+.+.+......   ..       . ...+...+..||+ +.+.++..++.+
T Consensus       264 ~l~~~a~~~a~~~~~~~i~~~~v~~~~~~---~~-------~-~~~~~~~l~~l~~-~~~~~l~aia~l  320 (412)
T 1w5s_A          264 VALKMACEMAEAMGRDSLSEDLVRKAVSE---NE-------A-ASIQTHELEALSI-HELIILRLIAEA  320 (412)
T ss_dssp             HHHHHHHHHHHHTTCSSCCHHHHHHHHHH---C--------------CCSSSSSCH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCHHHHHHHHHH---Hh-------c-cchHHHHHHcCCH-HHHHHHHHHHHH
Confidence            4443211      10  112222222211   00       0 2335567788998 788888877764

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.26  E-value=1.2e-13  Score=121.49  Aligned_cols=107  Identities=21%  Similarity=0.254  Sum_probs=67.5

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEe
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLD  395 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~  395 (483)
                      .+++|++|++++|.+..++  .+..+++|++|++++|. +..+|..+..+++|++|++++|.+..+| .+..+++|++|+
T Consensus        46 ~l~~L~~L~ls~n~l~~l~--~~~~l~~L~~L~l~~n~-l~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~  121 (198)
T 1ds9_A           46 TLKACKHLALSTNNIEKIS--SLSGMENLRILSLGRNL-IKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLY  121 (198)
T ss_dssp             HTTTCSEEECSEEEESCCC--CHHHHTTCCEEEEEEEE-ECSCSSHHHHHHHCSEEEEEEEECCCHH-HHHHHHHSSEEE
T ss_pred             cCCCCCEEECCCCCCcccc--ccccCCCCCEEECCCCC-cccccchhhcCCcCCEEECcCCcCCcCC-ccccCCCCCEEE
Confidence            4566777777777666655  36666677777777765 3456666666666777777777666665 466666777777


Q ss_pred             cCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc
Q 038724          396 MDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       396 l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                      +++|.+...          ..+..+..+++|+.|++++|++
T Consensus       122 l~~N~i~~~----------~~~~~l~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A          122 MSNNKITNW----------GEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             ESEEECCCH----------HHHHHHTTTTTCSEEEECSCHH
T ss_pred             CCCCcCCch----------hHHHHHhcCCCCCEEEecCCcc
Confidence            777664321          1223566666777777777665

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.26  E-value=2.1e-13  Score=119.88  Aligned_cols=152  Identities=24%  Similarity=0.281  Sum_probs=115.3

Q ss_pred             hhhhhhcccCcc------ccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCC
Q 038724          279 DILEKLRDVVPS------DALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYN  352 (483)
Q Consensus       279 ~~~~~l~~~~~~------~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n  352 (483)
                      .....+....+.      .+..+++++.|++++|.++.++....+++|++|++++|.+..++.. +..+++|++|++++|
T Consensus        25 l~~~~l~~~~~~l~~l~~~~~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l~~l~~~-~~~~~~L~~L~L~~N  103 (198)
T 1ds9_A           25 AEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENL-DAVADTLEELWISYN  103 (198)
T ss_dssp             CSEEECCBCCTTCCCCHHHHHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEECSCSSH-HHHHHHCSEEEEEEE
T ss_pred             hheeEeccccCcHhhhhHHHhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCcccccch-hhcCCcCCEEECcCC
Confidence            334444444444      6667889999999999999987556789999999999999987764 677899999999999


Q ss_pred             ccCccCCcccccCcCCCEEeccCCCCCccCc--cccCCcCCCEEecCCCCCcCC-CCCCCCccchhhHhhhccccccccc
Q 038724          353 RFLTKLPSGISKLVSLQHLDISFTSTLELPE--ELKALEKLKYLDMDDHQQVME-EGNCQSDDAESLLKEMLCLEQLNII  429 (483)
Q Consensus       353 ~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~-p~~~~l~~~~~~~~~l~~l~~L~~L  429 (483)
                      .+ ..+| .+..+++|++|++++|.+..+|.  .+..+++|++|++++|.+... |....  ........+..+++|+.|
T Consensus       104 ~l-~~l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~--~~~~~~~~~~~l~~L~~L  179 (198)
T 1ds9_A          104 QI-ASLS-GIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNA--TSEYRIEVVKRLPNLKKL  179 (198)
T ss_dssp             EC-CCHH-HHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSCHHHHHHHTTTT--HHHHHHHHHHHCSSCSEE
T ss_pred             cC-CcCC-ccccCCCCCEEECCCCcCCchhHHHHHhcCCCCCEEEecCCccccccccccc--hHHHHHHHHHhCCCcEEE
Confidence            74 4566 68999999999999999998875  689999999999999986533 21000  001112236788888888


Q ss_pred             eeeccCcc
Q 038724          430 RLTSCSLC  437 (483)
Q Consensus       430 ~l~~~~l~  437 (483)
                      +  ++++.
T Consensus       180 d--~~~i~  185 (198)
T 1ds9_A          180 D--GMPVD  185 (198)
T ss_dssp             C--CGGGT
T ss_pred             C--CcccC
Confidence            6  55543

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

Probab=99.23  E-value=2.8e-12  Score=123.92  Aligned_cols=157  Identities=18%  Similarity=0.185  Sum_probs=79.9

Q ss_pred             ceEEEEccccccccccCC--CC-----CCcccEEEecCCccccccchhh----hcC-CCccEEEccCCccCccCCcccc-
Q 038724          297 GLRRMSLMNNQIKTLLNT--PS-----CPHLLTLFLNDNYLQDIKNGFF----QFM-PCLKVLNLSYNRFLTKLPSGIS-  363 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~--~~-----~~~L~~L~l~~n~~~~~~~~~~----~~l-~~L~~L~l~~n~~~~~~p~~~~-  363 (483)
                      +++.|++++|.++.....  ..     +++|++|+|++|.+....+..+    ..+ ++|++|++++|.+....+..+. 
T Consensus        52 ~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  131 (362)
T 3goz_A           52 SVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQ  131 (362)
T ss_dssp             TCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHH
T ss_pred             ceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHH
Confidence            455555555555543221  11     2555555555555554433322    222 4555555555553333222222 


Q ss_pred             ---c-CcCCCEEeccCCCCC-----ccCccccCCc-CCCEEecCCCCCcCCCCCCCCccchhhHhhhccc-cccccceee
Q 038724          364 ---K-LVSLQHLDISFTSTL-----ELPEELKALE-KLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCL-EQLNIIRLT  432 (483)
Q Consensus       364 ---~-l~~L~~L~l~~~~i~-----~lp~~~~~l~-~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l-~~L~~L~l~  432 (483)
                         . .++|++|++++|.+.     .++..+..++ +|++|++++|.+...+       .......+..+ ++|+.|+++
T Consensus       132 ~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~-------~~~l~~~l~~~~~~L~~L~Ls  204 (362)
T 3goz_A          132 AFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKN-------CAELAKFLASIPASVTSLDLS  204 (362)
T ss_dssp             HHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSC-------HHHHHHHHHTSCTTCCEEECT
T ss_pred             HHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhh-------HHHHHHHHHhCCCCCCEEECC
Confidence               1 135556666655544     2333334443 5666666665543220       11222344555 488888888


Q ss_pred             ccCccc-----c----CC-CCCcccccceeeeeeeeec
Q 038724          433 SCSLCS-----L----CG-LPTVQCLTSRRLNLEVEDW  460 (483)
Q Consensus       433 ~~~l~~-----l----~~-l~~l~~l~l~~~~~~~~~~  460 (483)
                      +|.+..     +    .. .++|+.|++++|.++..+.
T Consensus       205 ~N~i~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~  242 (362)
T 3goz_A          205 ANLLGLKSYAELAYIFSSIPNHVVSLNLCLNCLHGPSL  242 (362)
T ss_dssp             TSCGGGSCHHHHHHHHHHSCTTCCEEECCSSCCCCCCH
T ss_pred             CCCCChhHHHHHHHHHhcCCCCceEEECcCCCCCcHHH
Confidence            888754     2    22 3478888888888776544

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.22  E-value=2e-11  Score=117.36  Aligned_cols=107  Identities=18%  Similarity=0.162  Sum_probs=89.8

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc-ccccCcCCCE-EeccCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS-GISKLVSLQH-LDISFT  376 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~-~~~~l~~L~~-L~l~~~  376 (483)
                      +.++.+++.++.+|..- .++++.|+|++|.++.+++..|.++++|++|+|++|++.+.+|. .|.++++|.. +.+.+|
T Consensus        12 ~~v~C~~~~Lt~iP~~l-~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N   90 (350)
T 4ay9_X           12 RVFLCQESKVTEIPSDL-PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN   90 (350)
T ss_dssp             TEEEEESTTCCSCCTTC-CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEET
T ss_pred             CEEEecCCCCCccCcCc-CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCC
Confidence            35677888898887532 47899999999999999998899999999999999987777764 5788888876 566678


Q ss_pred             CCCccCcc-ccCCcCCCEEecCCCCCcCCCC
Q 038724          377 STLELPEE-LKALEKLKYLDMDDHQQVMEEG  406 (483)
Q Consensus       377 ~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~  406 (483)
                      ++..+|+. +..+++|++|++++|.+...|.
T Consensus        91 ~l~~l~~~~f~~l~~L~~L~l~~n~l~~~~~  121 (350)
T 4ay9_X           91 NLLYINPEAFQNLPNLQYLLISNTGIKHLPD  121 (350)
T ss_dssp             TCCEECTTSBCCCTTCCEEEEEEECCSSCCC
T ss_pred             cccccCchhhhhccccccccccccccccCCc
Confidence            89999655 8999999999999999887754

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

Probab=99.22  E-value=2.4e-12  Score=124.41  Aligned_cols=169  Identities=12%  Similarity=0.054  Sum_probs=123.1

Q ss_pred             hhhhcccCccccccc-----cceEEEEccccccccccCC------CCC-CcccEEEecCCccccccchhhhc-----CCC
Q 038724          281 LEKLRDVVPSDALKW-----LGLRRMSLMNNQIKTLLNT------PSC-PHLLTLFLNDNYLQDIKNGFFQF-----MPC  343 (483)
Q Consensus       281 ~~~l~~~~~~~~~~~-----~~l~~l~l~~~~~~~~~~~------~~~-~~L~~L~l~~n~~~~~~~~~~~~-----l~~  343 (483)
                      .+.+.+.....+...     ++|+.|++++|.++.....      ..+ ++|++|++++|.+...+...+..     .++
T Consensus        60 ~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~  139 (362)
T 3goz_A           60 GNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQAFSNLPAS  139 (362)
T ss_dssp             SSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHTTSCTT
T ss_pred             CCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHHHHHhCCCc
Confidence            344444444444433     8899999999999876532      233 79999999999998877654433     368


Q ss_pred             ccEEEccCCccCc----cCCcccccCc-CCCEEeccCCCCCccCc-----cccCC-cCCCEEecCCCCCcCCCCCCCCcc
Q 038724          344 LKVLNLSYNRFLT----KLPSGISKLV-SLQHLDISFTSTLELPE-----ELKAL-EKLKYLDMDDHQQVMEEGNCQSDD  412 (483)
Q Consensus       344 L~~L~l~~n~~~~----~~p~~~~~l~-~L~~L~l~~~~i~~lp~-----~~~~l-~~L~~L~l~~n~~~~~p~~~~l~~  412 (483)
                      |++|++++|.+..    .++..+..+. +|++|++++|.+...+.     .+..+ ++|++|+|++|.+....       
T Consensus       140 L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~i~~~~-------  212 (362)
T 3goz_A          140 ITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANLLGLKS-------  212 (362)
T ss_dssp             CCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSC-------
T ss_pred             eeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCCCChhH-------
Confidence            9999999998654    3344455565 99999999999877654     34555 59999999999965320       


Q ss_pred             chhhHhhhccc-cccccceeeccCccc---------cCCCCCcccccceeeeee
Q 038724          413 AESLLKEMLCL-EQLNIIRLTSCSLCS---------LCGLPTVQCLTSRRLNLE  456 (483)
Q Consensus       413 ~~~~~~~l~~l-~~L~~L~l~~~~l~~---------l~~l~~l~~l~l~~~~~~  456 (483)
                      ....+..+..+ ++|+.|++++|.+..         +..++.|+.|++++|.+.
T Consensus       213 ~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~~~~l~~L~~L~L~~n~l~  266 (362)
T 3goz_A          213 YAELAYIFSSIPNHVVSLNLCLNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVK  266 (362)
T ss_dssp             HHHHHHHHHHSCTTCCEEECCSSCCCCCCHHHHHHTTTTTTTCSEEEEEHHHHT
T ss_pred             HHHHHHHHhcCCCCceEEECcCCCCCcHHHHHHHHHHhcCCCccEEEeccCCcc
Confidence            12355667664 499999999998854         367789999999988744

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=99.19  E-value=8.5e-11  Score=112.81  Aligned_cols=105  Identities=15%  Similarity=0.176  Sum_probs=91.9

Q ss_pred             EEEcccc-ccccccCCCCCCcccEEEecC-CccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          300 RMSLMNN-QIKTLLNTPSCPHLLTLFLND-NYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       300 ~l~l~~~-~~~~~~~~~~~~~L~~L~l~~-n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      .++.+++ .++.+|....+.+|+.|+|++ |.++.+++..|..+++|++|+|++|++.+..|..|..+++|++|+|++|.
T Consensus        12 ~v~~~~~n~l~~ip~l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~   91 (347)
T 2ifg_A           12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCc
Confidence            4677887 899888867788999999996 99999998889999999999999998777778889999999999999999


Q ss_pred             CCccCccccCCcCCCEEecCCCCCcCC
Q 038724          378 TLELPEELKALEKLKYLDMDDHQQVME  404 (483)
Q Consensus       378 i~~lp~~~~~l~~L~~L~l~~n~~~~~  404 (483)
                      +..+|..+....+|+.|+|.+|.+...
T Consensus        92 l~~~~~~~~~~~~L~~l~l~~N~~~c~  118 (347)
T 2ifg_A           92 LESLSWKTVQGLSLQELVLSGNPLHCS  118 (347)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSSCCCCC
T ss_pred             cceeCHHHcccCCceEEEeeCCCccCC
Confidence            999998754444599999999997643

>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=99.16  E-value=3e-10  Score=110.53  Aligned_cols=206  Identities=14%  Similarity=-0.008  Sum_probs=124.0

Q ss_pred             CCChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhcccC----CCC-CCEEEEEEeCCCc-Cc------
Q 038724            1 IENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRFCSE----RPG-FDVVIWVVVSKEL-KL------   64 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~----~~~-f~~~~~v~~~~~~-~~------   64 (483)
                      +||+++++++.+++..    ...+.+.|+|++|+|||++|+++++.....    .+. ....+|++..... +.      
T Consensus        23 ~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  102 (384)
T 2qby_B           23 PFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSS  102 (384)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHH
Confidence            6999999999877764    345689999999999999999999865111    011 2346677654322 11      


Q ss_pred             -----------------cchhHHh--hhcCCcEEEEEcCCCCccc-------cccccCCCCCCCCCCEEEEecCChhhh-
Q 038724           65 -----------------ETSQDDM--ILSTKKFLLLLDDLWETID-------LSKIGVPLPSQKIVSKVVFTTHSEEVC-  117 (483)
Q Consensus        65 -----------------~~~~~~i--~l~~~~~LlvlDdv~~~~~-------~~~l~~~~~~~~~gs~ilvTtR~~~~~-  117 (483)
                                       ..+...+  .+..++.+|||||++....       +..+....    .+..+|+||+..... 
T Consensus       103 l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t~~~~~~~  178 (384)
T 2qby_B          103 LAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMISNDINVRD  178 (384)
T ss_dssp             HHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEECSSTTTTT
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEECCCchHh
Confidence                             1222222  3445555999999975421       22222221    567888888865211 


Q ss_pred             ---------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcC---CchH-HHHHHHHHh--c---CC
Q 038724          118 ---------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCG---GLPL-ALTIVGRAM--A---YK  173 (483)
Q Consensus       118 ---------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~---g~Pl-al~~~~~~l--~---~~  173 (483)
                                     +++++.++..+++...+.... ....-..+..+.+++.++   |.|. ++.++....  .   ..
T Consensus       179 ~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~  257 (384)
T 2qby_B          179 YMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGL-IKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGI  257 (384)
T ss_dssp             TSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTS-CTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSC
T ss_pred             hhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhc-ccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCc
Confidence                           889999999999998753110 011223456778888887   8887 444433322  1   11


Q ss_pred             CCHHHHHHHHHHHHhcccCCCChHHHHHhhhcccCCCCchhhhHHHhhhcC
Q 038724          174 KTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCSP  224 (483)
Q Consensus       174 ~~~~~w~~~~~~l~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~~~a~  224 (483)
                      -+.+.+..+++....            ..+..+++.|++ +.+..+..++.
T Consensus       258 i~~~~v~~~~~~~~~------------~~~~~~~~~l~~-~~~~~l~al~~  295 (384)
T 2qby_B          258 IRKEHVDKAIVDYEQ------------ERLIEAVKALPF-HYKLALRSLIE  295 (384)
T ss_dssp             CCHHHHHHHHHHHHH------------HHHHHHHHSSCH-HHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHhc------------chHHHHHHcCCH-HHHHHHHHHHH
Confidence            345556555544321            234455667777 56666655555

>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=99.15  E-value=4.8e-11  Score=113.29  Aligned_cols=163  Identities=11%  Similarity=0.130  Sum_probs=106.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchh---HHhh-----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQ---DDMI-----   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~---~~i~-----   72 (483)
                      |||++.++.+.+++..+..+.+.|+|++|+|||++|+++++.... .......+++..+.......+.   ..+.     
T Consensus        24 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  102 (323)
T 1sxj_B           24 VGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLG-RSYADGVLELNASDDRGIDVVRNQIKHFAQKKLH  102 (323)
T ss_dssp             CSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHG-GGHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCC
T ss_pred             HCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcC-CcccCCEEEecCccccChHHHHHHHHHHHhcccc
Confidence            699999999999999876666999999999999999999987511 1111123444444433332222   2221     


Q ss_pred             h-cCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCC
Q 038724           73 L-STKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        73 l-~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~  137 (483)
                      . .+++.++|+||++...  ....+...+.....++++|++|+.....            +.+++.++..+++...+...
T Consensus       103 ~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~  182 (323)
T 1sxj_B          103 LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLE  182 (323)
T ss_dssp             CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHHHHHHHHHHHc
Confidence            2 4568999999997642  2333433333333457788877654322            88999999999998776432


Q ss_pred             cccCCCCchhHHHHHHhHcCCchHH-HHHHH
Q 038724          138 TLVSHPAIHKPAKMVAKDCGGLPLA-LTIVG  167 (483)
Q Consensus       138 ~~~~~~~~~~~~~~i~~~c~g~Pla-l~~~~  167 (483)
                      ..   .-..+..+.+++.++|.|.. +..+.
T Consensus       183 ~~---~~~~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          183 DV---KYTNDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             TC---CBCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CC---CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            21   12245678899999999954 44443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.08  E-value=2.9e-10  Score=110.75  Aligned_cols=209  Identities=13%  Similarity=0.078  Sum_probs=119.9

Q ss_pred             CCChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCC---CCCCEEEEEEeCCCcCcc--------
Q 038724            1 IENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRFCSER---PGFDVVIWVVVSKELKLE--------   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~---~~f~~~~~v~~~~~~~~~--------   65 (483)
                      +||+++++++.+++..    ...+.+.|+|++|+|||++|+++++......   +.-...+|++.....+..        
T Consensus        22 ~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~  101 (387)
T 2v1u_A           22 PHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAE  101 (387)
T ss_dssp             TTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHH
Confidence            6999999999998853    3557899999999999999999998761110   011235666655433222        


Q ss_pred             --------------chhHHh----hhcCCcEEEEEcCCCCccc-------cccccCCCCCC--CCCCEEEEecCChhhh-
Q 038724           66 --------------TSQDDM----ILSTKKFLLLLDDLWETID-------LSKIGVPLPSQ--KIVSKVVFTTHSEEVC-  117 (483)
Q Consensus        66 --------------~~~~~i----~l~~~~~LlvlDdv~~~~~-------~~~l~~~~~~~--~~gs~ilvTtR~~~~~-  117 (483)
                                    ++...+    ...+++++|||||++....       +..+.......  ..+..+|+||+..... 
T Consensus       102 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~~~~  181 (387)
T 2v1u_A          102 AVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVE  181 (387)
T ss_dssp             HHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCSTTSS
T ss_pred             HhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCchHh
Confidence                          112222    2356789999999975421       11111111111  3346677777654211 


Q ss_pred             ----------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcC---CchHHH-HHHHHHhc-----C
Q 038724          118 ----------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCG---GLPLAL-TIVGRAMA-----Y  172 (483)
Q Consensus       118 ----------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~---g~Plal-~~~~~~l~-----~  172 (483)
                                      +++++.++..+++...+.... ....-..+..+.+++.++   |.|..+ .++.....     .
T Consensus       182 ~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~~~~  260 (387)
T 2v1u_A          182 NLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAF-NPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIAERRR  260 (387)
T ss_dssp             SSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHB-CTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHTT
T ss_pred             hhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHcC
Confidence                            889999999999987753210 011223455778888887   999443 33222211     1


Q ss_pred             --CCCHHHHHHHHHHHHhcccCCCChHHHHHhhhcccCCCCchhhhHHHhhhc
Q 038724          173 --KKTPEEWKDAIEILMRSALQFPGINKVYYRLKFSFDRLPSDQIRSCFLFCS  223 (483)
Q Consensus       173 --~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~~~a  223 (483)
                        .-+.+.+..+++....            ..+..++..+++ +.+..+..++
T Consensus       261 ~~~i~~~~v~~a~~~~~~------------~~~~~~~~~l~~-~~~~~l~a~~  300 (387)
T 2v1u_A          261 EERVRREHVYSARAEIER------------DRVSEVVRTLPL-HAKLVLLSIM  300 (387)
T ss_dssp             CSCBCHHHHHHHHHHHHH------------HHHHHHHHSSCH-HHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHhh------------chHHHHHHcCCH-HHHHHHHHHH
Confidence              1234555554443321            124445677887 5555555444

>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=99.07  E-value=1.1e-10  Score=113.71  Aligned_cols=163  Identities=12%  Similarity=0.084  Sum_probs=100.2

Q ss_pred             CCChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-------------
Q 038724            1 IENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-------------   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-------------   63 (483)
                      +||+++++++.+++..    ...+.+.|+|++|+||||||+++++......+.-...+|+......+             
T Consensus        23 ~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~l~  102 (386)
T 2qby_A           23 PHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLD  102 (386)
T ss_dssp             TTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTTTS
T ss_pred             CChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6999999999999874    44578999999999999999999987621111023456776432211             


Q ss_pred             ---------ccchhHHh----hhcCCcEEEEEcCCCCcc------ccccccCCCCC-CCCCCEEEEecCChhhh------
Q 038724           64 ---------LETSQDDM----ILSTKKFLLLLDDLWETI------DLSKIGVPLPS-QKIVSKVVFTTHSEEVC------  117 (483)
Q Consensus        64 ---------~~~~~~~i----~l~~~~~LlvlDdv~~~~------~~~~l~~~~~~-~~~gs~ilvTtR~~~~~------  117 (483)
                               ..++...+    ...+++.+||||+++...      .+..+...+.. ...+..+|+||+.....      
T Consensus       103 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~  182 (386)
T 2qby_A          103 VKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPR  182 (386)
T ss_dssp             CCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGCTTH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhhCHH
Confidence                     11222222    334569999999996532      22222211111 12345667777654321      


Q ss_pred             -----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcC---CchHHHH
Q 038724          118 -----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCG---GLPLALT  164 (483)
Q Consensus       118 -----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~---g~Plal~  164 (483)
                                 +++++.++..+++...+.... ....-..+..+.+++.++   |.|..+.
T Consensus       183 ~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~G~~r~~~  242 (386)
T 2qby_A          183 VKSSLSEEEIIFPPYNAEELEDILTKRAQMAF-KPGVLPDNVIKLCAALAAREHGDARRAL  242 (386)
T ss_dssp             HHHTTTTEEEEECCCCHHHHHHHHHHHHHHHB-CSSCSCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HhccCCCeeEEeCCCCHHHHHHHHHHHHHhhc-cCCCCCHHHHHHHHHHHHHhcCCHHHHH
Confidence                       789999999999987653111 111233456777888887   9998443

>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=99.06  E-value=2.5e-10  Score=108.45  Aligned_cols=164  Identities=9%  Similarity=0.047  Sum_probs=107.7

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-------hh
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-------IL   73 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-------~l   73 (483)
                      ||+++.++.+.+++..+..+.+.|+|++|+|||++|+++++... ....-...+.+..+.......+...+       ..
T Consensus        28 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (327)
T 1iqp_A           28 VGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVIREKVKEFARTKPI  106 (327)
T ss_dssp             CSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTTHHHHHHHHHSCCG
T ss_pred             hCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc-CCcccCceEEeeccccCchHHHHHHHHHHHhhCCc
Confidence            69999999999999988766799999999999999999998751 11100113344444332222222222       12


Q ss_pred             c-CCcEEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCCc
Q 038724           74 S-TKKFLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        74 ~-~~~~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      . +++.++|+||++..  .....+...+.....++++|+||......            +.+++.++..+++...+....
T Consensus       107 ~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~~l~~~~~~~~  186 (327)
T 1iqp_A          107 GGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG  186 (327)
T ss_dssp             GGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             CCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHHHHHHHHHhcC
Confidence            2 67889999999765  23333433333333457888887654322            788999999999988765433


Q ss_pred             ccCCCCchhHHHHHHhHcCCchHHHHHHHH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPLALTIVGR  168 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Plal~~~~~  168 (483)
                      .   .-..+..+.+++.++|.|..+..+..
T Consensus       187 ~---~~~~~~~~~l~~~~~g~~r~~~~~l~  213 (327)
T 1iqp_A          187 L---ELTEEGLQAILYIAEGDMRRAINILQ  213 (327)
T ss_dssp             C---EECHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             C---CCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            1   22345678899999999986554433

>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=99.03  E-value=1.1e-09  Score=106.64  Aligned_cols=162  Identities=14%  Similarity=0.109  Sum_probs=104.6

Q ss_pred             CCChhHHHHHHHHHhc----CCeE--EEEEEcCCCCcHHHHHHHHHhhcccCCCC-CCEEEEEEeCCCcCccchhHHh--
Q 038724            1 IENPKQFYQVWRFLVK----KDVG--IIGLFGTGGVGKTTILKQINNRFCSERPG-FDVVIWVVVSKELKLETSQDDM--   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~~~~--~v~i~G~~GiGKTtLa~~~~~~~~~~~~~-f~~~~~v~~~~~~~~~~~~~~i--   71 (483)
                      +||+++++++.+++..    ....  .+.|+|++|+||||+|+++++..   ... -...+|+..+...+...+...+  
T Consensus        20 ~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~i~~~~~~~~~~~~~~l~~   96 (389)
T 1fnn_A           20 PHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGEIAR   96 (389)
T ss_dssp             TTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH---hhhcCeeEEEEeCccCCCHHHHHHHHHH
Confidence            6999999999999875    2323  89999999999999999999877   222 1346677655544332222221  


Q ss_pred             ------------------------hhcCCcEEEEEcCCCCc--cccccccCCCCCCC----CCCEEEEecCChhhh----
Q 038724           72 ------------------------ILSTKKFLLLLDDLWET--IDLSKIGVPLPSQK----IVSKVVFTTHSEEVC----  117 (483)
Q Consensus        72 ------------------------~l~~~~~LlvlDdv~~~--~~~~~l~~~~~~~~----~gs~ilvTtR~~~~~----  117 (483)
                                              .-.+++.+||||+++..  .....+...+....    .+..+|++|+.....    
T Consensus        97 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~  176 (389)
T 1fnn_A           97 SLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLD  176 (389)
T ss_dssp             HTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSC
T ss_pred             HhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhC
Confidence                                    22366899999999765  22333333332211    356777777655221    


Q ss_pred             -------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHc---------CCchHHHHHH
Q 038724          118 -------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDC---------GGLPLALTIV  166 (483)
Q Consensus       118 -------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c---------~g~Plal~~~  166 (483)
                                   +.+++.++..+++...+.... ....-..+..+.+++.+         +|.|..+..+
T Consensus       177 ~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~  246 (389)
T 1fnn_A          177 PSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL-AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDI  246 (389)
T ss_dssp             HHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHB-CTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHH
T ss_pred             HHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHH
Confidence                         788999999999987653211 01122356678899999         7887654433

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=99.01  E-value=6e-10  Score=106.86  Aligned_cols=109  Identities=16%  Similarity=0.120  Sum_probs=88.5

Q ss_pred             cEEEecCC-ccccccchhhhcCCCccEEEccC-CccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecC
Q 038724          321 LTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSY-NRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMD  397 (483)
Q Consensus       321 ~~L~l~~n-~~~~~~~~~~~~l~~L~~L~l~~-n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~  397 (483)
                      ..++++++ .+..+|.  +..+++|++|+|++ |.+.+..|..|+.+++|++|+|++|.+..+|+. |.+|++|+.|+|+
T Consensus        11 ~~v~~~~~n~l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~   88 (347)
T 2ifg_A           11 SGLRCTRDGALDSLHH--LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS   88 (347)
T ss_dssp             SCEECCSSCCCTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECC
T ss_pred             CEEEcCCCCCCCccCC--CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCC
Confidence            35688888 8999887  88899999999996 875555557899999999999999999998775 7999999999999


Q ss_pred             CCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCCCC
Q 038724          398 DHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGLP  443 (483)
Q Consensus       398 ~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~l~  443 (483)
                      +|++..+|.           ..+..++ |+.|++.+|++.+.+.+.
T Consensus        89 ~N~l~~~~~-----------~~~~~~~-L~~l~l~~N~~~c~c~l~  122 (347)
T 2ifg_A           89 FNALESLSW-----------KTVQGLS-LQELVLSGNPLHCSCALR  122 (347)
T ss_dssp             SSCCSCCCS-----------TTTCSCC-CCEEECCSSCCCCCGGGH
T ss_pred             CCccceeCH-----------HHcccCC-ceEEEeeCCCccCCCccH
Confidence            999876643           1233344 999999999987655443

>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=99.00  E-value=6.9e-10  Score=105.34  Aligned_cols=161  Identities=14%  Similarity=0.094  Sum_probs=102.6

Q ss_pred             CCChhHHHHHHHHHhc-----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhh-c
Q 038724            1 IENPKQFYQVWRFLVK-----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMIL-S   74 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l-~   74 (483)
                      ||++..++++.+++..     ...+.+.|+|++|+|||++|+++++..   ...   ..++..+......++...+.- .
T Consensus        15 ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~~---~~~~~~~~~~~~~~l~~~l~~~~   88 (324)
T 1hqc_A           15 IGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAAILANSL   88 (324)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TCC---EEEECTTTCCSHHHHHHHHTTTC
T ss_pred             hCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEeccccCChHHHHHHHHHhc
Confidence            6899999998888863     234678999999999999999999876   222   234444333333344433332 3


Q ss_pred             CCcEEEEEcCCCCccc--cccccCCCCC------------------CCCCCEEEEecCChhh-------------hhccC
Q 038724           75 TKKFLLLLDDLWETID--LSKIGVPLPS------------------QKIVSKVVFTTHSEEV-------------CVDCF  121 (483)
Q Consensus        75 ~~~~LlvlDdv~~~~~--~~~l~~~~~~------------------~~~gs~ilvTtR~~~~-------------~l~~L  121 (483)
                      .+..+|+||+++....  ...+...+..                  .....+++.||.....             .+.++
T Consensus        89 ~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~  168 (324)
T 1hqc_A           89 EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYY  168 (324)
T ss_dssp             CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEECCCC
T ss_pred             cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEecCCC
Confidence            5677999999976531  1111110000                  0013456665543211             18889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHh
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAM  170 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l  170 (483)
                      +.++..+++.........   .-..+..+.+++.++|.|..+..+...+
T Consensus       169 ~~~e~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          169 TPEELAQGVMRDARLLGV---RITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             CHHHHHHHHHHHHHTTTC---CCCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            999999999887754331   2234668899999999998887666554

>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=98.98  E-value=7.4e-11  Score=117.85  Aligned_cols=161  Identities=16%  Similarity=0.141  Sum_probs=104.4

Q ss_pred             cccccceEEEEccccccccc-----cC-CCCCCcccEEEecCCccccccc-hhhhcCC----CccEEEccCCccCc----
Q 038724          292 ALKWLGLRRMSLMNNQIKTL-----LN-TPSCPHLLTLFLNDNYLQDIKN-GFFQFMP----CLKVLNLSYNRFLT----  356 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~-----~~-~~~~~~L~~L~l~~n~~~~~~~-~~~~~l~----~L~~L~l~~n~~~~----  356 (483)
                      +..+++++.|++++|.++..     +. ...+++|++|++++|.+..... .++..++    +|++|++++|.+..    
T Consensus        24 ~~~~~~L~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~  103 (461)
T 1z7x_W           24 LPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCG  103 (461)
T ss_dssp             HHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHH
T ss_pred             HhhcCCccEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHH
Confidence            34566777788888777632     11 1356778888888877765322 2233344    58888888886542    


Q ss_pred             cCCcccccCcCCCEEeccCCCCCccCc-----c-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccce
Q 038724          357 KLPSGISKLVSLQHLDISFTSTLELPE-----E-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIR  430 (483)
Q Consensus       357 ~~p~~~~~l~~L~~L~l~~~~i~~lp~-----~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~  430 (483)
                      .+|..+..+++|++|++++|.+.....     . ....++|++|++++|.+....       ....+..+..+++|+.|+
T Consensus       104 ~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~-------~~~l~~~l~~~~~L~~L~  176 (461)
T 1z7x_W          104 VLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAAS-------CEPLASVLRAKPDFKELT  176 (461)
T ss_dssp             HHHHHTTSCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGG-------HHHHHHHHHHCTTCCEEE
T ss_pred             HHHHHHccCCceeEEECCCCcCchHHHHHHHHHHhcCCCcceEEECCCCCCCHHH-------HHHHHHHHhhCCCCCEEE
Confidence            456677777888888888877654211     1 123456888888887754220       123456677889999999


Q ss_pred             eeccCccc-----cC-----CCCCcccccceeeeeeeee
Q 038724          431 LTSCSLCS-----LC-----GLPTVQCLTSRRLNLEVED  459 (483)
Q Consensus       431 l~~~~l~~-----l~-----~l~~l~~l~l~~~~~~~~~  459 (483)
                      +++|.+..     +.     ..+.|+.|++++++++...
T Consensus       177 L~~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~  215 (461)
T 1z7x_W          177 VSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDN  215 (461)
T ss_dssp             CCSSBCHHHHHHHHHHHHHHSCCCCCEEECTTSCCBTTH
T ss_pred             CcCCCcchHHHHHHHHHHhcCCCCceEEEccCCCCcHHH
Confidence            99998733     21     3568999999988887543

>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=98.97  E-value=9.4e-11  Score=117.07  Aligned_cols=156  Identities=16%  Similarity=0.116  Sum_probs=87.0

Q ss_pred             cccceEEEEcccccccccc-----C--CCCCCcccEEEecCCccccc----cchhhhcCCCccEEEccCCccCccCCccc
Q 038724          294 KWLGLRRMSLMNNQIKTLL-----N--TPSCPHLLTLFLNDNYLQDI----KNGFFQFMPCLKVLNLSYNRFLTKLPSGI  362 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~-----~--~~~~~~L~~L~l~~n~~~~~----~~~~~~~l~~L~~L~l~~n~~~~~~p~~~  362 (483)
                      .+++++.|++++|.++...     +  ...+++|++|++++|.++..    .+..+..+++|++|++++|.+....+..+
T Consensus       225 ~~~~L~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l  304 (461)
T 1z7x_W          225 SKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLL  304 (461)
T ss_dssp             HCTTCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHH
T ss_pred             hCCCccEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHH
Confidence            4566667777777655421     1  02356777777777766552    12235556677777777775433222222


Q ss_pred             cc-----CcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhh----cc-ccccc
Q 038724          363 SK-----LVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEM----LC-LEQLN  427 (483)
Q Consensus       363 ~~-----l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l----~~-l~~L~  427 (483)
                      ..     .++|++|++++|.+..     +|..+..+++|+.|++++|.+.           ...+..+    .. .++|+
T Consensus       305 ~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~-----------~~~~~~l~~~l~~~~~~L~  373 (461)
T 1z7x_W          305 CETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNRLE-----------DAGVRELCQGLGQPGSVLR  373 (461)
T ss_dssp             HHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSBCH-----------HHHHHHHHHHHTSTTCCCC
T ss_pred             HHHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCccc-----------cccHHHHHHHHcCCCCceE
Confidence            22     2467777777776554     3444556677777777777643           1222222    21 45677


Q ss_pred             cceeeccCccc---------cCCCCCcccccceeeeeeeeec
Q 038724          428 IIRLTSCSLCS---------LCGLPTVQCLTSRRLNLEVEDW  460 (483)
Q Consensus       428 ~L~l~~~~l~~---------l~~l~~l~~l~l~~~~~~~~~~  460 (483)
                      .|++++|.+..         +..+++|+.|++++|.++....
T Consensus       374 ~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~N~i~~~~~  415 (461)
T 1z7x_W          374 VLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAGI  415 (461)
T ss_dssp             EEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCCHHHH
T ss_pred             EEECCCCCCChhhHHHHHHHHHhCCCccEEECCCCCCCHHHH
Confidence            77777776541         3445667777776666654433

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.97  E-value=3.1e-09  Score=100.51  Aligned_cols=162  Identities=9%  Similarity=0.058  Sum_probs=107.4

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccch---hHHhh----h
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETS---QDDMI----L   73 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~---~~~i~----l   73 (483)
                      ||+++.++.+.+++..+..+.+.|+|++|+|||++|+++++... ....-...+.+..+.......+   .....    .
T Consensus        20 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (319)
T 2chq_A           20 VGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGIDVVRHKIKEFARTAPI   98 (319)
T ss_dssp             CSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHH-TTCHHHHCEEEETTSTTCTTTSSHHHHHHHHSCCS
T ss_pred             hCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhc-CCcccCCeEEEeCccccChHHHHHHHHHHHhcCCC
Confidence            68999999999999887666699999999999999999998751 1111111234444443332222   22221    2


Q ss_pred             -cCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCCc
Q 038724           74 -STKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        74 -~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                       .+++.++|+|+++...  ....+...+.....+.++|+||......            +.+++.++..+++...+....
T Consensus        99 ~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~  178 (319)
T 2chq_A           99 GGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEG  178 (319)
T ss_dssp             SSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHHHTTC
T ss_pred             CCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHHHHcC
Confidence             2678999999997542  2344555554444567777777654321            788999999999987775443


Q ss_pred             ccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      .   .-..+..+.+++.++|.+..+...
T Consensus       179 ~---~i~~~~l~~l~~~~~G~~r~~~~~  203 (319)
T 2chq_A          179 V---KITEDGLEALIYISGGDFRKAINA  203 (319)
T ss_dssp             C---CBCHHHHHHHHHTTTTCHHHHHHH
T ss_pred             C---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            1   223456788999999999765433

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.94  E-value=4.7e-09  Score=101.65  Aligned_cols=164  Identities=13%  Similarity=0.104  Sum_probs=104.7

Q ss_pred             CCChhHHHHHHHHHhcCC-eEEEEEEcCCCCcHHHHHHHHHhhcccCCCC------------------CCEEEEEEeCCC
Q 038724            1 IENPKQFYQVWRFLVKKD-VGIIGLFGTGGVGKTTILKQINNRFCSERPG------------------FDVVIWVVVSKE   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~-~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~------------------f~~~~~v~~~~~   61 (483)
                      |||++.++.+.+++..+. .+.+.|+|++|+|||++|+++++........                  +...+.+..+..
T Consensus        19 vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (373)
T 1jr3_A           19 VGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASR   98 (373)
T ss_dssp             CSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEEEETTCS
T ss_pred             cCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEEeccccc
Confidence            799999999999998764 3568999999999999999998876211100                  001233333322


Q ss_pred             cC---ccchhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccC
Q 038724           62 LK---LETSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCF  121 (483)
Q Consensus        62 ~~---~~~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L  121 (483)
                      ..   .+++...+   ...+++.++|+||++...  ....+...+.....+..+|++|......            +.++
T Consensus        99 ~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l  178 (373)
T 1jr3_A           99 TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKAL  178 (373)
T ss_dssp             CCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             CCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeCCCC
Confidence            22   22333333   235678899999997542  2333433333333356666666543321            7899


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      +.++..+++...+....   ..-..+..+.+++.++|.|..+..+.
T Consensus       179 ~~~~~~~~l~~~~~~~~---~~~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          179 DVEQIRHQLEHILNEEH---IAHEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             CHHHHHHHHHHHHHHHT---CCBCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHcC---CCCCHHHHHHHHHHCCCCHHHHHHHH
Confidence            99999999987664322   12234567889999999998876554

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

Probab=98.93  E-value=4.8e-11  Score=115.16  Aligned_cols=155  Identities=16%  Similarity=0.101  Sum_probs=71.2

Q ss_pred             ceEEEEccccccccccCC-------CCCCcccEEEecCCcccccc-chhhhcCCCccEEEccCCccCccCCccc-----c
Q 038724          297 GLRRMSLMNNQIKTLLNT-------PSCPHLLTLFLNDNYLQDIK-NGFFQFMPCLKVLNLSYNRFLTKLPSGI-----S  363 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~-------~~~~~L~~L~l~~n~~~~~~-~~~~~~l~~L~~L~l~~n~~~~~~p~~~-----~  363 (483)
                      .++.+++++|.++.....       ...++|+.|+|++|.+.... ......+++|+.|+|++|.+...-...+     .
T Consensus        73 ~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~  152 (372)
T 3un9_A           73 SLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLH  152 (372)
T ss_dssp             TCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHS
T ss_pred             hCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHh
Confidence            355556666555432211       12245666666666554321 1112234455666666664322211222     1


Q ss_pred             cCcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          364 KLVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       364 ~l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      ..++|++|++++|.++.     ++..+..+++|++|+|++|.+...       ......+.+...++|+.|++++|.+..
T Consensus       153 ~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~-------g~~~L~~~L~~~~~L~~L~Ls~N~i~~  225 (372)
T 3un9_A          153 DQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTGLGDE-------GLELLAAQLDRNRQLQELNVAYNGAGD  225 (372)
T ss_dssp             TTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSSCHHH-------HHHHHHHHGGGCSCCCEEECCSSCCCH
T ss_pred             cCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCCCCcH-------HHHHHHHHHhcCCCcCeEECCCCCCCH
Confidence            23456666666665543     333344555566666666653211       001123344455556666666665421


Q ss_pred             ---------cCCCCCcccccceeeeeeee
Q 038724          439 ---------LCGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       439 ---------l~~l~~l~~l~l~~~~~~~~  458 (483)
                               +...+.|+.|++++|.++..
T Consensus       226 ~g~~~l~~~L~~~~~L~~L~Ls~N~i~~~  254 (372)
T 3un9_A          226 TAALALARAAREHPSLELLHLYFNELSSE  254 (372)
T ss_dssp             HHHHHHHHHHHHCSSCCEEECTTSSCCHH
T ss_pred             HHHHHHHHHHHhCCCCCEEeccCCCCCHH
Confidence                     22335555555555555443

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.87  E-value=5.5e-09  Score=99.29  Aligned_cols=89  Identities=13%  Similarity=0.112  Sum_probs=64.2

Q ss_pred             CcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccc-cceeeccCc-----c
Q 038724          365 LVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLN-IIRLTSCSL-----C  437 (483)
Q Consensus       365 l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~-~L~l~~~~l-----~  437 (483)
                      +++|+++++++|++..+|.. |.++++|+.|++.+| +..+           ....|..+++|+ .+.+.+ .+     .
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I-----------~~~aF~~~~~L~~~l~l~~-~l~~I~~~  291 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTI-----------GQRVFSNCGRLAGTLELPA-SVTAIEFG  291 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEE-----------CTTTTTTCTTCCEEEEECT-TCCEECTT
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-ccee-----------hHHHhhCChhccEEEEEcc-cceEEchh
Confidence            57888888888888888876 788888888888887 3322           224577888888 888877 43     3


Q ss_pred             ccCCCCCcccccceeeeeeeeecccccCc
Q 038724          438 SLCGLPTVQCLTSRRLNLEVEDWHKCTGE  466 (483)
Q Consensus       438 ~l~~l~~l~~l~l~~~~~~~~~~~~~~~~  466 (483)
                      .+.++++|+.+++..+++...+-.++.++
T Consensus       292 aF~~c~~L~~l~l~~n~i~~I~~~aF~~~  320 (329)
T 3sb4_A          292 AFMGCDNLRYVLATGDKITTLGDELFGNG  320 (329)
T ss_dssp             TTTTCTTEEEEEECSSCCCEECTTTTCTT
T ss_pred             hhhCCccCCEEEeCCCccCccchhhhcCC
Confidence            46778888888887777766555554444

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.77  E-value=2.5e-09  Score=92.93  Aligned_cols=88  Identities=19%  Similarity=0.269  Sum_probs=60.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCc----C-------cc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKEL----K-------LE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~----~-------~~   65 (483)
                      +||+++++++.+.+.....+.+.|+|++|+|||++|+++++.......    .....+++..+...    .       ..
T Consensus        25 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (195)
T 1jbk_A           25 IGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLK  104 (195)
T ss_dssp             CSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCccccHHHHHH
Confidence            699999999999998877778899999999999999999987621110    12234555433211    0       11


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCc
Q 038724           66 TSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      .+...+...+++.+|||||++..
T Consensus       105 ~~~~~~~~~~~~~vl~iDe~~~l  127 (195)
T 1jbk_A          105 GVLNDLAKQEGNVILFIDELHTM  127 (195)
T ss_dssp             HHHHHHHHSTTTEEEEEETGGGG
T ss_pred             HHHHHHhhcCCCeEEEEeCHHHH
Confidence            22222234677899999999754

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

Probab=98.75  E-value=1.1e-09  Score=105.73  Aligned_cols=135  Identities=20%  Similarity=0.122  Sum_probs=99.8

Q ss_pred             cceEEEEccccccccccC--C-CCCCcccEEEecCCccccccchhh-----hcCCCccEEEccCCccCc----cCCcccc
Q 038724          296 LGLRRMSLMNNQIKTLLN--T-PSCPHLLTLFLNDNYLQDIKNGFF-----QFMPCLKVLNLSYNRFLT----KLPSGIS  363 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~--~-~~~~~L~~L~l~~n~~~~~~~~~~-----~~l~~L~~L~l~~n~~~~----~~p~~~~  363 (483)
                      ..++.|++++|.++....  . ..+++|+.|+|++|.+.......+     ...++|++|+|++|.+..    .++..+.
T Consensus       101 ~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~  180 (372)
T 3un9_A          101 HALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQCQITTLRLSNNPLTAAGVAVLMEGLA  180 (372)
T ss_dssp             SCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTTCCCCEEECCSSCCHHHHHHHHHHHHH
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcCCccceeeCCCCCCChHHHHHHHHHHh
Confidence            579999999998864321  1 245689999999998876544333     246789999999997533    2445567


Q ss_pred             cCcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcc
Q 038724          364 KLVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC  437 (483)
Q Consensus       364 ~l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~  437 (483)
                      ..++|++|++++|.++.     ++..+...++|+.|+|++|.+....       .......+...++|+.|++++|++.
T Consensus       181 ~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~i~~~g-------~~~l~~~L~~~~~L~~L~Ls~N~i~  252 (372)
T 3un9_A          181 GNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNGAGDTA-------ALALARAAREHPSLELLHLYFNELS  252 (372)
T ss_dssp             TCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSCCCHHH-------HHHHHHHHHHCSSCCEEECTTSSCC
T ss_pred             cCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCCCCHHH-------HHHHHHHHHhCCCCCEEeccCCCCC
Confidence            78999999999999765     3455777889999999999864220       1234455677889999999999873

>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=98.71  E-value=1.9e-08  Score=90.73  Aligned_cols=156  Identities=10%  Similarity=-0.008  Sum_probs=94.4

Q ss_pred             hhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEc
Q 038724            4 PKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLD   83 (483)
Q Consensus         4 ~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlD   83 (483)
                      ++.++.+..+......+.+.|+|++|+|||++|+++++...   .....+.|+..+.-..  .+...+..-.++.+||+|
T Consensus        37 ~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~vliiD  111 (242)
T 3bos_A           37 DELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN---ELERRSFYIPLGIHAS--ISTALLEGLEQFDLICID  111 (242)
T ss_dssp             HHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEGGGGGG--SCGGGGTTGGGSSEEEEE
T ss_pred             HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHH--HHHHHHHhccCCCEEEEe
Confidence            45677777777765667899999999999999999998772   1223456776554222  111112222456789999


Q ss_pred             CCCCccc----cccccCCCCC-CCCC-CEEEEecCChhh----------------h---hccCChHHHHHHHHHHhcCCc
Q 038724           84 DLWETID----LSKIGVPLPS-QKIV-SKVVFTTHSEEV----------------C---VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        84 dv~~~~~----~~~l~~~~~~-~~~g-s~ilvTtR~~~~----------------~---l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      |++....    ...+...+.. ...+ .++|+||+....                .   +.+++.++..+++...+....
T Consensus       112 e~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~  191 (242)
T 3bos_A          112 DVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRG  191 (242)
T ss_dssp             TGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTT
T ss_pred             ccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcC
Confidence            9975422    1222211110 0112 247777653221                0   778888998888887764322


Q ss_pred             ccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                         ..-..+..+.+++.++|.+..+..+.
T Consensus       192 ---~~~~~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          192 ---LQLPEDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             ---CCCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             ---CCCCHHHHHHHHHHccCCHHHHHHHH
Confidence               12234567788888888886665443

>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=98.69  E-value=2.7e-08  Score=95.46  Aligned_cols=162  Identities=9%  Similarity=0.070  Sum_probs=100.9

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccC-CCCCCEEEEEEeCCCcCccch---hHHhh----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSE-RPGFDVVIWVVVSKELKLETS---QDDMI----   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~-~~~f~~~~~v~~~~~~~~~~~---~~~i~----   72 (483)
                      +|+++.++.+..++..+..+.+.|+|++|+||||+|+.+++..... ...+. ...+..+.......+   .....    
T Consensus        40 ~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (353)
T 1sxj_D           40 TAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSR-ILELNASDERGISIVREKVKNFARLTV  118 (353)
T ss_dssp             CSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTS-EEEECSSSCCCHHHHTTHHHHHHHSCC
T ss_pred             hCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccc-eEEEccccccchHHHHHHHHHHhhhcc
Confidence            6899999999999988765569999999999999999998875100 01111 233333332222222   11211    


Q ss_pred             -----------hcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHH
Q 038724           73 -----------LSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESW  127 (483)
Q Consensus        73 -----------l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~  127 (483)
                                 ..++..++++|+++...  ....+...+.......+++++|......            +.+++.++..
T Consensus       119 ~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~~~~~~~~~~~  198 (353)
T 1sxj_D          119 SKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAI  198 (353)
T ss_dssp             CCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHHHHH
T ss_pred             cccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEEeCCCCHHHHH
Confidence                       12456799999986542  2233332332223346677666443321            7789999999


Q ss_pred             HHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          128 QVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       128 ~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      +.+...+.....   .-..+..+.|++.++|.|..+..+
T Consensus       199 ~~l~~~~~~~~~---~i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          199 DRLRFISEQENV---KCDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             HHHHHHHHTTTC---CCCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             HHHHHHHHHhCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            988887644331   223566889999999999865433

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.64  E-value=3e-07  Score=90.35  Aligned_cols=159  Identities=12%  Similarity=0.100  Sum_probs=98.4

Q ss_pred             CCChhHH---HHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh------
Q 038724            1 IENPKQF---YQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM------   71 (483)
Q Consensus         1 vgr~~~~---~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i------   71 (483)
                      ||.+..+   ..+...+..+..+.+.|+|++|+||||+|+.+++..   ...|   ..+... ......+...+      
T Consensus        29 vGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~---~~~f---~~l~a~-~~~~~~ir~~~~~a~~~  101 (447)
T 3pvs_A           29 IGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA---NADV---ERISAV-TSGVKEIREAIERARQN  101 (447)
T ss_dssp             CSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT---TCEE---EEEETT-TCCHHHHHHHHHHHHHH
T ss_pred             CCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh---CCCe---EEEEec-cCCHHHHHHHHHHHHHh
Confidence            5777777   788888888888889999999999999999999876   2222   122221 12222222222      


Q ss_pred             hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh-------------hccCChHHHHHHHHHHhcC
Q 038724           72 ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC-------------VDCFTPQESWQVFQMKVGN  136 (483)
Q Consensus        72 ~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~-------------l~~L~~~~a~~l~~~~~~~  136 (483)
                      ...+++.+|+||+++...  ..+.+...+.. +...-|..||.+....             +++++.++..+++......
T Consensus       102 ~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~il~~~l~~  180 (447)
T 3pvs_A          102 RNAGRRTILFVDEVHRFNKSQQDAFLPHIED-GTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAMED  180 (447)
T ss_dssp             HHTTCCEEEEEETTTCC------CCHHHHHT-TSCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHHHHHHHHHC
T ss_pred             hhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-CceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHHHHHHHHHH
Confidence            234678999999997552  33333333322 2222233355554322             8899999999999887644


Q ss_pred             Ccc----cCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          137 ETL----VSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       137 ~~~----~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      ...    ....-..+..+.+++.++|.+..+.-+.
T Consensus       181 ~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~L  215 (447)
T 3pvs_A          181 KTRGYGGQDIVLPDETRRAIAELVNGDARRALNTL  215 (447)
T ss_dssp             TTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHH
T ss_pred             HhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHH
Confidence            110    0112234567888888999887665443

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.64  E-value=7.6e-08  Score=91.36  Aligned_cols=96  Identities=11%  Similarity=0.106  Sum_probs=74.7

Q ss_pred             CCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCC-EEecCCCCCcCCCCCCCCccchhhHh
Q 038724          341 MPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLK-YLDMDDHQQVMEEGNCQSDDAESLLK  418 (483)
Q Consensus       341 l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~-~L~l~~n~~~~~p~~~~l~~~~~~~~  418 (483)
                      +++|+.+++++|++...-+..|..+.+|+.+++..| +..++.. |.++++|+ .+++.+ .+..+           ...
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF~~~~~L~~~l~l~~-~l~~I-----------~~~  291 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVFSNCGRLAGTLELPA-SVTAI-----------EFG  291 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEEEECT-TCCEE-----------CTT
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-cceehHHHhhCChhccEEEEEcc-cceEE-----------chh
Confidence            678999999998754444567889999999999987 8888876 89999999 999988 43322           335


Q ss_pred             hhccccccccceeeccCccc-----cCCCCCccccc
Q 038724          419 EMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCLT  449 (483)
Q Consensus       419 ~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l~  449 (483)
                      .|..+++|+.+++++|.+..     +.++++|+.+.
T Consensus       292 aF~~c~~L~~l~l~~n~i~~I~~~aF~~~~~L~~ly  327 (329)
T 3sb4_A          292 AFMGCDNLRYVLATGDKITTLGDELFGNGVPSKLIY  327 (329)
T ss_dssp             TTTTCTTEEEEEECSSCCCEECTTTTCTTCCCCEEE
T ss_pred             hhhCCccCCEEEeCCCccCccchhhhcCCcchhhhc
Confidence            68889999999999988754     44555665553

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.60  E-value=2e-07  Score=86.41  Aligned_cols=156  Identities=17%  Similarity=0.183  Sum_probs=92.6

Q ss_pred             CCChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC----
Q 038724            1 IENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~----   63 (483)
                      +|.++.+++|.+.+..             ...+.+.|+|++|+|||++|+++++..   ...   .+.+..+.-..    
T Consensus        20 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~---~~~v~~~~~~~~~~~   93 (285)
T 3h4m_A           20 GGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET---NAT---FIRVVGSELVKKFIG   93 (285)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCE---EEEEEGGGGCCCSTT
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehHHHHHhccc
Confidence            6889999999888743             344679999999999999999999876   222   23333322111    


Q ss_pred             -ccchhHHh---hhcCCcEEEEEcCCCCcc----------------ccccccCCCC--CCCCCCEEEEecCChhhh----
Q 038724           64 -LETSQDDM---ILSTKKFLLLLDDLWETI----------------DLSKIGVPLP--SQKIVSKVVFTTHSEEVC----  117 (483)
Q Consensus        64 -~~~~~~~i---~l~~~~~LlvlDdv~~~~----------------~~~~l~~~~~--~~~~gs~ilvTtR~~~~~----  117 (483)
                       .......+   .....+.+|+|||++...                .+..+...+.  ....+..||.||......    
T Consensus        94 ~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l  173 (285)
T 3h4m_A           94 EGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAI  173 (285)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHH
T ss_pred             hHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHH
Confidence             01111111   344667899999996431                0111111111  112346677777644222    


Q ss_pred             -----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCC-chHHHHHH
Q 038724          118 -----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGG-LPLALTIV  166 (483)
Q Consensus       118 -----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plal~~~  166 (483)
                                 ++..+.++..+++...........    ......++..+.| .|-.+..+
T Consensus       174 ~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~----~~~~~~l~~~~~g~~~~~i~~l  230 (285)
T 3h4m_A          174 LRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAE----DVNLEEIAKMTEGCVGAELKAI  230 (285)
T ss_dssp             HSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCT----TCCHHHHHHHCTTCCHHHHHHH
T ss_pred             cCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCC----cCCHHHHHHHcCCCCHHHHHHH
Confidence                       778899999999988775443211    1225677777776 45455443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.59  E-value=7e-07  Score=84.96  Aligned_cols=158  Identities=13%  Similarity=0.059  Sum_probs=98.2

Q ss_pred             CCChhHHHHHHHHHhc-----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            1 IENPKQFYQVWRFLVK-----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      ||+++.++++..++..     ...+.|.|+|++|+|||++|+++++..   ...|   +.+..+.......+...+....
T Consensus        32 iG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~~~~~~~~~~  105 (338)
T 3pfi_A           32 IGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM---SANI---KTTAAPMIEKSGDLAAILTNLS  105 (338)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT---TCCE---EEEEGGGCCSHHHHHHHHHTCC
T ss_pred             CChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCCe---EEecchhccchhHHHHHHHhcc
Confidence            6899999999888874     344578999999999999999998876   2222   2333332222333333334456


Q ss_pred             CcEEEEEcCCCCccc--cccccCCCC------------------CCCCCCEEEEecCChhhh-------------hccCC
Q 038724           76 KKFLLLLDDLWETID--LSKIGVPLP------------------SQKIVSKVVFTTHSEEVC-------------VDCFT  122 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~--~~~l~~~~~------------------~~~~gs~ilvTtR~~~~~-------------l~~L~  122 (483)
                      +..+|+||+++....  ...+...+.                  ...+...+|.+|......             +.+++
T Consensus       106 ~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~  185 (338)
T 3pfi_A          106 EGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEFYK  185 (338)
T ss_dssp             TTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECCCCC
T ss_pred             CCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCCCcC
Confidence            778999999975521  111111110                  001124555555432211             88899


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHH
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      .++..+++...+....   ..-..+..+.+++.+.|.|..+..+.
T Consensus       186 ~~e~~~il~~~~~~~~---~~~~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          186 DSELALILQKAALKLN---KTCEEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             HHHHHHHHHHHHHHTT---CEECHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHCcCHHHHHHHH
Confidence            9999999887764332   12234667888889999996665443

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=98.58  E-value=4.8e-08  Score=100.65  Aligned_cols=107  Identities=11%  Similarity=0.064  Sum_probs=60.1

Q ss_pred             cccceEEEEccccccccccC------CCCCCcccEEEecCCccccc----cchhhhcCCCccEEEccCCccCccCCc---
Q 038724          294 KWLGLRRMSLMNNQIKTLLN------TPSCPHLLTLFLNDNYLQDI----KNGFFQFMPCLKVLNLSYNRFLTKLPS---  360 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~------~~~~~~L~~L~l~~n~~~~~----~~~~~~~l~~L~~L~l~~n~~~~~~p~---  360 (483)
                      .+++|+.|++++|.+++...      ...+++|++|++++|.+..+    .+..+..+++|++|++++|.+ ..+|.   
T Consensus       162 ~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~-~~l~~~~~  240 (592)
T 3ogk_B          162 HCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEI-LELVGFFK  240 (592)
T ss_dssp             HCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBG-GGGHHHHH
T ss_pred             hCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccH-HHHHHHHh
Confidence            45566666666666543311      02355666666666655421    122234556666666666542 22333   


Q ss_pred             ------------------------ccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCC
Q 038724          361 ------------------------GISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQ  401 (483)
Q Consensus       361 ------------------------~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~  401 (483)
                                              .+..+++|+.|+++++....+|..+..+++|++|++++|.+
T Consensus       241 ~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L~Ls~~~l  305 (592)
T 3ogk_B          241 AAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALL  305 (592)
T ss_dssp             HCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEEEETTCCC
T ss_pred             hhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHhhcCCCcEEecCCCcC
Confidence                                    34445555555555555566666677788888888888874

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=98.57  E-value=5.2e-08  Score=100.37  Aligned_cols=155  Identities=18%  Similarity=0.157  Sum_probs=110.3

Q ss_pred             ceEEEEcccccc-c--cccCC-CCCCcccEEEecCCccccc----cchhhhcCCCccEEEccCCccC----ccCCccccc
Q 038724          297 GLRRMSLMNNQI-K--TLLNT-PSCPHLLTLFLNDNYLQDI----KNGFFQFMPCLKVLNLSYNRFL----TKLPSGISK  364 (483)
Q Consensus       297 ~l~~l~l~~~~~-~--~~~~~-~~~~~L~~L~l~~n~~~~~----~~~~~~~l~~L~~L~l~~n~~~----~~~p~~~~~  364 (483)
                      +|+.|++.+|.. +  .+... ..+++|++|+|++|.+...    .+..+..+++|++|++++|.+.    ..++..+..
T Consensus       139 ~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~  218 (592)
T 3ogk_B          139 DLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARN  218 (592)
T ss_dssp             GCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHH
T ss_pred             cCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhh
Confidence            499999998862 1  11111 3689999999999987655    2334677899999999999764    344555678


Q ss_pred             CcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC----CC-CCC---Cc-------cchhhHhhhccccccccc
Q 038724          365 LVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME----EG-NCQ---SD-------DAESLLKEMLCLEQLNII  429 (483)
Q Consensus       365 l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~----p~-~~~---l~-------~~~~~~~~l~~l~~L~~L  429 (483)
                      +++|++|++++|.+..+|..+..+++|+.|+++++.....    +. +..   ++       .....+..+..+++|+.|
T Consensus       219 ~~~L~~L~L~~~~~~~l~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~l~~~~~~~~~L~~L  298 (592)
T 3ogk_B          219 CRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKL  298 (592)
T ss_dssp             CTTCCEEECSSCBGGGGHHHHHHCTTCCEEEECBCCCCTTCTTSSSCCCCCTTCCEEEETTCCTTTGGGGGGGGGGCCEE
T ss_pred             CCCCcEEeccCccHHHHHHHHhhhhHHHhhcccccccccchHHHHHHhhccccccccCccccchhHHHHHHhhcCCCcEE
Confidence            8999999999999888988889999999999986432211    00 111   11       123445566778889999


Q ss_pred             eeeccCcc------ccCCCCCcccccce
Q 038724          430 RLTSCSLC------SLCGLPTVQCLTSR  451 (483)
Q Consensus       430 ~l~~~~l~------~l~~l~~l~~l~l~  451 (483)
                      ++++|.+.      .+..+++|+.|+++
T Consensus       299 ~Ls~~~l~~~~~~~~~~~~~~L~~L~L~  326 (592)
T 3ogk_B          299 DLLYALLETEDHCTLIQKCPNLEVLETR  326 (592)
T ss_dssp             EETTCCCCHHHHHHHHTTCTTCCEEEEE
T ss_pred             ecCCCcCCHHHHHHHHHhCcCCCEEecc
Confidence            99988752      24677778777775

>1sxj_A Activator 1 95 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=98.57  E-value=2.5e-07  Score=93.23  Aligned_cols=156  Identities=12%  Similarity=0.141  Sum_probs=94.9

Q ss_pred             CCChhHHHHHHHHHhc-----------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724            1 IENPKQFYQVWRFLVK-----------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      ||+++.++++.+++..                 ...+.+.|+|++|+|||++|+++++..     .+. ++.+..+....
T Consensus        42 iG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l-----~~~-~i~in~s~~~~  115 (516)
T 1sxj_A           42 CGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYD-ILEQNASDVRS  115 (516)
T ss_dssp             CSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TCE-EEEECTTSCCC
T ss_pred             cCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc-----CCC-EEEEeCCCcch
Confidence            6999999999999975                 134689999999999999999999976     222 33444443322


Q ss_pred             ccchhHHh--------------------hhcCCcEEEEEcCCCCccc-----cccccCCCCCCCCCCEEEEecCChh---
Q 038724           64 LETSQDDM--------------------ILSTKKFLLLLDDLWETID-----LSKIGVPLPSQKIVSKVVFTTHSEE---  115 (483)
Q Consensus        64 ~~~~~~~i--------------------~l~~~~~LlvlDdv~~~~~-----~~~l~~~~~~~~~gs~ilvTtR~~~---  115 (483)
                      ...+...+                    ...+++.+||||+++....     +..+...+.. . +..||+++....   
T Consensus       116 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~-~-~~~iIli~~~~~~~~  193 (516)
T 1sxj_A          116 KTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK-T-STPLILICNERNLPK  193 (516)
T ss_dssp             HHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH-C-SSCEEEEESCTTSST
T ss_pred             HHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh-c-CCCEEEEEcCCCCcc
Confidence            11111111                    1236789999999975422     1222222111 1 233444433221   


Q ss_pred             hh----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch-HHHHHHH
Q 038724          116 VC----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP-LALTIVG  167 (483)
Q Consensus       116 ~~----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lal~~~~  167 (483)
                      ..          +++++.++..+.+...+......   -..+..+.|++.++|.+ -++..+.
T Consensus       194 l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~---i~~~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          194 MRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK---LDPNVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             TGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC---CCTTHHHHHHHHTTTCHHHHHHHHT
T ss_pred             chhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            11          77889999998887766443311   22345788999999855 4455443

>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=98.55  E-value=1.9e-06  Score=79.17  Aligned_cols=159  Identities=14%  Similarity=0.150  Sum_probs=82.2

Q ss_pred             cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-C--ccc---hhHHh---hhcCCcEEEEEcCCC
Q 038724           16 KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-K--LET---SQDDM---ILSTKKFLLLLDDLW   86 (483)
Q Consensus        16 ~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-~--~~~---~~~~i---~l~~~~~LlvlDdv~   86 (483)
                      ....+.+.|+|++|+|||++|+++++..   ..  .. +.+..+... .  ...   ....+   ....+..+|+|||++
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~--~~-~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid  134 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEES---NF--PF-IKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIE  134 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHHH---TC--SE-EEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHHh---CC--CE-EEEeCHHHhcCCchHHHHHHHHHHHHHHHhcCCcEEEEEChh
Confidence            3456789999999999999999999975   22  22 222222111 1  000   11111   334678999999986


Q ss_pred             Cc------------cccccccCCCC---CCCCCCEEEEecCChhhh--------------hccCCh-HHHHHHHHHHhcC
Q 038724           87 ET------------IDLSKIGVPLP---SQKIVSKVVFTTHSEEVC--------------VDCFTP-QESWQVFQMKVGN  136 (483)
Q Consensus        87 ~~------------~~~~~l~~~~~---~~~~gs~ilvTtR~~~~~--------------l~~L~~-~~a~~l~~~~~~~  136 (483)
                      ..            ..+..+...+.   .......||.||......              +.+++. ++..+++....  
T Consensus       135 ~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~--  212 (272)
T 1d2n_A          135 RLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG--  212 (272)
T ss_dssp             HHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT--
T ss_pred             hhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC--
Confidence            42            01122222221   122234566677665321              555666 45555544321  


Q ss_pred             CcccCCCCchhHHHHHHhHcCC------chHHHHHHHHHhcCCCCHHHHHHHHHHHHhc
Q 038724          137 ETLVSHPAIHKPAKMVAKDCGG------LPLALTIVGRAMAYKKTPEEWKDAIEILMRS  189 (483)
Q Consensus       137 ~~~~~~~~~~~~~~~i~~~c~g------~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~  189 (483)
                            .-..+..+.+++.+.|      ..-++.++-.... ......+..+++.+...
T Consensus       213 ------~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~-~~~~~~~~~~~~~l~~~  264 (272)
T 1d2n_A          213 ------NFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQ-MDPEYRVRKFLALLREE  264 (272)
T ss_dssp             ------CSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTT-SCGGGHHHHHHHHHHHT
T ss_pred             ------CCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhh-hchHHHHHHHHHHHHHc
Confidence                  1124456777877777      3344443333322 23445566655555443

>1sxj_E Activator 1 40 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=98.53  E-value=1.4e-07  Score=90.47  Aligned_cols=164  Identities=12%  Similarity=0.081  Sum_probs=97.0

Q ss_pred             CCChhHHHHHHHHH-hcCCeEEEEEEcCCCCcHHHHHHHHHhhcccC-CCC--CCE--------------------EEEE
Q 038724            1 IENPKQFYQVWRFL-VKKDVGIIGLFGTGGVGKTTILKQINNRFCSE-RPG--FDV--------------------VIWV   56 (483)
Q Consensus         1 vgr~~~~~~l~~~l-~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~-~~~--f~~--------------------~~~v   56 (483)
                      ||+++.++.+.+++ ..+..+.+.|+|++|+||||+|+.++...... .+.  +++                    .+.+
T Consensus        17 vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (354)
T 1sxj_E           17 SHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEI   96 (354)
T ss_dssp             CSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSEEEE
T ss_pred             cCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecccceEEe
Confidence            68899999999998 66654459999999999999999998853111 110  110                    1112


Q ss_pred             EeCCCc--C---ccchhHHhh----h---------cCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhh
Q 038724           57 VVSKEL--K---LETSQDDMI----L---------STKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEV  116 (483)
Q Consensus        57 ~~~~~~--~---~~~~~~~i~----l---------~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~  116 (483)
                      ..+...  .   .++....+.    +         .+++-++|+|++...+.  ...+...+.....+..+|++|.+...
T Consensus        97 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il~t~~~~~  176 (354)
T 1sxj_E           97 TPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSP  176 (354)
T ss_dssp             CCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCS
T ss_pred             cHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEEEEeCCHHH
Confidence            111111  1   122222221    1         33677999999976422  22232222222335677777655322


Q ss_pred             h------------hccCChHHHHHHHHHHhcCCcccCCCCc-hhHHHHHHhHcCCchHHHHHHH
Q 038724          117 C------------VDCFTPQESWQVFQMKVGNETLVSHPAI-HKPAKMVAKDCGGLPLALTIVG  167 (483)
Q Consensus       117 ~------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~-~~~~~~i~~~c~g~Plal~~~~  167 (483)
                      .            +.+++.++..+.+...+.....   .-. ++..+.|++.++|.+..+..+.
T Consensus       177 l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          177 IIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI---QLETKDILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC---EECCSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCC---CCCcHHHHHHHHHHcCCCHHHHHHHH
Confidence            1            7889999999999877643331   112 4567889999999987665443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.50  E-value=4.3e-07  Score=85.93  Aligned_cols=154  Identities=12%  Similarity=0.059  Sum_probs=94.1

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-------h
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-------I   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-------~   72 (483)
                      ||+++.++.+.+++..+.. +++.++|++|+|||++|+++++..   .   ...+.++.+.. ....+...+       .
T Consensus        29 vg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l---~---~~~~~i~~~~~-~~~~i~~~~~~~~~~~~  101 (324)
T 3u61_B           29 ILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV---N---ADMMFVNGSDC-KIDFVRGPLTNFASAAS  101 (324)
T ss_dssp             CCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT---T---EEEEEEETTTC-CHHHHHTHHHHHHHBCC
T ss_pred             hCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---C---CCEEEEccccc-CHHHHHHHHHHHHhhcc
Confidence            6889999999999997654 567778889999999999999876   1   22445554432 222222222       2


Q ss_pred             hcCCcEEEEEcCCCCcc---ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHH-------
Q 038724           73 LSTKKFLLLLDDLWETI---DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVF-------  130 (483)
Q Consensus        73 l~~~~~LlvlDdv~~~~---~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~-------  130 (483)
                      ..+++.++|+||++...   ....+...+.......++|+||......            +++++.++-.+++       
T Consensus       102 ~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~l  181 (324)
T 3u61_B          102 FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRRL  181 (324)
T ss_dssp             CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHH
Confidence            33578899999998654   2333332222222346777777654322            6778877743332       


Q ss_pred             HHHhcCCcccCCCCch-hHHHHHHhHcCCchHHHH
Q 038724          131 QMKVGNETLVSHPAIH-KPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       131 ~~~~~~~~~~~~~~~~-~~~~~i~~~c~g~Plal~  164 (483)
                      ...+....   ..-.. +..+.+++.++|.+..+.
T Consensus       182 ~~~~~~~~---~~~~~~~~~~~l~~~~~gd~R~a~  213 (324)
T 3u61_B          182 TEICKHEG---IAIADMKVVAALVKKNFPDFRKTI  213 (324)
T ss_dssp             HHHHHHHT---CCBSCHHHHHHHHHHTCSCTTHHH
T ss_pred             HHHHHHcC---CCCCcHHHHHHHHHhCCCCHHHHH
Confidence            22222222   11123 667888888988776543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.50  E-value=8.3e-08  Score=82.72  Aligned_cols=88  Identities=15%  Similarity=0.249  Sum_probs=59.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCc-----------Ccc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKEL-----------KLE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~-----------~~~   65 (483)
                      |||+++++++.+.+.....+.+.|+|++|+|||++|+++++.......    .-...+++..+.-.           ...
T Consensus        25 ~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (187)
T 2p65_A           25 IGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLK  104 (187)
T ss_dssp             CSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHHHHCCSHHHHHHHHH
T ss_pred             hcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhhcCCCchhHHHHHHH
Confidence            699999999999998876778899999999999999999987622110    11234444332211           012


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCc
Q 038724           66 TSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      .+...+...+++.+|||||++..
T Consensus       105 ~~~~~~~~~~~~~vl~iDe~~~l  127 (187)
T 2p65_A          105 SILKEVQDAEGQVVMFIDEIHTV  127 (187)
T ss_dssp             HHHHHHHHTTTSEEEEETTGGGG
T ss_pred             HHHHHHHhcCCceEEEEeCHHHh
Confidence            22222344467889999999654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.50  E-value=3e-06  Score=79.74  Aligned_cols=159  Identities=13%  Similarity=0.114  Sum_probs=90.5

Q ss_pred             CCChhHHHHHHHHHhc------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            1 IENPKQFYQVWRFLVK------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      +|.++..++|.+.+..            ...+-|.|+|++|+|||++|+++++..   .+  ...+.+..+.-..     
T Consensus        15 ~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~--~~~~~i~~~~l~~~~~g~   89 (322)
T 1xwi_A           15 AGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA---NN--STFFSISSSDLVSKWLGE   89 (322)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT---TS--CEEEEEECCSSCCSSCCS
T ss_pred             cCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc---CC--CcEEEEEhHHHHhhhhhH
Confidence            4777778888776631            233679999999999999999999865   11  1223344332111     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc-------------cccccC---CCCCCCCCCEEEEecCChhhh-------
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID-------------LSKIGV---PLPSQKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~-------------~~~l~~---~~~~~~~gs~ilvTtR~~~~~-------  117 (483)
                      .......+   ....++.+|+||+++....             ...+..   .+.....+..||.||......       
T Consensus        90 ~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~rR  169 (322)
T 1xwi_A           90 SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRR  169 (322)
T ss_dssp             CHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHHT
T ss_pred             HHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHhh
Confidence            11122222   3456789999999975411             011111   111112344555555433221       


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCc-hHHHHHHH
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGL-PLALTIVG  167 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~-Plal~~~~  167 (483)
                            ++..+.++-.+++.........   .-.....+.+++.+.|. +-.+..+.
T Consensus       170 f~~~i~i~~P~~~~r~~il~~~l~~~~~---~l~~~~l~~la~~t~G~sgadl~~l~  223 (322)
T 1xwi_A          170 FEKRIYIPLPEPHARAAMFKLHLGTTQN---SLTEADFRELGRKTDGYSGADISIIV  223 (322)
T ss_dssp             CCEEEECCCCCHHHHHHHHHHHHTTCCB---CCCHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             cCeEEEeCCcCHHHHHHHHHHHHhcCCC---CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence                  6667778888888777644321   11245677888888876 44455444

>1sxj_C Activator 1 40 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=98.48  E-value=3.1e-07  Score=87.53  Aligned_cols=158  Identities=11%  Similarity=0.129  Sum_probs=96.1

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCC-EEEEEEeCCCcCccchhHHh---h----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFD-VVIWVVVSKELKLETSQDDM---I----   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~-~~~~v~~~~~~~~~~~~~~i---~----   72 (483)
                      +|.+..++.|..++..+..+.+.++|++|+||||+|+.+++... . ..+. .+..+..+.......+.+.+   .    
T Consensus        28 ~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~-~-~~~~~~~~~~~~~~~~~~~~ir~~i~~~~~~~~  105 (340)
T 1sxj_C           28 YGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY-G-KNYSNMVLELNASDDRGIDVVRNQIKDFASTRQ  105 (340)
T ss_dssp             CSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH-T-TSHHHHEEEECTTSCCSHHHHHTHHHHHHHBCC
T ss_pred             cCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc-C-CCccceEEEEcCcccccHHHHHHHHHHHHhhcc
Confidence            57888899999999988765699999999999999999998762 1 1111 12333333322332222222   1    


Q ss_pred             -hcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhh------------hhccCChHHHHHHHHHHhcCC
Q 038724           73 -LSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEV------------CVDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        73 -l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~------------~l~~L~~~~a~~l~~~~~~~~  137 (483)
                       ..+.+-++|+|+++...  ....+...+.......+++++|....-            .+.+++.++..+.+...+...
T Consensus       106 ~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~~l~~~~~~~  185 (340)
T 1sxj_C          106 IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHE  185 (340)
T ss_dssp             SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTT
T ss_pred             cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHHHHHHHHHHc
Confidence             22457889999996542  222232222222234566666544321            167888888888887766333


Q ss_pred             cccCCCCchhHHHHHHhHcCCchHHH
Q 038724          138 TLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       138 ~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ..   .-.++..+.+++.++|.+.-+
T Consensus       186 ~~---~i~~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          186 KL---KLSPNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             TC---CBCHHHHHHHHHHHTTCHHHH
T ss_pred             CC---CCCHHHHHHHHHHcCCCHHHH
Confidence            21   122456778888999887643

>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=98.47  E-value=9.8e-07  Score=83.68  Aligned_cols=153  Identities=9%  Similarity=0.015  Sum_probs=97.6

Q ss_pred             hhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeC---C
Q 038724            4 PKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVS---K   60 (483)
Q Consensus         4 ~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~---~   60 (483)
                      ++..+.+.+.+..++. +.+.++|++|+|||++|+.+++......                   .+++ ..++...   .
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~~   86 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGKN   86 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTCS
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccCC
Confidence            4567778888877654 4699999999999999999988762111                   1233 3344432   2


Q ss_pred             CcCcc---chhHHh---hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hcc
Q 038724           61 ELKLE---TSQDDM---ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDC  120 (483)
Q Consensus        61 ~~~~~---~~~~~i---~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~  120 (483)
                      .....   ++.+.+   ...+++.++|+|+++...  ....+...+.....+..+|++|.+..-.            +.+
T Consensus        87 ~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~  166 (334)
T 1a5t_A           87 TLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAP  166 (334)
T ss_dssp             SBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             CCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCC
Confidence            23333   222232   234678899999997653  2334444444334456666666554322            888


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTI  165 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~  165 (483)
                      +++++..+.+....        .-..+.++.+++.++|.|..+..
T Consensus       167 ~~~~~~~~~L~~~~--------~~~~~~~~~l~~~s~G~~r~a~~  203 (334)
T 1a5t_A          167 PPEQYAVTWLSREV--------TMSQDALLAALRLSAGSPGAALA  203 (334)
T ss_dssp             CCHHHHHHHHHHHC--------CCCHHHHHHHHHHTTTCHHHHHH
T ss_pred             CCHHHHHHHHHHhc--------CCCHHHHHHHHHHcCCCHHHHHH
Confidence            99999998887765        11234567899999999976643

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.47  E-value=1.7e-06  Score=82.76  Aligned_cols=158  Identities=15%  Similarity=0.060  Sum_probs=91.6

Q ss_pred             CCChhHHHHHHHHHhc------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc----
Q 038724            1 IENPKQFYQVWRFLVK------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL----   64 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~----   64 (483)
                      +|.++.+++|.+.+..            ...+.|.|+|++|+|||++|+++++..   ..   ..+.+..+.-...    
T Consensus        87 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~---~~~~i~~~~l~~~~~g~  160 (357)
T 3d8b_A           87 AGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS---GA---TFFSISASSLTSKWVGE  160 (357)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT---TC---EEEEEEGGGGCCSSTTH
T ss_pred             CChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc---CC---eEEEEehHHhhccccch
Confidence            5888888988888742            345689999999999999999999876   22   2334444332211    


Q ss_pred             -cchhHHh---hhcCCcEEEEEcCCCCccc-------------cccccCCC---C-CCCCCCEEEEecCChhhh------
Q 038724           65 -ETSQDDM---ILSTKKFLLLLDDLWETID-------------LSKIGVPL---P-SQKIVSKVVFTTHSEEVC------  117 (483)
Q Consensus        65 -~~~~~~i---~l~~~~~LlvlDdv~~~~~-------------~~~l~~~~---~-~~~~gs~ilvTtR~~~~~------  117 (483)
                       ......+   ....++.+|+||+++....             ...+...+   . ....+..||.||......      
T Consensus       161 ~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~  240 (357)
T 3d8b_A          161 GEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR  240 (357)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHT
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHh
Confidence             1111111   3346678999999953210             11111111   1 112234555566443221      


Q ss_pred             -------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCC-chHHHHHHH
Q 038724          118 -------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGG-LPLALTIVG  167 (483)
Q Consensus       118 -------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plal~~~~  167 (483)
                             +...+.++..+++...+.....   .-..+..+.+++.+.| .+-.+..+.
T Consensus       241 Rf~~~i~i~~p~~~~r~~il~~~~~~~~~---~l~~~~l~~la~~t~G~s~~dl~~l~  295 (357)
T 3d8b_A          241 RLVKRLYIPLPEASARKQIVINLMSKEQC---CLSEEEIEQIVQQSDAFSGADMTQLC  295 (357)
T ss_dssp             TCCEEEECCCCCHHHHHHHHHHHHHTSCB---CCCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             hCceEEEeCCcCHHHHHHHHHHHHhhcCC---CccHHHHHHHHHHcCCCCHHHHHHHH
Confidence                   6667777878888776643321   1124567788888887 455555554

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.46  E-value=1.7e-07  Score=88.05  Aligned_cols=134  Identities=9%  Similarity=0.080  Sum_probs=76.1

Q ss_pred             CCChhHHHHHHHHHh---------------cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCC--EEEEEEeCCCcC
Q 038724            1 IENPKQFYQVWRFLV---------------KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFD--VVIWVVVSKELK   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~---------------~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~--~~~~v~~~~~~~   63 (483)
                      ||.++..+.|.+.+.               ......+.|+|++|+|||++|+++++.... .....  ..+.+..+.-..
T Consensus        34 ~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~~~l~~  112 (309)
T 3syl_A           34 IGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR-LGYVRKGHLVSVTRDDLVG  112 (309)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHH-TTSSSSCCEEEECGGGTCC
T ss_pred             cChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-cCCcCCCcEEEEcHHHhhh
Confidence            578888888776654               234457999999999999999988877621 11111  223333221110


Q ss_pred             -----ccchhHHhhhcCCcEEEEEcCCCCc-----------cccccccCCCCCCCCCCEEEEecCChhh----------h
Q 038724           64 -----LETSQDDMILSTKKFLLLLDDLWET-----------IDLSKIGVPLPSQKIVSKVVFTTHSEEV----------C  117 (483)
Q Consensus        64 -----~~~~~~~i~l~~~~~LlvlDdv~~~-----------~~~~~l~~~~~~~~~gs~ilvTtR~~~~----------~  117 (483)
                           .......+....+..+|+||+++..           .....+...+.....+..+|+||.....          .
T Consensus       113 ~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~  192 (309)
T 3syl_A          113 QYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFR  192 (309)
T ss_dssp             SSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHH
T ss_pred             hcccccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHH
Confidence                 0000111111124569999999733           1223333333333345677777754321          1


Q ss_pred             --------hccCChHHHHHHHHHHhc
Q 038724          118 --------VDCFTPQESWQVFQMKVG  135 (483)
Q Consensus       118 --------l~~L~~~~a~~l~~~~~~  135 (483)
                              +++++.++..+++...+.
T Consensus       193 ~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          193 SRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             HHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             HhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence                    778888888888877664

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.45  E-value=4.6e-07  Score=84.27  Aligned_cols=42  Identities=5%  Similarity=0.166  Sum_probs=36.8

Q ss_pred             CChhHHHHHHHHHhc----CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            2 ENPKQFYQVWRFLVK----KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         2 gr~~~~~~l~~~l~~----~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||++++++|...+..    +..+.+.|+|++|+|||++++++++..
T Consensus        24 ~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L   69 (318)
T 3te6_A           24 SQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDEL   69 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            789999988877754    566789999999999999999999887

>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=98.45  E-value=1.4e-06  Score=82.25  Aligned_cols=158  Identities=13%  Similarity=0.077  Sum_probs=92.4

Q ss_pred             CCChhHHHHHHHHHh----------c--CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-----C
Q 038724            1 IENPKQFYQVWRFLV----------K--KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-----K   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~----------~--~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-----~   63 (483)
                      +|.++.+++|.+.+.          .  ...+-|.|+|++|+|||++|+++++..   ...   .+.+..+.-.     .
T Consensus        21 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~---~~~v~~~~l~~~~~g~   94 (322)
T 3eie_A           21 AGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSSDLVSKWMGE   94 (322)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH---TCE---EEEEEHHHHHTTTGGG
T ss_pred             cChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH---CCC---EEEEchHHHhhcccch
Confidence            578888888888872          1  123579999999999999999999976   222   2333332110     0


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc-------------ccccc---CCCCCCCCCCEEEEecCChhhh-------
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID-------------LSKIG---VPLPSQKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~-------------~~~l~---~~~~~~~~gs~ilvTtR~~~~~-------  117 (483)
                      .......+   ....++.+|+||+++....             ...+.   ..+.....+..||.||......       
T Consensus        95 ~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~R  174 (322)
T 3eie_A           95 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRR  174 (322)
T ss_dssp             HHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHcc
Confidence            11111122   3456778999999974321             11111   1111123345666666554322       


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCC-chHHHHHHH
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGG-LPLALTIVG  167 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plal~~~~  167 (483)
                            ++..+.++-.+++...+....   ..-.....+.+++.+.| .+-.+..+.
T Consensus       175 f~~~i~~~~p~~~~r~~il~~~~~~~~---~~~~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          175 FERRIYIPLPDLAARTTMFEINVGDTP---CVLTKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             CCEEEECCCCCHHHHHHHHHHHHTTCC---CCCCHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             cCeEEEeCCCCHHHHHHHHHHHhccCC---CCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence                  667788888888887775433   11224456788888876 444554444

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=98.41  E-value=5e-08  Score=100.54  Aligned_cols=15  Identities=7%  Similarity=0.056  Sum_probs=8.9

Q ss_pred             hccccccccceeecc
Q 038724          420 MLCLEQLNIIRLTSC  434 (483)
Q Consensus       420 l~~l~~L~~L~l~~~  434 (483)
                      +..+++|+.|++++|
T Consensus       310 ~~~~~~L~~L~l~~~  324 (594)
T 2p1m_B          310 LCQCPKLQRLWVLDY  324 (594)
T ss_dssp             HTTCTTCCEEEEEGG
T ss_pred             HhcCCCcCEEeCcCc
Confidence            445566666666655

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.40  E-value=8.3e-06  Score=80.34  Aligned_cols=159  Identities=13%  Similarity=0.120  Sum_probs=90.6

Q ss_pred             CCChhHHHHHHHHHh------------cCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-----C
Q 038724            1 IENPKQFYQVWRFLV------------KKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-----K   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~------------~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-----~   63 (483)
                      +|.++..+.|.+.+.            ....+.|.|+|++|+|||++|+++++..   .+  ...+.+..+.-.     .
T Consensus       137 ~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~---~~--~~~~~v~~~~l~~~~~g~  211 (444)
T 2zan_A          137 AGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA---NN--STFFSISSSDLVSKWLGE  211 (444)
T ss_dssp             CSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC---CS--SEEEEECCC---------
T ss_pred             cCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc---CC--CCEEEEeHHHHHhhhcch
Confidence            577888888887773            1234679999999999999999999875   11  112222221110     0


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc-------------cccccCCCCC---CCCCCEEEEecCChhhh-------
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID-------------LSKIGVPLPS---QKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~-------------~~~l~~~~~~---~~~gs~ilvTtR~~~~~-------  117 (483)
                      .......+   .....+.+|+||+++....             ...+...+..   ...+..||.||......       
T Consensus       212 ~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al~rR  291 (444)
T 2zan_A          212 SEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRR  291 (444)
T ss_dssp             CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHHHhh
Confidence            11112222   3346788999999975411             1122222221   23456666666544322       


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCc-hHHHHHHH
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGL-PLALTIVG  167 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~-Plal~~~~  167 (483)
                            +...+.++-.+++.........   .-.....+.|++.+.|. +-.+..+.
T Consensus       292 f~~~i~i~~P~~~~r~~il~~~l~~~~~---~l~~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          292 FEKRIYIPLPEAHARAAMFRLHLGSTQN---SLTEADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             CCEEEECCCCCHHHHHHHHHHHHTTSCE---ECCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             cceEEEeCCcCHHHHHHHHHHHHhcCCC---CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence                  5566777777788777644321   11235567888888874 44554444

>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=98.36  E-value=4.1e-06  Score=76.41  Aligned_cols=158  Identities=15%  Similarity=0.144  Sum_probs=85.7

Q ss_pred             CCChhHHHHHHHHHh---c---------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCcc---
Q 038724            1 IENPKQFYQVWRFLV---K---------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE---   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~---~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~---   65 (483)
                      +|.++..+++.+.+.   .         ...+.+.|+|++|+|||++|+++++..   ...   .+.+..+.-....   
T Consensus         9 ~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~---~~~~~~~~~~~~~~~~   82 (262)
T 2qz4_A            9 AGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA---QVP---FLAMAGAEFVEVIGGL   82 (262)
T ss_dssp             CSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCC---EEEEETTTTSSSSTTH
T ss_pred             CCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEechHHHHhhccCh
Confidence            577777777766543   1         233568899999999999999999976   222   2334433221100   


Q ss_pred             --chhHHh---hhcCCcEEEEEcCCCCcc--------------c---cccccCCCCC--CCCCCEEEEecCChhhh----
Q 038724           66 --TSQDDM---ILSTKKFLLLLDDLWETI--------------D---LSKIGVPLPS--QKIVSKVVFTTHSEEVC----  117 (483)
Q Consensus        66 --~~~~~i---~l~~~~~LlvlDdv~~~~--------------~---~~~l~~~~~~--~~~gs~ilvTtR~~~~~----  117 (483)
                        .....+   .....+.+|+||+++...              .   +..+...+..  ...+..+|.||......    
T Consensus        83 ~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l  162 (262)
T 2qz4_A           83 GAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGAL  162 (262)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGG
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHH
Confidence              011111   334567999999997541              0   1111111111  12245666666443311    


Q ss_pred             -----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHHHH
Q 038724          118 -----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALTIV  166 (483)
Q Consensus       118 -----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~~~  166 (483)
                                 ++..+.++-.+++...+.....  ........+.+++.+.|.+- .+..+
T Consensus       163 ~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--~~~~~~~~~~l~~~~~g~~~~~l~~l  221 (262)
T 2qz4_A          163 MRPGRLDRHVFIDLPTLQERREIFEQHLKSLKL--TQSSTFYSQRLAELTPGFSGADIANI  221 (262)
T ss_dssp             GSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTC--CBTHHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             hcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCC--CcchhhHHHHHHHHCCCCCHHHHHHH
Confidence                       6677888888888877643321  11112234678888877653 44433

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=98.36  E-value=1.3e-07  Score=97.49  Aligned_cols=107  Identities=17%  Similarity=0.079  Sum_probs=77.0

Q ss_pred             ccccceEEEEccccccccccCC---CCCCcccEEEecCC-ccccc-cchhhhcCCCccEEEccCCccCccCCccc----c
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNT---PSCPHLLTLFLNDN-YLQDI-KNGFFQFMPCLKVLNLSYNRFLTKLPSGI----S  363 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~---~~~~~L~~L~l~~n-~~~~~-~~~~~~~l~~L~~L~l~~n~~~~~~p~~~----~  363 (483)
                      ..+++|+.|++++|.++.....   ..+++|++|++++| .+... .+..+..+++|++|++++|.+.+..+..+    .
T Consensus       102 ~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i~~~~~~~l~~~~~  181 (594)
T 2p1m_B          102 SSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPD  181 (594)
T ss_dssp             HHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEEECCCGGGGGGSCT
T ss_pred             HhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCccCCcchHHHHHHhh
Confidence            4567899999999987654321   25789999999998 55442 33445679999999999997544333333    3


Q ss_pred             cCcCCCEEeccCCCCCccC-----ccccCCcCCCEEecCCCC
Q 038724          364 KLVSLQHLDISFTSTLELP-----EELKALEKLKYLDMDDHQ  400 (483)
Q Consensus       364 ~l~~L~~L~l~~~~i~~lp-----~~~~~l~~L~~L~l~~n~  400 (483)
                      .+++|++|++++|. ..++     .-+..+++|++|++++|.
T Consensus       182 ~~~~L~~L~l~~~~-~~~~~~~l~~l~~~~~~L~~L~L~~~~  222 (594)
T 2p1m_B          182 TYTSLVSLNISCLA-SEVSFSALERLVTRCPNLKSLKLNRAV  222 (594)
T ss_dssp             TCCCCCEEECTTCC-SCCCHHHHHHHHHHCTTCCEEECCTTS
T ss_pred             cCCcCcEEEecccC-CcCCHHHHHHHHHhCCCCcEEecCCCC
Confidence            66799999999987 3332     223557999999999983

>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=98.36  E-value=3.1e-07  Score=90.36  Aligned_cols=154  Identities=17%  Similarity=0.162  Sum_probs=89.4

Q ss_pred             HHHHHHHHhcCC-eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh----------hhcC
Q 038724            7 FYQVWRFLVKKD-VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM----------ILST   75 (483)
Q Consensus         7 ~~~l~~~l~~~~-~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i----------~l~~   75 (483)
                      ...+.......+ ...+.|+|++|+||||||+++++........ ..+++++...-  ..++...+          ....
T Consensus       117 ~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~-~~v~~v~~~~~--~~~~~~~~~~~~~~~~~~~~~~  193 (440)
T 2z4s_A          117 YHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPD-LRVMYITSEKF--LNDLVDSMKEGKLNEFREKYRK  193 (440)
T ss_dssp             HHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCS-SCEEEEEHHHH--HHHHHHHHHTTCHHHHHHHHTT
T ss_pred             HHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCC-CeEEEeeHHHH--HHHHHHHHHcccHHHHHHHhcC
Confidence            334444444433 5689999999999999999999876211111 22455654321  11222222          1222


Q ss_pred             CcEEEEEcCCCCccc----cccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHH
Q 038724           76 KKFLLLLDDLWETID----LSKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQ  131 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~----~~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~  131 (483)
                      +..+|+|||++....    .+.+...+.. ...|..||+||......                   +++++.++..+++.
T Consensus       194 ~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~  273 (440)
T 2z4s_A          194 KVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIAR  273 (440)
T ss_dssp             TCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHH
T ss_pred             CCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHH
Confidence            677999999965432    1222222211 13467888888763211                   67788888888887


Q ss_pred             HHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          132 MKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      ..+.....   .-..+..+.|++.++|.+..+.-+
T Consensus       274 ~~~~~~~~---~i~~e~l~~la~~~~gn~R~l~~~  305 (440)
T 2z4s_A          274 KMLEIEHG---ELPEEVLNFVAENVDDNLRRLRGA  305 (440)
T ss_dssp             HHHHHHTC---CCCTTHHHHHHHHCCSCHHHHHHH
T ss_pred             HHHHHcCC---CCCHHHHHHHHHhcCCCHHHHHHH
Confidence            76643221   122345778888888888665443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.34  E-value=2.4e-06  Score=82.92  Aligned_cols=158  Identities=12%  Similarity=0.082  Sum_probs=88.1

Q ss_pred             CCChhHHHHHHHHHhc------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            1 IENPKQFYQVWRFLVK------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      ||.+..++.|.+++..            ...+.|.|+|++|+|||++|+++++..   ...   .+.+..+.-..     
T Consensus       118 iG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~---~~~---~~~v~~~~l~~~~~g~  191 (389)
T 3vfd_A          118 AGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES---NAT---FFNISAASLTSKYVGE  191 (389)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT---TCE---EEEECSCCC-------
T ss_pred             CCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh---cCc---EEEeeHHHhhccccch
Confidence            6889999999888832            234689999999999999999999876   221   23333222111     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc-------------cccccCCC---C-CCCCCCEEEEecCChhhh------
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID-------------LSKIGVPL---P-SQKIVSKVVFTTHSEEVC------  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~-------------~~~l~~~~---~-~~~~gs~ilvTtR~~~~~------  117 (483)
                      .......+   .....+.+|+||+++....             ...+...+   . .......||.||......      
T Consensus       192 ~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~  271 (389)
T 3vfd_A          192 GEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR  271 (389)
T ss_dssp             CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHT
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHc
Confidence            11111112   3345668999999964410             00111111   1 111234555555443221      


Q ss_pred             -------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHHHHH
Q 038724          118 -------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALTIVG  167 (483)
Q Consensus       118 -------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~~~~  167 (483)
                             +...+.++..+++...+....   ..-..+..+.+++.+.|..- ++..+.
T Consensus       272 R~~~~i~i~~p~~~~r~~il~~~~~~~~---~~l~~~~~~~la~~~~g~~~~~l~~L~  326 (389)
T 3vfd_A          272 RFIKRVYVSLPNEETRLLLLKNLLCKQG---SPLTQKELAQLARMTDGYSGSDLTALA  326 (389)
T ss_dssp             TCCEEEECCCCCHHHHHHHHHHHHTTSC---CCSCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CcceEEEcCCcCHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence                   566777888888877664432   12223456778888877543 444443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.33  E-value=9.4e-06  Score=75.55  Aligned_cols=158  Identities=13%  Similarity=0.097  Sum_probs=89.7

Q ss_pred             CCChhHHHHHHHHHhc------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            1 IENPKQFYQVWRFLVK------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      +|.++.++.+.+.+..            ...+.+.|+|++|+|||++|+++++..   ...   .+.+..+.-..     
T Consensus        24 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~---~~~---~~~i~~~~l~~~~~~~   97 (297)
T 3b9p_A           24 AGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC---SAT---FLNISAASLTSKYVGD   97 (297)
T ss_dssp             CCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT---TCE---EEEEESTTTSSSSCSC
T ss_pred             CChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCC---eEEeeHHHHhhcccch
Confidence            6888888988887742            234689999999999999999999876   222   23344332211     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCcccc-------------ccc---cCCCCCC--CCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETIDL-------------SKI---GVPLPSQ--KIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~~-------------~~l---~~~~~~~--~~gs~ilvTtR~~~~~-----  117 (483)
                      .......+   ....++.+|++|+++....-             ..+   ...++..  +.+..|+.||......     
T Consensus        98 ~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l~  177 (297)
T 3b9p_A           98 GEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAAL  177 (297)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHHH
Confidence            11111111   34567889999999654110             011   1111111  1234566666654221     


Q ss_pred             --------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHHHHH
Q 038724          118 --------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALTIVG  167 (483)
Q Consensus       118 --------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~~~~  167 (483)
                              +...+.++..+++........   ..-..+..+.+++.+.|.+- ++..+.
T Consensus       178 ~R~~~~i~~~~p~~~~r~~il~~~~~~~~---~~~~~~~~~~la~~~~g~~~~~l~~l~  233 (297)
T 3b9p_A          178 RRFTKRVYVSLPDEQTRELLLNRLLQKQG---SPLDTEALRRLAKITDGYSGSDLTALA  233 (297)
T ss_dssp             HHCCEEEECCCCCHHHHHHHHHHHHGGGS---CCSCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             hhCCeEEEeCCcCHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence                    555667777777766654322   11223456778888888775 444443

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.30  E-value=2.8e-06  Score=82.58  Aligned_cols=114  Identities=12%  Similarity=0.111  Sum_probs=74.9

Q ss_pred             hcccCccccccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCccc
Q 038724          284 LRDVVPSDALKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGI  362 (483)
Q Consensus       284 l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~  362 (483)
                      +..+-...+..+.+|+.+++.+|.++.++.. ..+.+|+.+.+..+ ++.+....|..+++|+.+++..+ +...-...|
T Consensus       168 l~~I~~~aF~~c~~L~~l~l~~n~l~~I~~~aF~~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF  245 (401)
T 4fdw_A          168 LEQLKEDIFYYCYNLKKADLSKTKITKLPASTFVYAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAF  245 (401)
T ss_dssp             CCEECSSTTTTCTTCCEEECTTSCCSEECTTTTTTCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT-CCEECTTTT
T ss_pred             ccEehHHHhhCcccCCeeecCCCcceEechhhEeecccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC-ccCcccccc
Confidence            3344445566777888888888888777655 23577888888744 67777777888888888888765 333333344


Q ss_pred             ccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCC
Q 038724          363 SKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQ  401 (483)
Q Consensus       363 ~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~  401 (483)
                      .+ .+|+.+.+ .+.+..++.. |.++++|+.+++.+|..
T Consensus       246 ~~-~~L~~i~l-p~~i~~I~~~aF~~c~~L~~l~l~~~~~  283 (401)
T 4fdw_A          246 RE-SGITTVKL-PNGVTNIASRAFYYCPELAEVTTYGSTF  283 (401)
T ss_dssp             TT-CCCSEEEE-ETTCCEECTTTTTTCTTCCEEEEESSCC
T ss_pred             cc-CCccEEEe-CCCccEEChhHhhCCCCCCEEEeCCccc
Confidence            44 66777777 3446666544 66777777777766654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.29  E-value=2.8e-06  Score=81.82  Aligned_cols=43  Identities=16%  Similarity=0.240  Sum_probs=33.7

Q ss_pred             CCChhHHHH---HHHHHhcCCe--EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQ---VWRFLVKKDV--GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~---l~~~l~~~~~--~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||++...+.   +.+.+..+..  +.+.|+|++|+|||++|+++++..
T Consensus        47 vG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           47 VGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             ESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            577777665   4555555433  589999999999999999999987

>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=98.29  E-value=1.6e-06  Score=82.81  Aligned_cols=158  Identities=13%  Similarity=0.090  Sum_probs=90.5

Q ss_pred             CCChhHHHHHHHHHhc------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC----c-C
Q 038724            1 IENPKQFYQVWRFLVK------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE----L-K   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~----~-~   63 (483)
                      +|.++.++.|.+++..            ...+-|.|+|++|+|||++|+++++..   ...   .+.+..+.-    . .
T Consensus        54 ~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~---~~~v~~~~l~~~~~g~  127 (355)
T 2qp9_X           54 AGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSSDLVSKWMGE  127 (355)
T ss_dssp             CCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCE---EEEEEHHHHHSCC---
T ss_pred             CCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCC---EEEeeHHHHhhhhcch
Confidence            5788888888887731            123468999999999999999999977   222   223332210    0 0


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc-------------cccccCC---CCCCCCCCEEEEecCChhhh-------
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID-------------LSKIGVP---LPSQKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~-------------~~~l~~~---~~~~~~gs~ilvTtR~~~~~-------  117 (483)
                      .......+   ....++.+|+||+++....             ...+...   +.....+..||.||......       
T Consensus       128 ~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~rR  207 (355)
T 2qp9_X          128 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRR  207 (355)
T ss_dssp             CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHcc
Confidence            11112222   3446789999999975421             1111111   11112345556566544221       


Q ss_pred             ------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCC-chHHHHHHH
Q 038724          118 ------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGG-LPLALTIVG  167 (483)
Q Consensus       118 ------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plal~~~~  167 (483)
                            +...+.++-.+++.........   .-.....+.|++.+.| .+-.|..+.
T Consensus       208 f~~~i~i~~P~~~~r~~il~~~l~~~~~---~~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          208 FERRIYIPLPDLAARTTMFEINVGDTPS---VLTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             CCEEEECCCCCHHHHHHHHHHHHTTSCB---CCCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             cCEEEEeCCcCHHHHHHHHHHHHhhCCC---CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence                  6667788888888877754331   1124456788888887 444555444

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.29  E-value=5.6e-07  Score=74.13  Aligned_cols=109  Identities=13%  Similarity=0.036  Sum_probs=64.1

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcE
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKF   78 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~   78 (483)
                      ||+...+.++.+.+..  .....|.|+|++|+|||++|+++++........|   + +..+...+.......+... ...
T Consensus         4 iG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~---v-~~~~~~~~~~~~~~~~~~a-~~g   78 (145)
T 3n70_A            4 IGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEF---V-YRELTPDNAPQLNDFIALA-QGG   78 (145)
T ss_dssp             CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCC---E-EEECCTTTSSCHHHHHHHH-TTS
T ss_pred             eeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCE---E-EECCCCCcchhhhcHHHHc-CCc
Confidence            6889999999888753  2334688999999999999999998652222222   2 5544433322222222222 335


Q ss_pred             EEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCCh
Q 038724           79 LLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSE  114 (483)
Q Consensus        79 LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~  114 (483)
                      .|+||+++....  ...+...+.......++|+||...
T Consensus        79 ~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~  116 (145)
T 3n70_A           79 TLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTS  116 (145)
T ss_dssp             CEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSC
T ss_pred             EEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcC
Confidence            689999975532  222222222222345677666543

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

Probab=98.24  E-value=3.9e-07  Score=87.08  Aligned_cols=140  Identities=17%  Similarity=0.127  Sum_probs=88.1

Q ss_pred             cccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhh--cCCCccEEEccCC--ccCcc-----CCc
Q 038724          290 SDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQ--FMPCLKVLNLSYN--RFLTK-----LPS  360 (483)
Q Consensus       290 ~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~--~l~~L~~L~l~~n--~~~~~-----~p~  360 (483)
                      .....+++|+.|++.+|.-..+++ ..+++|+.|++..+.+.......+.  .+++|+.|+|+.+  ...+.     +..
T Consensus       166 ~ll~~~P~L~~L~L~g~~~l~l~~-~~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~  244 (362)
T 2ra8_A          166 PVLDAMPLLNNLKIKGTNNLSIGK-KPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP  244 (362)
T ss_dssp             HHHHTCTTCCEEEEECCBTCBCCS-CBCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGG
T ss_pred             HHHhcCCCCcEEEEeCCCCceecc-ccCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHH
Confidence            444566789999998874223333 2478899999988876543322233  6889999988632  11111     111


Q ss_pred             cc--ccCcCCCEEeccCCCCCc-cCccc---cCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeecc
Q 038724          361 GI--SKLVSLQHLDISFTSTLE-LPEEL---KALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSC  434 (483)
Q Consensus       361 ~~--~~l~~L~~L~l~~~~i~~-lp~~~---~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~  434 (483)
                      .+  ..+++|++|++++|.+.. .+..+   ..+++|++|+|+.|.+...       .....+..+..+++|+.|++++|
T Consensus       245 ~l~~~~~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          245 LFSKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDE-------GARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             GSCTTTCTTCCEEEEESCTTHHHHHHHHHHCSSGGGCSEEECCSSCCBHH-------HHHHHHTTHHHHTTCSEEECCSB
T ss_pred             HHhcCCCCCcCEEeCCCCCCchHHHHHHHhCccCCCCCEEECCCCCCChH-------HHHHHHhhcccCCcceEEECCCC
Confidence            22  247889999998888653 12222   3578899999998875421       00123445567889999999988


Q ss_pred             Ccc
Q 038724          435 SLC  437 (483)
Q Consensus       435 ~l~  437 (483)
                      .+.
T Consensus       318 ~i~  320 (362)
T 2ra8_A          318 YLS  320 (362)
T ss_dssp             BCC
T ss_pred             cCC
Confidence            763

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

Probab=98.21  E-value=1.1e-06  Score=75.74  Aligned_cols=114  Identities=13%  Similarity=0.020  Sum_probs=59.5

Q ss_pred             CCCcccEEEecCC-cccccc----chhhhcCCCccEEEccCCccCcc----CCcccccCcCCCEEeccCCCCCc-----c
Q 038724          316 SCPHLLTLFLNDN-YLQDIK----NGFFQFMPCLKVLNLSYNRFLTK----LPSGISKLVSLQHLDISFTSTLE-----L  381 (483)
Q Consensus       316 ~~~~L~~L~l~~n-~~~~~~----~~~~~~l~~L~~L~l~~n~~~~~----~p~~~~~l~~L~~L~l~~~~i~~-----l  381 (483)
                      ..++|++|+|++| .+....    ...+...++|++|+|++|.+...    +...+...++|++|+|++|.|+.     +
T Consensus        34 ~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~l  113 (185)
T 1io0_A           34 NDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILAL  113 (185)
T ss_dssp             TCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHH
T ss_pred             cCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHHH
Confidence            3455666666665 544311    11234455666666666653221    22334444566677777666654     3


Q ss_pred             CccccCCcCCCEEec--CCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc
Q 038724          382 PEELKALEKLKYLDM--DDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       382 p~~~~~l~~L~~L~l--~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                      ...+...++|++|+|  ++|.+...       ......+.+...++|+.|++++|.+
T Consensus       114 ~~~L~~n~~L~~L~L~~~~N~i~~~-------g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          114 VEALQSNTSLIELRIDNQSQPLGNN-------VEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHGGGGCSSCCEEECCCCSSCCCHH-------HHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHhCCCceEEEecCCCCCCCHH-------HHHHHHHHHHhCCCcCEEeccCCCC
Confidence            444555666777777  55654311       0011233444556677777766665

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=98.19  E-value=9e-07  Score=80.26  Aligned_cols=63  Identities=30%  Similarity=0.329  Sum_probs=39.6

Q ss_pred             hcCCCccEEEccCCccCc--cCCcccccCcCCCEEeccCCCCCccCccccCCc--CCCEEecCCCCCc
Q 038724          339 QFMPCLKVLNLSYNRFLT--KLPSGISKLVSLQHLDISFTSTLELPEELKALE--KLKYLDMDDHQQV  402 (483)
Q Consensus       339 ~~l~~L~~L~l~~n~~~~--~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~--~L~~L~l~~n~~~  402 (483)
                      ..+++|+.|+|++|++.+  .+|..+..+++|++|+|++|.+..+. .+..++  +|+.|+|++|.+.
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~-~l~~l~~l~L~~L~L~~Npl~  233 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLEELWLDGNSLC  233 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGG-GGGGGTTSCCSEEECTTSTTG
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCch-hhhhcccCCcceEEccCCcCc
Confidence            456667777777776444  34455566777777777777766652 344444  7777777777754

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.19  E-value=4.3e-06  Score=77.80  Aligned_cols=132  Identities=13%  Similarity=0.031  Sum_probs=83.6

Q ss_pred             CChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCC-CCCCEEEEEEeCC-CcCc---cchhHHh---hh
Q 038724            2 ENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSER-PGFDVVIWVVVSK-ELKL---ETSQDDM---IL   73 (483)
Q Consensus         2 gr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~-~~f~~~~~v~~~~-~~~~---~~~~~~i---~l   73 (483)
                      |-++.++.+.+.+.++..+.+.++|++|+|||++|..+++....-. .+.+. .++..++ ....   +++....   ..
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~ir~li~~~~~~p~   79 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDIRTIKDFLNYSPE   79 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHHHHHHHHHTSCCS
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHHHHHHHHHHhhccc
Confidence            4577888999999887778999999999999999999987521111 23443 4455443 3433   3333333   23


Q ss_pred             cCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh----------hccCChHHHHHHHHHHh
Q 038724           74 STKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC----------VDCFTPQESWQVFQMKV  134 (483)
Q Consensus        74 ~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~----------l~~L~~~~a~~l~~~~~  134 (483)
                      .+++-++|+|+++...  ..+.+...+....+.+.+|++|.+..-.          +.++++++..+.+....
T Consensus        80 ~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           80 LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCHHHHHHHHHHH
T ss_pred             cCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHceeEeCCCCCHHHHHHHHHHHh
Confidence            4667899999997653  3444544443334456666665433211          77888888888877665

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

Probab=98.14  E-value=2.2e-06  Score=81.84  Aligned_cols=135  Identities=17%  Similarity=0.148  Sum_probs=89.3

Q ss_pred             CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccc--cCcCCCEEeccCC--C------CCccCcc
Q 038724          315 PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS--KLVSLQHLDISFT--S------TLELPEE  384 (483)
Q Consensus       315 ~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~--~l~~L~~L~l~~~--~------i~~lp~~  384 (483)
                      ..+++|+.|.+++|.-..+++  + .+++|+.|++..|.+.......+.  .+++|++|+|+.+  .      +..+...
T Consensus       169 ~~~P~L~~L~L~g~~~l~l~~--~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~  245 (362)
T 2ra8_A          169 DAMPLLNNLKIKGTNNLSIGK--K-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPL  245 (362)
T ss_dssp             HTCTTCCEEEEECCBTCBCCS--C-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGG
T ss_pred             hcCCCCcEEEEeCCCCceecc--c-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHHH
Confidence            457899999999883223333  3 378999999998864333223343  6899999998632  1      2222222


Q ss_pred             c--cCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---------cCCCCCcccccceee
Q 038724          385 L--KALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---------LCGLPTVQCLTSRRL  453 (483)
Q Consensus       385 ~--~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---------l~~l~~l~~l~l~~~  453 (483)
                      +  ..+++|++|++++|.+...        ..........+++|++|+++.|.+..         +..+++|+.|+++.|
T Consensus       246 l~~~~~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          246 FSKDRFPNLKWLGIVDAEEQNV--------VVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYN  317 (362)
T ss_dssp             SCTTTCTTCCEEEEESCTTHHH--------HHHHHHHCSSGGGCSEEECCSSCCBHHHHHHHHTTHHHHTTCSEEECCSB
T ss_pred             HhcCCCCCcCEEeCCCCCCchH--------HHHHHHhCccCCCCCEEECCCCCCChHHHHHHHhhcccCCcceEEECCCC
Confidence            2  3579999999999885411        00112222468999999999998743         244688999999888


Q ss_pred             eeeeeec
Q 038724          454 NLEVEDW  460 (483)
Q Consensus       454 ~~~~~~~  460 (483)
                      .++....
T Consensus       318 ~i~d~~~  324 (362)
T 2ra8_A          318 YLSDEMK  324 (362)
T ss_dssp             BCCHHHH
T ss_pred             cCCHHHH
Confidence            7774433

>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=98.12  E-value=1.2e-05  Score=74.83  Aligned_cols=152  Identities=13%  Similarity=0.125  Sum_probs=84.6

Q ss_pred             CCChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC------
Q 038724            1 IENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE------   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~------   61 (483)
                      +|.++.+++|.+++..             ...+.|.|+|++|+|||++|+++++..   ...   .+.+..+.-      
T Consensus        18 ~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~---~i~v~~~~l~~~~~g   91 (301)
T 3cf0_A           18 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN---FISIKGPELLTMWFG   91 (301)
T ss_dssp             CSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCE---EEEECHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCC---EEEEEhHHHHhhhcC
Confidence            5778888888877652             234679999999999999999999876   221   223321110      


Q ss_pred             cCccchhHHh--hhcCCcEEEEEcCCCCccc----------------cccccCCCC--CCCCCCEEEEecCChhhh----
Q 038724           62 LKLETSQDDM--ILSTKKFLLLLDDLWETID----------------LSKIGVPLP--SQKIVSKVVFTTHSEEVC----  117 (483)
Q Consensus        62 ~~~~~~~~~i--~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtR~~~~~----  117 (483)
                      .....+..-+  .....+.++++|+++....                ...+...+.  ....+..||.||......    
T Consensus        92 ~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~al  171 (301)
T 3cf0_A           92 ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAI  171 (301)
T ss_dssp             TCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCGGG
T ss_pred             chHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccChHH
Confidence            0001111111  3345689999999973210                111111111  112345666666544221    


Q ss_pred             -----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHH
Q 038724          118 -----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLA  162 (483)
Q Consensus       118 -----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  162 (483)
                                 +...+.++-.+++...........    ....+.+++.+.|.|-+
T Consensus       172 ~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~----~~~~~~la~~~~g~sg~  223 (301)
T 3cf0_A          172 LRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAK----DVDLEFLAKMTNGFSGA  223 (301)
T ss_dssp             GSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCS----SCCHHHHHHTCSSCCHH
T ss_pred             hcCCccceEEecCCcCHHHHHHHHHHHHccCCCCc----cchHHHHHHHcCCCCHH
Confidence                       566777777788877764433111    11245666677777644

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.11  E-value=3.3e-06  Score=90.37  Aligned_cols=132  Identities=20%  Similarity=0.303  Sum_probs=76.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCC--CC--CCEEEEEEeCCCc-------C----cc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSER--PG--FDVVIWVVVSKEL-------K----LE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~--f~~~~~v~~~~~~-------~----~~   65 (483)
                      |||++++.++.+.+.....+.+.++|++|+|||++|+.+++......  ..  -..+++++.+.-.       .    +.
T Consensus       173 iGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~~~~~l~  252 (854)
T 1qvr_A          173 IGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLK  252 (854)
T ss_dssp             CSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchHHHHHHH
Confidence            79999999999999887667789999999999999999998762111  11  1223444332211       0    12


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCccc-------c---ccccCCCCCCCCCCEEEE-ecCChh--hh-------------hc
Q 038724           66 TSQDDMILSTKKFLLLLDDLWETID-------L---SKIGVPLPSQKIVSKVVF-TTHSEE--VC-------------VD  119 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~~~-------~---~~l~~~~~~~~~gs~ilv-TtR~~~--~~-------------l~  119 (483)
                      .+...+...+++.+|+||+++....       +   ..+...+ ..+ +..+|. ||....  +.             ++
T Consensus       253 ~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l-~~~-~i~~I~at~~~~~~~~~~d~aL~rRf~~i~l~  330 (854)
T 1qvr_A          253 AVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL-ARG-ELRLIGATTLDEYREIEKDPALERRFQPVYVD  330 (854)
T ss_dssp             HHHHHHHTTCSSEEEEECCC-------------------HHHH-HTT-CCCEEEEECHHHHHHHTTCTTTCSCCCCEEEC
T ss_pred             HHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHH-hCC-CeEEEEecCchHHhhhccCHHHHhCCceEEeC
Confidence            2222223345789999999975421       1   1111111 112 233444 443322  11             78


Q ss_pred             cCChHHHHHHHHHHh
Q 038724          120 CFTPQESWQVFQMKV  134 (483)
Q Consensus       120 ~L~~~~a~~l~~~~~  134 (483)
                      +++.++..+++....
T Consensus       331 ~p~~~e~~~iL~~~~  345 (854)
T 1qvr_A          331 EPTVEETISILRGLK  345 (854)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhhh
Confidence            889999999887543

>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=98.09  E-value=4.4e-06  Score=76.54  Aligned_cols=43  Identities=23%  Similarity=0.154  Sum_probs=32.9

Q ss_pred             CCChhHHHHHHHHHhc------------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK------------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.++.++++.+.+..            ...+-+.|+|++|+|||++|+++++..
T Consensus        14 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           14 AGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             SSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            5777777777766541            123347899999999999999999876

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.06  E-value=3.4e-05  Score=76.51  Aligned_cols=130  Identities=22%  Similarity=0.228  Sum_probs=74.5

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCC--CCC-C-EEEEEEeCC----C--cCccchhHH
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSER--PGF-D-VVIWVVVSK----E--LKLETSQDD   70 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~f-~-~~~~v~~~~----~--~~~~~~~~~   70 (483)
                      |||+++++++.+.+......-+.|+|++|+|||++|+.+++......  ... . ..+.++.+.    .  .....+...
T Consensus       183 iGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~g~~e~~~~~~~~~  262 (468)
T 3pxg_A          183 IGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKKVMDE  262 (468)
T ss_dssp             CCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTTHHHHHHH
T ss_pred             cCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCccccchHHHHHHHHHHH
Confidence            79999999999999876666788999999999999999998752110  000 1 122223221    1  112233333


Q ss_pred             hhhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhh----h-------------hccCChHHHHHHHHHH
Q 038724           71 MILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEV----C-------------VDCFTPQESWQVFQMK  133 (483)
Q Consensus        71 i~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~----~-------------l~~L~~~~a~~l~~~~  133 (483)
                      + ...++.++++|  ...+....+...+. .+ ..++|.+|.....    .             +++.+.++..+++...
T Consensus       263 ~-~~~~~~iLfiD--~~~~a~~~L~~~L~-~g-~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~p~~e~~~~iL~~~  337 (468)
T 3pxg_A          263 I-RQAGNIILFID--AAIDASNILKPSLA-RG-ELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQILQGL  337 (468)
T ss_dssp             H-HTCCCCEEEEC--C--------CCCTT-SS-SCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHHHHHHT
T ss_pred             H-HhcCCeEEEEe--CchhHHHHHHHhhc-CC-CEEEEecCCHHHHHHHhhcCHHHHHhCccceeCCCCHHHHHHHHHHH
Confidence            2 23567888999  22222233333332 22 3455555443331    1             7788899999998876


Q ss_pred             hc
Q 038724          134 VG  135 (483)
Q Consensus       134 ~~  135 (483)
                      ..
T Consensus       338 ~~  339 (468)
T 3pxg_A          338 RD  339 (468)
T ss_dssp             TT
T ss_pred             HH
Confidence            53

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=98.04  E-value=2.3e-05  Score=76.15  Aligned_cols=77  Identities=12%  Similarity=0.174  Sum_probs=37.3

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEE
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYL  394 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L  394 (483)
                      .|++|+.++++.|.++.++...|. ..+|+.+.+..+ +...-...|..+.+|+.+++..+ +..++.. |.+ .+|+.+
T Consensus       178 ~c~~L~~l~l~~n~l~~I~~~aF~-~~~L~~l~lp~~-l~~I~~~aF~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i  253 (401)
T 4fdw_A          178 YCYNLKKADLSKTKITKLPASTFV-YAGIEEVLLPVT-LKEIGSQAFLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTV  253 (401)
T ss_dssp             TCTTCCEEECTTSCCSEECTTTTT-TCCCSEEECCTT-CCEECTTTTTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEE
T ss_pred             CcccCCeeecCCCcceEechhhEe-ecccCEEEeCCc-hheehhhHhhCCCCCCEEecCCC-ccCcccccccc-CCccEE
Confidence            345555555555555555555444 345555555533 22223334555555555555442 4444443 333 455555


Q ss_pred             ec
Q 038724          395 DM  396 (483)
Q Consensus       395 ~l  396 (483)
                      .+
T Consensus       254 ~l  255 (401)
T 4fdw_A          254 KL  255 (401)
T ss_dssp             EE
T ss_pred             Ee
Confidence            55

>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=98.03  E-value=4.7e-06  Score=78.72  Aligned_cols=147  Identities=14%  Similarity=0.127  Sum_probs=83.5

Q ss_pred             HHHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------hhcC
Q 038724            7 FYQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------ILST   75 (483)
Q Consensus         7 ~~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------~l~~   75 (483)
                      ...+.+.+...  ....+.|+|++|+||||||+++++.....  . ..+++++...-  ...+...+         ....
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~-~~~~~i~~~~~--~~~~~~~~~~~~~~~~~~~~~   97 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--G-YRVIYSSADDF--AQAMVEHLKKGTINEFRNMYK   97 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--T-CCEEEEEHHHH--HHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--C-CEEEEEEHHHH--HHHHHHHHHcCcHHHHHHHhc
Confidence            44555555543  34679999999999999999999876211  1 22455554321  11111111         1112


Q ss_pred             CcEEEEEcCCCCccc----cccccCCCCC-CCCCCEEEEecCChhhh-------------------hccCChHHHHHHHH
Q 038724           76 KKFLLLLDDLWETID----LSKIGVPLPS-QKIVSKVVFTTHSEEVC-------------------VDCFTPQESWQVFQ  131 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~----~~~l~~~~~~-~~~gs~ilvTtR~~~~~-------------------l~~L~~~~a~~l~~  131 (483)
                      +..+|+|||++....    ...+...+.. ...+..+++||......                   +.+ +.++..+++.
T Consensus        98 ~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~  176 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIK  176 (324)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHH
T ss_pred             CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHH
Confidence            367999999965431    1122111110 12356788877543221                   667 8888888888


Q ss_pred             HHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          132 MKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      ..+....   ..-..+..+.+++.+ |....+
T Consensus       177 ~~~~~~~---~~l~~~~l~~l~~~~-g~~r~l  204 (324)
T 1l8q_A          177 EKLKEFN---LELRKEVIDYLLENT-KNVREI  204 (324)
T ss_dssp             HHHHHTT---CCCCHHHHHHHHHHC-SSHHHH
T ss_pred             HHHHhcC---CCCCHHHHHHHHHhC-CCHHHH
Confidence            7764322   122245677888888 776543

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.03  E-value=3.7e-06  Score=70.72  Aligned_cols=36  Identities=8%  Similarity=0.090  Sum_probs=21.8

Q ss_pred             CcccEEEecCCccccccchhhhcCCCccEEEccCCc
Q 038724          318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNR  353 (483)
Q Consensus       318 ~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~  353 (483)
                      .+|+.||++++.++...-..+..+++|+.|+|++|.
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~   96 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCH   96 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCT
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCC
Confidence            457777777776554433335566666666666664

>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=98.03  E-value=7.5e-05  Score=70.62  Aligned_cols=157  Identities=17%  Similarity=0.105  Sum_probs=87.0

Q ss_pred             CCChhHHHHHHHHHhcC-----CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            1 IENPKQFYQVWRFLVKK-----DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~-----~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      +|.+..++.+...+..+     ....++|+|++|+||||||+.++...   ...|.   ..+..-.....++...+....
T Consensus        28 ~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l---~~~~~---~~sg~~~~~~~~l~~~~~~~~  101 (334)
T 1in4_A           28 IGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTNIH---VTSGPVLVKQGDMAAILTSLE  101 (334)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCCEE---EEETTTCCSHHHHHHHHHHCC
T ss_pred             cCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEE---EEechHhcCHHHHHHHHHHcc
Confidence            46777777777666532     34679999999999999999999976   22211   111111111112211111123


Q ss_pred             CcEEEEEcCCCCcc--ccccccCCCCCC--------C----------CCCEEE-EecCChhhh------------hccCC
Q 038724           76 KKFLLLLDDLWETI--DLSKIGVPLPSQ--------K----------IVSKVV-FTTHSEEVC------------VDCFT  122 (483)
Q Consensus        76 ~~~LlvlDdv~~~~--~~~~l~~~~~~~--------~----------~gs~il-vTtR~~~~~------------l~~L~  122 (483)
                      ++.++++|+++...  ..+.+...+...        +          ....++ .|++...+.            +++.+
T Consensus       102 ~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~sR~~l~~~Ld~~~  181 (334)
T 1in4_A          102 RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYT  181 (334)
T ss_dssp             TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCC
T ss_pred             CCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcccCCHHHHHhcCceeeCCCCC
Confidence            45677889886432  111111000000        0          011222 344433221            88899


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHH
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~  166 (483)
                      .++-.+++.+.+....   ..-..+.+..|++.++|.|..+.-+
T Consensus       182 ~~~l~~iL~~~~~~~~---~~~~~~~~~~ia~~~~G~~R~a~~l  222 (334)
T 1in4_A          182 VKELKEIIKRAASLMD---VEIEDAAAEMIAKRSRGTPRIAIRL  222 (334)
T ss_dssp             HHHHHHHHHHHHHHTT---CCBCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcC---CCcCHHHHHHHHHhcCCChHHHHHH
Confidence            9999999987663222   1223566889999999999765443

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

Probab=98.02  E-value=1.8e-06  Score=74.34  Aligned_cols=109  Identities=17%  Similarity=0.069  Sum_probs=82.4

Q ss_pred             ccccceEEEEcccc-cccccc------CCCCCCcccEEEecCCcccccc----chhhhcCCCccEEEccCCccCcc----
Q 038724          293 LKWLGLRRMSLMNN-QIKTLL------NTPSCPHLLTLFLNDNYLQDIK----NGFFQFMPCLKVLNLSYNRFLTK----  357 (483)
Q Consensus       293 ~~~~~l~~l~l~~~-~~~~~~------~~~~~~~L~~L~l~~n~~~~~~----~~~~~~l~~L~~L~l~~n~~~~~----  357 (483)
                      ...+.++.|++++| .+....      .....++|++|+|++|.+....    ...+...++|++|+|++|.+...    
T Consensus        33 ~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g~~~  112 (185)
T 1io0_A           33 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA  112 (185)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             hcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcCCHHHHHH
Confidence            34577999999999 876421      1145689999999999886532    23355668899999999975432    


Q ss_pred             CCcccccCcCCCEEec--cCCCCCc-----cCccccCCcCCCEEecCCCCC
Q 038724          358 LPSGISKLVSLQHLDI--SFTSTLE-----LPEELKALEKLKYLDMDDHQQ  401 (483)
Q Consensus       358 ~p~~~~~l~~L~~L~l--~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~  401 (483)
                      +...+...++|++|++  ++|.++.     +...+...++|++|+|++|.+
T Consensus       113 l~~~L~~n~~L~~L~L~~~~N~i~~~g~~~l~~~L~~n~~L~~L~L~~n~i  163 (185)
T 1io0_A          113 LVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFTQQ  163 (185)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCSSH
T ss_pred             HHHHHHhCCCceEEEecCCCCCCCHHHHHHHHHHHHhCCCcCEEeccCCCC
Confidence            4556777889999999  8898876     444566778999999999984

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.98  E-value=1.1e-06  Score=72.25  Aligned_cols=104  Identities=12%  Similarity=0.061  Sum_probs=58.9

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcE
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKF   78 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~   78 (483)
                      ||++..++++.+.+..  .....|.|+|++|+|||++|+++++..   .    ..+.++.+.-.  ......+....+.-
T Consensus         7 iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~---~----~~~~~~~~~~~--~~~~~~~~~~a~~~   77 (143)
T 3co5_A            7 LGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG---T----PWVSPARVEYL--IDMPMELLQKAEGG   77 (143)
T ss_dssp             -CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT---S----CEECCSSTTHH--HHCHHHHHHHTTTS
T ss_pred             eeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC---C----CeEEechhhCC--hHhhhhHHHhCCCC
Confidence            6888888888888764  233468899999999999999998765   1    22222222111  11122221222345


Q ss_pred             EEEEcCCCCccc--cccccCCCCCC-CCCCEEEEecCC
Q 038724           79 LLLLDDLWETID--LSKIGVPLPSQ-KIVSKVVFTTHS  113 (483)
Q Consensus        79 LlvlDdv~~~~~--~~~l~~~~~~~-~~gs~ilvTtR~  113 (483)
                      .++||+++....  ...+...+... ....++|+||..
T Consensus        78 ~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~  115 (143)
T 3co5_A           78 VLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSY  115 (143)
T ss_dssp             EEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEE
T ss_pred             eEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCC
Confidence            788999976532  22222222111 234677777654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.98  E-value=0.00011  Score=70.03  Aligned_cols=149  Identities=13%  Similarity=0.138  Sum_probs=86.4

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      |-++..++|.+.+.-             ...+=|.++|++|.|||.+|+++++..   ...|   +.+..+.-..     
T Consensus       152 Gl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f---~~v~~s~l~sk~vGe  225 (405)
T 4b4t_J          152 GLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT---DCKF---IRVSGAELVQKYIGE  225 (405)
T ss_dssp             SCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCEE---EEEEGGGGSCSSTTH
T ss_pred             CHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCCc---eEEEhHHhhccccch
Confidence            667777777766642             234668999999999999999999987   2222   3344332211     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc----------------cccccCCCC--CCCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID----------------LSKIGVPLP--SQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtR~~~~~-----  117 (483)
                      .....+++   +-...+++|++|+++....                +..+...+.  ....+..||.||-.....     
T Consensus       226 se~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAll  305 (405)
T 4b4t_J          226 GSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALL  305 (405)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHc
Confidence            11112222   5567899999999975411                111111111  122334455566444332     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.++|..+..........    ..+.+++.+.|.-
T Consensus       306 RpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dv----dl~~lA~~t~G~S  354 (405)
T 4b4t_J          306 RPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGI----NLRKVAEKMNGCS  354 (405)
T ss_dssp             STTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSC----CHHHHHHHCCSCC
T ss_pred             CCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccC----CHHHHHHHCCCCC
Confidence                      55667778888888776544321111    2577888887754

>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=97.96  E-value=2.1e-05  Score=73.57  Aligned_cols=43  Identities=26%  Similarity=0.209  Sum_probs=36.1

Q ss_pred             CCChhHHHHHHHHHhc--------------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--------------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--------------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+++.++.+...+..              .....+.|+|++|+|||++|+++++..
T Consensus        18 ~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           18 IGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            6888888888887754              234578899999999999999999876

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.95  E-value=0.00017  Score=69.85  Aligned_cols=149  Identities=13%  Similarity=0.165  Sum_probs=86.9

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      |-++..++|.+.+.-             ..++=|.++|++|.|||.+|+++++..   ...   .+.+..+.-.+     
T Consensus       185 Gl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~---~~~---~~~v~~s~l~sk~~Ge  258 (437)
T 4b4t_L          185 GLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI---GAN---FIFSPASGIVDKYIGE  258 (437)
T ss_dssp             SCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGTCCSSSSH
T ss_pred             ChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehhhhccccchH
Confidence            667777777766642             235679999999999999999999987   222   23344332221     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc----------------cccccCCCC--CCCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID----------------LSKIGVPLP--SQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtR~~~~~-----  117 (483)
                      .......+   +-...+++|++|+++....                +..++..+.  ....+..||.||-.....     
T Consensus       259 se~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAll  338 (437)
T 4b4t_L          259 SARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALL  338 (437)
T ss_dssp             HHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTT
T ss_pred             HHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHh
Confidence            11111222   5567899999999974311                011111111  122345666666544332     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.++|..+..........    ..+.+++.+.|+-
T Consensus       339 RpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~----dl~~lA~~t~G~s  387 (437)
T 4b4t_L          339 RPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEF----DFEAAVKMSDGFN  387 (437)
T ss_dssp             STTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCC----CHHHHHHTCCSCC
T ss_pred             CCCccceeeecCCcCHHHHHHHHHHHhcCCCCCccc----CHHHHHHhCCCCC
Confidence                      55567777788888776543321111    2567788887754

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.95  E-value=9.8e-06  Score=73.44  Aligned_cols=33  Identities=15%  Similarity=0.092  Sum_probs=22.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      -|.|-+.....|+.|...+.+.-   ...|..+.|-
T Consensus        26 kv~I~~g~ky~k~~ll~~i~~~~---~~~f~p~~~~   58 (267)
T 3rw6_A           26 KITIPYGRKYDKAWLLSMIQSKC---SVPFTPIEFH   58 (267)
T ss_dssp             EEEETTGGGSCHHHHHHHHHHTC---SSCCCCEEEE
T ss_pred             EEEecCccccCHHHHHHHHHHhC---CCCcEeEEEE
Confidence            45666766788999998886644   4566665554

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.92  E-value=7.8e-05  Score=78.80  Aligned_cols=131  Identities=21%  Similarity=0.204  Sum_probs=76.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCC---CCE-EEEEEeCCC------cCccchhHH
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPG---FDV-VIWVVVSKE------LKLETSQDD   70 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~---f~~-~~~v~~~~~------~~~~~~~~~   70 (483)
                      |||+++++++.+.+......-+.++|++|+|||++|+.+++........   ... .+.++.+..      ..+..+...
T Consensus       183 iG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~~e~~l~~~~~~  262 (758)
T 3pxi_A          183 IGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKKVMDE  262 (758)
T ss_dssp             CCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTTHHHHHHH
T ss_pred             cCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccchHHHHHHHHHHH
Confidence            7999999999999987766678999999999999999999875211100   011 111222111      112233333


Q ss_pred             hhhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhh----h-------------hccCChHHHHHHHHHH
Q 038724           71 MILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEV----C-------------VDCFTPQESWQVFQMK  133 (483)
Q Consensus        71 i~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~----~-------------l~~L~~~~a~~l~~~~  133 (483)
                      + ...++.+|++|  ...+....+...+. . ...++|.||.....    .             ++..+.++..+++...
T Consensus       263 ~-~~~~~~iLfiD--~~~~~~~~L~~~l~-~-~~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~  337 (758)
T 3pxi_A          263 I-RQAGNIILFID--AAIDASNILKPSLA-R-GELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQILQGL  337 (758)
T ss_dssp             H-HTCCCCEEEEC--C--------CCCTT-S-SSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHHHHHHT
T ss_pred             H-HhcCCEEEEEc--CchhHHHHHHHHHh-c-CCEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHH
Confidence            2 33677899999  22222333333332 2 23556655544431    1             7788999999999866


Q ss_pred             hcC
Q 038724          134 VGN  136 (483)
Q Consensus       134 ~~~  136 (483)
                      ...
T Consensus       338 ~~~  340 (758)
T 3pxi_A          338 RDR  340 (758)
T ss_dssp             TTT
T ss_pred             HHH
Confidence            543

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.90  E-value=0.00021  Score=68.46  Aligned_cols=149  Identities=14%  Similarity=0.129  Sum_probs=84.4

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      |-++..++|.+.+.-             ...+=|.++|++|.|||.+|+++++..   ...|   +.+..+.-..     
T Consensus       186 Gld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~f---i~v~~s~l~sk~vGe  259 (437)
T 4b4t_I          186 GLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT---SATF---LRIVGSELIQKYLGD  259 (437)
T ss_dssp             SCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH---TCEE---EEEESGGGCCSSSSH
T ss_pred             cHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh---CCCE---EEEEHHHhhhccCch
Confidence            567777777766532             234679999999999999999999987   2222   2333222111     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc----------------cccccCCCC--CCCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID----------------LSKIGVPLP--SQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtR~~~~~-----  117 (483)
                      .....+.+   +-...+++|++|+++....                +..+...+.  ....+..||.||-.....     
T Consensus       260 sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALl  339 (437)
T 4b4t_I          260 GPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALI  339 (437)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSS
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHh
Confidence            11122222   5567899999999974311                001111111  112234555566444332     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.++|..+..........    ..+.+++.+.|.-
T Consensus       340 RpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dv----dl~~LA~~T~GfS  388 (437)
T 4b4t_I          340 RPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV----NLETLVTTKDDLS  388 (437)
T ss_dssp             CTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCC----CHHHHHHHCCSCC
T ss_pred             cCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcC----CHHHHHHhCCCCC
Confidence                      55567777788888777544322111    2567777877754

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.89  E-value=5e-05  Score=68.93  Aligned_cols=80  Identities=16%  Similarity=0.158  Sum_probs=47.3

Q ss_pred             CCChhHHHHHHHHHh---c---------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            1 IENPKQFYQVWRFLV---K---------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~---~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      +|.++.++++.+.+.   .         ...+-+.|+|++|+||||+|+++++..   ...|   +.+..+.-..     
T Consensus        15 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~---~~i~~~~~~~~~~~~   88 (257)
T 1lv7_A           15 AGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGSDFVEMFVGV   88 (257)
T ss_dssp             CSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCE---EEECSCSSTTSCCCC
T ss_pred             cCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc---CCCE---EEEeHHHHHHHhhhh
Confidence            466777666655442   1         123458899999999999999999876   2222   3333221111     


Q ss_pred             -ccchhHHh--hhcCCcEEEEEcCCC
Q 038724           64 -LETSQDDM--ILSTKKFLLLLDDLW   86 (483)
Q Consensus        64 -~~~~~~~i--~l~~~~~LlvlDdv~   86 (483)
                       ...+...+  .....+.++++|+++
T Consensus        89 ~~~~~~~~~~~a~~~~~~il~iDeid  114 (257)
T 1lv7_A           89 GASRVRDMFEQAKKAAPCIIFIDEID  114 (257)
T ss_dssp             CHHHHHHHHHHHHTTCSEEEEETTHH
T ss_pred             hHHHHHHHHHHHHHcCCeeehhhhhh
Confidence             01111111  334567899999984

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.85  E-value=0.00028  Score=68.31  Aligned_cols=149  Identities=15%  Similarity=0.169  Sum_probs=84.9

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      |-++..++|.+.+.-             ...+=|.++|++|.|||.+|+++++..   ...   .+.+..+.-.+     
T Consensus       213 Gl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~---~~~---fi~vs~s~L~sk~vGe  286 (467)
T 4b4t_H          213 GCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT---DAT---FIRVIGSELVQKYVGE  286 (467)
T ss_dssp             TCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGGCCCSSSH
T ss_pred             cHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CCC---eEEEEhHHhhcccCCH
Confidence            667777777765531             245679999999999999999999987   222   23343332111     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc----------------cccccCCCC--CCCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID----------------LSKIGVPLP--SQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtR~~~~~-----  117 (483)
                      .....+.+   +-...+++|++|+++....                ...+...+.  ....+..||.||-.....     
T Consensus       287 sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALl  366 (467)
T 4b4t_H          287 GARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALL  366 (467)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHH
T ss_pred             HHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhh
Confidence            11112222   5567899999999974411                001111111  112233455566433322     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.++|..+.........-    ..+.+++.+.|.-
T Consensus       367 RpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dv----dl~~LA~~T~GfS  415 (467)
T 4b4t_H          367 RPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGI----RWELISRLCPNST  415 (467)
T ss_dssp             STTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSC----CHHHHHHHCCSCC
T ss_pred             ccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCC----CHHHHHHHCCCCC
Confidence                      55667777888888776544321111    2567788887754

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.81  E-value=2e-05  Score=73.76  Aligned_cols=43  Identities=21%  Similarity=0.366  Sum_probs=36.0

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.+..++.+...+...         ....+.|+|++|+|||++|+.+++..
T Consensus        20 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           20 VGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHH
Confidence            58888888888888653         13589999999999999999999876

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.80  E-value=2.2e-05  Score=68.48  Aligned_cols=52  Identities=29%  Similarity=0.288  Sum_probs=35.9

Q ss_pred             hHHHHHHHHHhcC----CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC
Q 038724            5 KQFYQVWRFLVKK----DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS   59 (483)
Q Consensus         5 ~~~~~l~~~l~~~----~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~   59 (483)
                      +.++.+.+++...    ..+.+.|+|++|+|||+||+++++...   .....++|++.+
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~~   91 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYVP   91 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEHH
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEhH
Confidence            3455666666543    126899999999999999999998772   223345666543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.80  E-value=0.00012  Score=77.33  Aligned_cols=43  Identities=28%  Similarity=0.374  Sum_probs=39.4

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |||+++++++.+.+.......+.|+|++|+|||++|+.+++..
T Consensus       189 iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          189 IGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             CSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            7999999999999988766788999999999999999998876

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.80  E-value=0.00012  Score=70.85  Aligned_cols=149  Identities=13%  Similarity=0.096  Sum_probs=84.5

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      |-++..++|.+.+.-             ...+=|.++||+|.|||.+|+++++..   ...   .+.+..+.-..     
T Consensus       185 Gl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~---~~~---f~~v~~s~l~~~~vGe  258 (434)
T 4b4t_M          185 GLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT---NAT---FLKLAAPQLVQMYIGE  258 (434)
T ss_dssp             SCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCE---EEEEEGGGGCSSCSSH
T ss_pred             cHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh---CCC---EEEEehhhhhhcccch
Confidence            667777777766431             235679999999999999999999987   222   23343332111     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCc-------cc---------cccccCCCCC--CCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWET-------ID---------LSKIGVPLPS--QKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~-------~~---------~~~l~~~~~~--~~~gs~ilvTtR~~~~~-----  117 (483)
                      .....+.+   +-...+++|++|+++..       ..         ...+...+..  ...+..||.||......     
T Consensus       259 se~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~All  338 (434)
T 4b4t_M          259 GAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALL  338 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTC
T ss_pred             HHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHh
Confidence            11122222   45567899999999632       00         0111111211  12344566666544332     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.++|..+.........-    ..+.+++.+.|.-
T Consensus       339 RpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dv----dl~~lA~~t~G~s  387 (434)
T 4b4t_M          339 RSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDI----NWQELARSTDEFN  387 (434)
T ss_dssp             STTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCC----CHHHHHHHCSSCC
T ss_pred             cCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcC----CHHHHHHhCCCCC
Confidence                      56667777788887666433211111    2567788887754

>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=97.78  E-value=1.8e-05  Score=66.44  Aligned_cols=84  Identities=7%  Similarity=0.064  Sum_probs=66.2

Q ss_pred             CCccEEEccCCccCccCCcccccCcCCCEEeccCCC-CCccCc-cccCC----cCCCEEecCCCCCcCCCCCCCCccchh
Q 038724          342 PCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLELPE-ELKAL----EKLKYLDMDDHQQVMEEGNCQSDDAES  415 (483)
Q Consensus       342 ~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~-i~~lp~-~~~~l----~~L~~L~l~~n~~~~~p~~~~l~~~~~  415 (483)
                      ..|+.||+++|.+...--..+..+++|++|+|++|. ++.-.- .+..+    ++|++|+|++|...          ...
T Consensus        61 ~~L~~LDLs~~~Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~I----------TD~  130 (176)
T 3e4g_A           61 YKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNV----------TDK  130 (176)
T ss_dssp             CCEEEEEEESCCCCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTC----------CHH
T ss_pred             ceEeEEeCcCCCccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcC----------CHH
Confidence            469999999998665544567899999999999997 665321 24443    47999999999633          466


Q ss_pred             hHhhhccccccccceeeccC
Q 038724          416 LLKEMLCLEQLNIIRLTSCS  435 (483)
Q Consensus       416 ~~~~l~~l~~L~~L~l~~~~  435 (483)
                      ....+..+++|+.|++++|+
T Consensus       131 Gl~~L~~~~~L~~L~L~~c~  150 (176)
T 3e4g_A          131 GIIALHHFRNLKYLFLSDLP  150 (176)
T ss_dssp             HHHHGGGCTTCCEEEEESCT
T ss_pred             HHHHHhcCCCCCEEECCCCC
Confidence            77788899999999999997

>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=97.76  E-value=3.7e-06  Score=71.95  Aligned_cols=40  Identities=18%  Similarity=0.296  Sum_probs=29.9

Q ss_pred             hhHHHHHHHHHhc---CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            4 PKQFYQVWRFLVK---KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         4 ~~~~~~l~~~l~~---~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.++.+.+++.+   .....++|+|++|+||||||+++++..
T Consensus        20 ~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           20 NRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             HHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445555555543   234689999999999999999999876

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.75  E-value=5.7e-05  Score=74.93  Aligned_cols=155  Identities=17%  Similarity=0.154  Sum_probs=86.8

Q ss_pred             CCChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC----
Q 038724            1 IENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~----   63 (483)
                      +|.++.+++|.+.+..             ...+-|.|+|++|+|||++|+++++..   ...   .+.+..+.-..    
T Consensus       207 ~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~---fv~vn~~~l~~~~~g  280 (489)
T 3hu3_A          207 GGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGPEIMSKLAG  280 (489)
T ss_dssp             CSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSE---EEEEEHHHHHTSCTT
T ss_pred             CCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCC---EEEEEchHhhhhhcc
Confidence            5788888888887752             344579999999999999999998875   222   23343221110    


Q ss_pred             --ccchhHHh--hhcCCcEEEEEcCCCCccc-------------cccccCCCC--CCCCCCEEEEecCChhhh-------
Q 038724           64 --LETSQDDM--ILSTKKFLLLLDDLWETID-------------LSKIGVPLP--SQKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        64 --~~~~~~~i--~l~~~~~LlvlDdv~~~~~-------------~~~l~~~~~--~~~~gs~ilvTtR~~~~~-------  117 (483)
                        ...+...+  ...+++.+|+||+++....             ...+...+.  ......+||.||......       
T Consensus       281 ~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~  360 (489)
T 3hu3_A          281 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRF  360 (489)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGST
T ss_pred             hhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCC
Confidence              00111111  4556788999999942210             111211111  112234566566544221       


Q ss_pred             --------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCc-hHHHHH
Q 038724          118 --------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGL-PLALTI  165 (483)
Q Consensus       118 --------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~-Plal~~  165 (483)
                              +...+.++-.+++...........    ....+.+++.+.|. +-.+..
T Consensus       361 gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~----~~~l~~la~~t~g~s~~dL~~  413 (489)
T 3hu3_A          361 GRFDREVDIGIPDATGRLEILQIHTKNMKLAD----DVDLEQVANETHGHVGADLAA  413 (489)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHHTTTSCBCT----TCCHHHHHHTCTTCCHHHHHH
T ss_pred             CcCceEEEeCCCCHHHHHHHHHHHHhcCCCcc----hhhHHHHHHHccCCcHHHHHH
Confidence                    666778888888887765433111    11245666676664 444443

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.70  E-value=0.00023  Score=70.00  Aligned_cols=150  Identities=16%  Similarity=0.167  Sum_probs=82.3

Q ss_pred             CCChhHHHHHHHHHh---c---------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc----
Q 038724            1 IENPKQFYQVWRFLV---K---------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL----   64 (483)
Q Consensus         1 vgr~~~~~~l~~~l~---~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~----   64 (483)
                      +|.++.++++.+.+.   .         ...+-|.|+|++|+|||+||++++...   ...|   +.++.+.-...    
T Consensus        19 ~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~---~~~f---~~is~~~~~~~~~g~   92 (476)
T 2ce7_A           19 GGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA---NVPF---FHISGSDFVELFVGV   92 (476)
T ss_dssp             CSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH---TCCE---EEEEGGGTTTCCTTH
T ss_pred             CCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCe---eeCCHHHHHHHHhcc
Confidence            466777666665543   1         123458899999999999999999876   2222   23433322111    


Q ss_pred             --cchhHHh--hhcCCcEEEEEcCCCCccc----------------cccccCCCC--CCCCCCEEEEecCChhhh-----
Q 038724           65 --ETSQDDM--ILSTKKFLLLLDDLWETID----------------LSKIGVPLP--SQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        65 --~~~~~~i--~l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtR~~~~~-----  117 (483)
                        ..+...+  .....+++|+||+++....                +..+...+.  ....+..||.||......     
T Consensus        93 ~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~all  172 (476)
T 2ce7_A           93 GAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALL  172 (476)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGG
T ss_pred             cHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhc
Confidence              0111111  4456789999999965311                111211111  112345666666555332     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.+++..+.......  .+  .....+++.+.|..
T Consensus       173 R~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~--~~--v~l~~la~~t~G~s  221 (476)
T 2ce7_A          173 RPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLA--ED--VNLEIIAKRTPGFV  221 (476)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC--TT--CCHHHHHHTCTTCC
T ss_pred             ccCcceeEeecCCCCHHHHHHHHHHHHHhCCCc--ch--hhHHHHHHhcCCCc
Confidence                      45556666677777666443311  11  11455788888876

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.65  E-value=0.00053  Score=66.32  Aligned_cols=79  Identities=18%  Similarity=0.164  Sum_probs=51.4

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      |-++..++|.+.+.-             ...+=|.++|++|+|||.+|+++++..   ...   .+.+..+.-.+     
T Consensus       176 Gl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~---~~~---~~~v~~~~l~~~~~Ge  249 (428)
T 4b4t_K          176 GLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST---KAA---FIRVNGSEFVHKYLGE  249 (428)
T ss_dssp             SCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH---TCE---EEEEEGGGTCCSSCSH
T ss_pred             cHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---eEEEecchhhccccch
Confidence            667777777766542             234569999999999999999999987   222   23344332221     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCC
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLW   86 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~   86 (483)
                      .....+++   +-...++++++|+++
T Consensus       250 ~e~~ir~lF~~A~~~aP~IifiDEiD  275 (428)
T 4b4t_K          250 GPRMVRDVFRLARENAPSIIFIDEVD  275 (428)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECTH
T ss_pred             hHHHHHHHHHHHHHcCCCeeechhhh
Confidence            11112222   556789999999995

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.39  E-value=0.00022  Score=58.54  Aligned_cols=60  Identities=17%  Similarity=0.171  Sum_probs=40.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcEEEEEcCCCCc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      -..++|+|+.|+|||||++.++.... .. .+ .++++...+-... .      ...+.-++||||+...
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~-~~-g~-~~~~~~~~~~~~~-~------~~~~~~lLilDE~~~~   95 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQAL-EA-GK-NAAYIDAASMPLT-D------AAFEAEYLAVDQVEKL   95 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHH-TT-TC-CEEEEETTTSCCC-G------GGGGCSEEEEESTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH-hc-CC-cEEEEcHHHhhHH-H------HHhCCCEEEEeCcccc
Confidence            35899999999999999999998772 21 22 2566654432222 1      1234568899999654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.37  E-value=0.00014  Score=76.78  Aligned_cols=84  Identities=17%  Similarity=0.257  Sum_probs=53.7

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCcc-----c
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE-----T   66 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~-----~   66 (483)
                      ||.++.++.+.+.+...         ....+.++|++|+|||++|+++++...   ..-...+.++.+.-....     .
T Consensus       494 iGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~---~~~~~~i~i~~s~~~~~~~~~~~~  570 (758)
T 3pxi_A          494 IGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIF---GDEESMIRIDMSEYMEKHSTSGGQ  570 (758)
T ss_dssp             CSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHH---SCTTCEEEEEGGGGCSSCCCC---
T ss_pred             cChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc---CCCcceEEEechhcccccccccch
Confidence            57888888888877631         123799999999999999999998762   222234555554333211     1


Q ss_pred             hhHHhhhcCCcEEEEEcCCCCc
Q 038724           67 SQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        67 ~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      +...+. .....+|+||+++..
T Consensus       571 l~~~~~-~~~~~vl~lDEi~~~  591 (758)
T 3pxi_A          571 LTEKVR-RKPYSVVLLDAIEKA  591 (758)
T ss_dssp             CHHHHH-HCSSSEEEEECGGGS
T ss_pred             hhHHHH-hCCCeEEEEeCcccc
Confidence            222222 234458999999755

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.36  E-value=0.00037  Score=72.74  Aligned_cols=149  Identities=17%  Similarity=0.160  Sum_probs=83.5

Q ss_pred             CChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC----CcC-
Q 038724            2 ENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK----ELK-   63 (483)
Q Consensus         2 gr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~----~~~-   63 (483)
                      |-++..++|.+.+.-             ..++-|.++|++|+|||+||+++++..   ..+   .+.+..+.    ... 
T Consensus       208 Gl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~---~~~v~~~~l~sk~~ge  281 (806)
T 3cf2_A          208 GCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGPEIMSKLAGE  281 (806)
T ss_dssp             SCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCE---EEEEEHHHHHSSCTTH
T ss_pred             CHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCe---EEEEEhHHhhcccchH
Confidence            566677777766531             135679999999999999999999976   222   23443221    111 


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCccc-------------cccccCCCCC--CCCCCEEEEecCChhhh--------
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETID-------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC--------  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~~-------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~--------  117 (483)
                      ....++.+   +....+++|+||+++....             ...+...+..  ...+..||.||......        
T Consensus       282 se~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~G  361 (806)
T 3cf2_A          282 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  361 (806)
T ss_dssp             HHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTT
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCc
Confidence            11112222   5667899999999964311             1111111110  11233455555443222        


Q ss_pred             -------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 -------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 -------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                             +...+.++-.+++..+.........    ...+.+++.+.|.-
T Consensus       362 RFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~d----vdl~~lA~~T~Gfs  407 (806)
T 3cf2_A          362 RFDREVDIGIPDATGRLEILQIHTKNMKLADD----VDLEQVANETHGHV  407 (806)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHTCSSSEECTT----CCHHHHHHHCCSCC
T ss_pred             ccceEEecCCCCHHHHHHHHHHHhcCCCCCcc----cCHHHHHHhcCCCC
Confidence                   5566777777788776644332111    22567888887764

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=97.30  E-value=0.00067  Score=64.31  Aligned_cols=152  Identities=9%  Similarity=-0.099  Sum_probs=97.7

Q ss_pred             HHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---hhcCCcEEEEEcCCC
Q 038724           10 VWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---ILSTKKFLLLLDDLW   86 (483)
Q Consensus        10 l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---~l~~~~~LlvlDdv~   86 (483)
                      +.+.+...-.+++.++|+.|.||++.+.++.+...  ...|+....+.+....+.+++....   .+-+.+-++|+|+++
T Consensus         9 l~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~plf~~~kvvii~~~~   86 (343)
T 1jr3_D            9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAA--AQGFEEHHTFSIDPNTDWNAIFSLCQAMSLFASRQTLLLLLPE   86 (343)
T ss_dssp             HHHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHH--HHTCCEEEEEECCTTCCHHHHHHHHHHHHHCCSCEEEEEECCS
T ss_pred             HHHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHH--hCCCCeeEEEEecCCCCHHHHHHHhcCcCCccCCeEEEEECCC
Confidence            44445434456899999999999999999987651  1234332333445556676666665   566788899999996


Q ss_pred             C-c--cccccccCCCCCCCCCCEEEEecCC--------hhhh----------hccCChHHHHHHHHHHhcCCcccCCCCc
Q 038724           87 E-T--IDLSKIGVPLPSQKIVSKVVFTTHS--------EEVC----------VDCFTPQESWQVFQMKVGNETLVSHPAI  145 (483)
Q Consensus        87 ~-~--~~~~~l~~~~~~~~~gs~ilvTtR~--------~~~~----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~  145 (483)
                      . .  ...+.+...+.....++.+|+++..        +...          ..+++.++....+...+...+   ..-.
T Consensus        87 ~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~g---~~i~  163 (343)
T 1jr3_D           87 NGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLN---LELD  163 (343)
T ss_dssp             SCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHTT---CEEC
T ss_pred             CCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHcC---CCCC
Confidence            6 3  3455555555444456666665432        1111          667888888877777664333   1223


Q ss_pred             hhHHHHHHhHcCCchHHHHHH
Q 038724          146 HKPAKMVAKDCGGLPLALTIV  166 (483)
Q Consensus       146 ~~~~~~i~~~c~g~Plal~~~  166 (483)
                      .+.++.+++.++|....+...
T Consensus       164 ~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          164 DAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHHHHHHHHHhchHHHHHHHH
Confidence            466788999999988776543

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.18  E-value=0.00081  Score=67.84  Aligned_cols=25  Identities=40%  Similarity=0.558  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+.++|++|+||||+|+.++...
T Consensus       108 g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A          108 GPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             SCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999999999876

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.17  E-value=0.00039  Score=64.71  Aligned_cols=39  Identities=21%  Similarity=0.445  Sum_probs=29.8

Q ss_pred             hHHHHHHHHHhcC---CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            5 KQFYQVWRFLVKK---DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         5 ~~~~~l~~~l~~~---~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++.+.+++...   ....+.|+|++|+|||+||.++++..
T Consensus       135 ~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          135 EAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3445555666642   24688999999999999999999877

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.15  E-value=0.0048  Score=61.08  Aligned_cols=150  Identities=14%  Similarity=0.153  Sum_probs=79.3

Q ss_pred             CCChhHHHHHHHHHh---cC---------CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC--ccc
Q 038724            1 IENPKQFYQVWRFLV---KK---------DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK--LET   66 (483)
Q Consensus         1 vgr~~~~~~l~~~l~---~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~--~~~   66 (483)
                      +|.++.++++.+...   ..         -.+-+.|+|++|+|||+||++++...   ...   .+.++.+.-..  ...
T Consensus        34 ~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~---~~~---~i~i~g~~~~~~~~g~  107 (499)
T 2dhr_A           34 AGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASGSDFVEMFVGV  107 (499)
T ss_dssp             CSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCC---EEEEEGGGGTSSCTTH
T ss_pred             CCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEehhHHHHhhhhh
Confidence            466666666655542   11         12348999999999999999999876   222   34444332111  001


Q ss_pred             hhHHh----h--hcCCcEEEEEcCCCCccc----------------cccccCCCCC--CCCCCEEEEecCChhhh-----
Q 038724           67 SQDDM----I--LSTKKFLLLLDDLWETID----------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        67 ~~~~i----~--l~~~~~LlvlDdv~~~~~----------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~-----  117 (483)
                      ....+    .  ....+.++++|+++....                +..+...+..  ...+..++.+|......     
T Consensus       108 ~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~aLl  187 (499)
T 2dhr_A          108 GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALL  187 (499)
T ss_dssp             HHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTTTS
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcccc
Confidence            11111    1  123468999999953210                1122211211  12234566666665443     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.+++..+.......  .  ......++..+.|+.
T Consensus       188 r~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~--~--dv~l~~lA~~t~G~~  236 (499)
T 2dhr_A          188 RPGRFDRQIAIDAPDVKGREQILRIHARGKPLA--E--DVDLALLAKRTPGFV  236 (499)
T ss_dssp             STTSSCCEEECCCCCHHHHHHHHHHTTSSSCCC--C--SSTTHHHHTTSCSCC
T ss_pred             cccccceEEecCCCCHHHHHHHHHHHHhcCCCC--h--HHHHHHHHHhcCCCC
Confidence                      55566677777777665322211  1  112456777777765

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.10  E-value=0.0029  Score=57.87  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|++|+||||||+.++...
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCcChHHHHHHHHHHHc
Confidence            8999999999999999999876

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.01  E-value=0.00052  Score=63.41  Aligned_cols=64  Identities=17%  Similarity=0.201  Sum_probs=39.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC---------ccchhHHh---hhcCCcEEEEEcCC
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK---------LETSQDDM---ILSTKKFLLLLDDL   85 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~---------~~~~~~~i---~l~~~~~LlvlDdv   85 (483)
                      .++.+.++|++|+|||+||+++++..   ...|   +.++.+.-.+         +..+....   .-...+.+|+||++
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l---~~~~---i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEi  108 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM---GINP---IMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDL  108 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH---TCCC---EEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh---CCCE---EEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEech
Confidence            34678899999999999999999987   2232   2333221100         11111111   13567899999999


Q ss_pred             CC
Q 038724           86 WE   87 (483)
Q Consensus        86 ~~   87 (483)
                      +.
T Consensus       109 D~  110 (293)
T 3t15_A          109 DA  110 (293)
T ss_dssp             C-
T ss_pred             hh
Confidence            63

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.98  E-value=0.0026  Score=58.01  Aligned_cols=60  Identities=22%  Similarity=0.259  Sum_probs=38.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc--cchhHHh------hhcCCcEEEEEcCCCC
Q 038724           22 IGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL--ETSQDDM------ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~--~~~~~~i------~l~~~~~LlvlDdv~~   87 (483)
                      ++|+|++|+||||||++++...   ..   ..+++....-...  .+....+      .....++++++|+++.
T Consensus        47 vlL~Gp~GtGKTtLakala~~~---~~---~~i~i~g~~l~~~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~  114 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANES---GL---NFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDA  114 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHT---TC---EEEEEETTTTCSSTTHHHHHHHHHHHHHHHHTCSEEEEEETCTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHc---CC---CEEEEEcHHHHhhhhhHHHHHHHHHHHHHHhcCCCeEeeehhhh
Confidence            9999999999999999999876   21   2344443322111  1111112      2245688999999975

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.94  E-value=0.00059  Score=72.98  Aligned_cols=43  Identities=21%  Similarity=0.366  Sum_probs=35.1

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.+..++.+...+...         ....+.|+|++|+|||++|+++++..
T Consensus       561 iG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          561 VGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             CSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            57888888887777542         12589999999999999999999876

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.93  E-value=0.00038  Score=64.16  Aligned_cols=62  Identities=18%  Similarity=0.395  Sum_probs=38.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEe--CCC-----cCccchhHHh--hhcCCcEEEEEcCCCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVV--SKE-----LKLETSQDDM--ILSTKKFLLLLDDLWET   88 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~--~~~-----~~~~~~~~~i--~l~~~~~LlvlDdv~~~   88 (483)
                      +++.|+|++|+|||+||.+++... ..     .+.|++.  .+.     .+...++..+  .+...+ +||+|++...
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~-G~-----~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~-LLVIDsI~aL  194 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEAL-GG-----KDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR-VIVIDSLKNV  194 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHH-HT-----TSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS-EEEEECCTTT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhC-CC-----CEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC-EEEEeccccc
Confidence            567899999999999999998752 11     1345555  221     1233333333  233344 9999998543

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=96.87  E-value=0.00032  Score=69.27  Aligned_cols=84  Identities=14%  Similarity=0.021  Sum_probs=50.0

Q ss_pred             CCChhHHHHHHHHH---hcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc----CccchhHHh
Q 038724            1 IENPKQFYQVWRFL---VKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL----KLETSQDDM   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l---~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~----~~~~~~~~i   71 (483)
                      ||.++..+++...+   ..+  ..+-+.++|++|+|||++|+++++..   ...+. .+.++.+.-.    ...+...+.
T Consensus        40 iG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l---~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  115 (456)
T 2c9o_A           40 VGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL---GSKVP-FCPMVGSEVYSTEIKKTEVLMEN  115 (456)
T ss_dssp             ESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH---CTTSC-EEEEEGGGGCCSSSCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh---CCCce-EEEEeHHHHHHHhhhhhHHHHHH
Confidence            57777766554444   333  23578999999999999999999987   21121 2233333221    111111122


Q ss_pred             ---h---hcCCcEEEEEcCCCCc
Q 038724           72 ---I---LSTKKFLLLLDDLWET   88 (483)
Q Consensus        72 ---~---l~~~~~LlvlDdv~~~   88 (483)
                         +   ....+.+|++|+++..
T Consensus       116 f~~a~~~~~~~~~il~iDEid~l  138 (456)
T 2c9o_A          116 FRRAIGLRIKETKEVYEGEVTEL  138 (456)
T ss_dssp             HHHTEEEEEEEEEEEEEEEEEEE
T ss_pred             HHHHHhhhhcCCcEEEEechhhc
Confidence               1   3457889999999643

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.86  E-value=0.0011  Score=57.57  Aligned_cols=42  Identities=19%  Similarity=0.293  Sum_probs=34.7

Q ss_pred             CChhHHHHHHHHHhc---CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            2 ENPKQFYQVWRFLVK---KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         2 gr~~~~~~l~~~l~~---~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|++.++++.+.+..   ....+|+|.|++|.||||+++.+....
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            466788888888875   345799999999999999999998755

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.79  E-value=0.0058  Score=59.02  Aligned_cols=123  Identities=18%  Similarity=0.195  Sum_probs=67.4

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEE
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYL  394 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L  394 (483)
                      .+..|+.+.+..+ +..+....|..++.|+.+.+..+ +...-...|.++.+|+.+.+..+ +..++.. |.++.+|+.+
T Consensus       263 ~c~~L~~i~lp~~-~~~I~~~aF~~c~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i~lp~~-v~~I~~~aF~~C~~L~~i  339 (394)
T 4gt6_A          263 SCAYLASVKMPDS-VVSIGTGAFMNCPALQDIEFSSR-ITELPESVFAGCISLKSIDIPEG-ITQILDDAFAGCEQLERI  339 (394)
T ss_dssp             TCSSCCEEECCTT-CCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEEECCTT-CCEECTTTTTTCTTCCEE
T ss_pred             ecccccEEecccc-cceecCcccccccccccccCCCc-ccccCceeecCCCCcCEEEeCCc-ccEehHhHhhCCCCCCEE
Confidence            4566777776544 33455555667777777777544 33333345666777777777543 5555544 6677777777


Q ss_pred             ecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc--cccCCCCCcccccceee
Q 038724          395 DMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL--CSLCGLPTVQCLTSRRL  453 (483)
Q Consensus       395 ~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l--~~l~~l~~l~~l~l~~~  453 (483)
                      .+..+- ..           .....|..+++|+.+.+.++..  ..+.....|+++.+..+
T Consensus       340 ~ip~sv-~~-----------I~~~aF~~C~~L~~i~~~~~~~~~~~~~~~~~L~~i~i~~~  388 (394)
T 4gt6_A          340 AIPSSV-TK-----------IPESAFSNCTALNNIEYSGSRSQWNAISTDSGLQNLPVAPG  388 (394)
T ss_dssp             EECTTC-CB-----------CCGGGGTTCTTCCEEEESSCHHHHHTCBCCCCC--------
T ss_pred             EECccc-CE-----------EhHhHhhCCCCCCEEEECCceeehhhhhccCCCCEEEeCCC
Confidence            775542 11           1224566777777777776542  23444455666655443

>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=96.68  E-value=0.002  Score=58.57  Aligned_cols=43  Identities=16%  Similarity=0.224  Sum_probs=33.6

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+...+.++.+.+..  .....|.|+|++|+|||++|+++++..
T Consensus         9 ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            9 LGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             -CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             eeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            5788888877766653  233578899999999999999999876

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.59  E-value=0.0036  Score=49.81  Aligned_cols=54  Identities=19%  Similarity=0.269  Sum_probs=37.3

Q ss_pred             EEEccccccc--cccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCcc
Q 038724          300 RMSLMNNQIK--TLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRF  354 (483)
Q Consensus       300 ~l~l~~~~~~--~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~  354 (483)
                      .++.+++.++  .+|.. --++|+.|+|++|.++.+++..|..+++|++|+|++|.+
T Consensus        12 ~v~Cs~~~L~~~~vP~~-lp~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~   67 (130)
T 3rfe_A           12 LVDCGRRGLTWASLPTA-FPVDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPW   67 (130)
T ss_dssp             EEECCSSCCCTTTSCSC-CCTTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCC
T ss_pred             EEEeCCCCCccccCCCC-CCcCCCEEECCCCcCCccChhhhhhccccCEEEecCCCe
Confidence            4666666666  55532 234677778888877777777777777777777777754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.58  E-value=0.0018  Score=56.51  Aligned_cols=39  Identities=21%  Similarity=0.249  Sum_probs=31.0

Q ss_pred             hHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            5 KQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         5 ~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.+++|.+.+..  ....+|+|.|++|.|||||++.++...
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456666666653  345799999999999999999998766

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.53  E-value=0.0021  Score=59.65  Aligned_cols=43  Identities=12%  Similarity=0.213  Sum_probs=35.6

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+...+.++.+.+..  .....|.|+|.+|+|||++|+++++..
T Consensus         5 ig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            5 IGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             CCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             EECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            6888888888887764  333568899999999999999999865

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.52  E-value=0.0022  Score=63.57  Aligned_cols=41  Identities=17%  Similarity=0.273  Sum_probs=35.9

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+++.++.+...+..+.  .|.++|++|+|||+||+++++..
T Consensus        25 vGq~~~i~~l~~al~~~~--~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           25 YERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             SSCHHHHHHHHHHHHHTC--EEEEECCSSSSHHHHHHHGGGGB
T ss_pred             HHHHHHHHHHHHHHhcCC--eeEeecCchHHHHHHHHHHHHHH
Confidence            688888888888877664  78999999999999999999876

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.51  E-value=0.0015  Score=61.54  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|++|+|||||++.+++..
T Consensus       175 Qr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          175 QRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             CEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             cEEEEecCCCCChhHHHHHHHHHH
Confidence            589999999999999999887754

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.49  E-value=0.0017  Score=55.26  Aligned_cols=24  Identities=25%  Similarity=0.185  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++.|+|+.|+||||++..++++.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999997777665

>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=96.45  E-value=0.0015  Score=55.31  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|.|+|++|+||||+|+.++++.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            479999999999999999999876

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.45  E-value=0.0018  Score=60.89  Aligned_cols=41  Identities=15%  Similarity=0.141  Sum_probs=35.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+++.++.+...+..++  .+.++|++|+|||++|+++++..
T Consensus        30 ~g~~~~~~~l~~~l~~~~--~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           30 VGQKYMINRLLIGICTGG--HILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             CSCHHHHHHHHHHHHHTC--CEEEESCCCHHHHHHHHHHHHHT
T ss_pred             eCcHHHHHHHHHHHHcCC--eEEEECCCCCcHHHHHHHHHHHh
Confidence            688888888888887653  68999999999999999999876

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.41  E-value=0.0028  Score=60.52  Aligned_cols=43  Identities=19%  Similarity=0.140  Sum_probs=35.0

Q ss_pred             CCChhHHHHHHHHHh-------------cC--CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLV-------------KK--DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~-------------~~--~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.++.++.+..++.             ..  ..+.|.++|++|+|||++|+++++..
T Consensus        18 ~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           18 IGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            588888888888772             11  33578999999999999999999876

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.38  E-value=0.0067  Score=48.25  Aligned_cols=54  Identities=22%  Similarity=0.304  Sum_probs=37.5

Q ss_pred             EEEccCCccCc--cCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCc
Q 038724          346 VLNLSYNRFLT--KLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQV  402 (483)
Q Consensus       346 ~L~l~~n~~~~--~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~  402 (483)
                      .++.+++. +.  .+|..+.  .+|++|+|++|.|..+|.. +..+++|+.|+|++|...
T Consensus        12 ~v~Cs~~~-L~~~~vP~~lp--~~l~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~NP~~   68 (130)
T 3rfe_A           12 LVDCGRRG-LTWASLPTAFP--VDTTELVLTGNNLTALPPGLLDALPALRTAHLGANPWR   68 (130)
T ss_dssp             EEECCSSC-CCTTTSCSCCC--TTCSEEECTTSCCSSCCTTTGGGCTTCCEEECCSSCCB
T ss_pred             EEEeCCCC-CccccCCCCCC--cCCCEEECCCCcCCccChhhhhhccccCEEEecCCCee
Confidence            56666664 44  6665442  4577888888888888766 567788888888888643

>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=96.34  E-value=0.0018  Score=54.31  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|++|+||||+|+.+++..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            378999999999999999999876

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=96.32  E-value=0.0056  Score=59.12  Aligned_cols=131  Identities=16%  Similarity=0.199  Sum_probs=90.5

Q ss_pred             cccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCC
Q 038724          330 LQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNC  408 (483)
Q Consensus       330 ~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~  408 (483)
                      +..+....|.....|+.+.+..+ ....-...+..+.+|+.+.+. +.+..++.. |.++.+|+.+.+..+- .      
T Consensus       253 v~~i~~~aF~~c~~L~~i~lp~~-~~~I~~~aF~~c~~L~~i~l~-~~i~~I~~~aF~~c~~L~~i~lp~~v-~------  323 (394)
T 4gt6_A          253 VARIETHAFDSCAYLASVKMPDS-VVSIGTGAFMNCPALQDIEFS-SRITELPESVFAGCISLKSIDIPEGI-T------  323 (394)
T ss_dssp             EEEECTTTTTTCSSCCEEECCTT-CCEECTTTTTTCTTCCEEECC-TTCCEECTTTTTTCTTCCEEECCTTC-C------
T ss_pred             ceEcccceeeecccccEEecccc-cceecCcccccccccccccCC-CcccccCceeecCCCCcCEEEeCCcc-c------
Confidence            45556667888899999999776 344445678888999999995 457788776 8889999999998652 2      


Q ss_pred             CCccchhhHhhhccccccccceeecc--Cc--cccCCCCCcccccceeeeeeeeecccccCccceeecCC
Q 038724          409 QSDDAESLLKEMLCLEQLNIIRLTSC--SL--CSLCGLPTVQCLTSRRLNLEVEDWHKCTGEVHKVLQSG  474 (483)
Q Consensus       409 ~l~~~~~~~~~l~~l~~L~~L~l~~~--~l--~~l~~l~~l~~l~l~~~~~~~~~~~~~~~~~~~~~~~~  474 (483)
                           ......|..+.+|+.+.+..+  .+  .++.+..+|+.+++..+....+.+..|.++....+..+
T Consensus       324 -----~I~~~aF~~C~~L~~i~ip~sv~~I~~~aF~~C~~L~~i~~~~~~~~~~~~~~~~~L~~i~i~~~  388 (394)
T 4gt6_A          324 -----QILDDAFAGCEQLERIAIPSSVTKIPESAFSNCTALNNIEYSGSRSQWNAISTDSGLQNLPVAPG  388 (394)
T ss_dssp             -----EECTTTTTTCTTCCEEEECTTCCBCCGGGGTTCTTCCEEEESSCHHHHHTCBCCCCC--------
T ss_pred             -----EehHhHhhCCCCCCEEEECcccCEEhHhHhhCCCCCCEEEECCceeehhhhhccCCCCEEEeCCC
Confidence                 122346888999999999654  12  45678889999988776666566666666655444433

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.29  E-value=0.0023  Score=54.62  Aligned_cols=29  Identities=28%  Similarity=0.332  Sum_probs=24.7

Q ss_pred             hcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           15 VKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        15 ~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ......+|.|.|++|+||||+++.++...
T Consensus         9 ~~~~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A            9 CIEKGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            33345789999999999999999999876

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.27  E-value=0.0048  Score=58.19  Aligned_cols=52  Identities=17%  Similarity=0.093  Sum_probs=35.4

Q ss_pred             HHHHHHhcC---CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724            9 QVWRFLVKK---DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus         9 ~l~~~l~~~---~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      +|.+.|..+   .-+++.|+|++|+||||||.+++.... .  .-..++|++....++
T Consensus        48 ~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~-~--~gg~VlyId~E~s~~  102 (356)
T 3hr8_A           48 AIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQ-K--MGGVAAFIDAEHALD  102 (356)
T ss_dssp             HHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHH-H--TTCCEEEEESSCCCC
T ss_pred             HHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHH-h--cCCeEEEEecccccc
Confidence            455555523   236999999999999999999988751 1  112367887665444

>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=96.27  E-value=0.0038  Score=58.03  Aligned_cols=27  Identities=26%  Similarity=0.684  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.++|+|+|=|||||||.+..++.-.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aL   72 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAF   72 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHH
Confidence            467999999999999999998887655

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.26  E-value=0.0044  Score=54.59  Aligned_cols=37  Identities=22%  Similarity=0.354  Sum_probs=29.7

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.+.+.+.....+.|+|+|.+|+|||||+..+....
T Consensus        26 a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           26 ADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3455555555667899999999999999999998875

>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=96.22  E-value=0.002  Score=54.76  Aligned_cols=24  Identities=33%  Similarity=0.570  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|+|+||+|+|||||++++..+.
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            568999999999999999998765

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.20  E-value=0.0048  Score=56.65  Aligned_cols=27  Identities=33%  Similarity=0.250  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|.|++|+||||||+.+....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998766

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=96.19  E-value=0.021  Score=54.69  Aligned_cols=104  Identities=15%  Similarity=0.057  Sum_probs=64.2

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEE
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYL  394 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L  394 (483)
                      .+..|+.+.+..+ ++.+....|....+|+.+.+..+ +...-...+..+.+|+.+.+..+.+..++.. |.++.+|+.+
T Consensus       238 ~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~~i  315 (379)
T 4h09_A          238 GMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLSSV  315 (379)
T ss_dssp             TCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCCEE
T ss_pred             CCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccceehhhhhcCCCCCCEE
Confidence            4566777777654 55666666777777777777654 2333334566777777777777767777654 6677777777


Q ss_pred             ecCCCCCcCCCCCCCCccchhhHhhhccccccccceeec
Q 038724          395 DMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTS  433 (483)
Q Consensus       395 ~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~  433 (483)
                      .+..+- ..           .....|..+.+|+.+.+..
T Consensus       316 ~lp~~l-~~-----------I~~~aF~~C~~L~~i~ip~  342 (379)
T 4h09_A          316 TLPTAL-KT-----------IQVYAFKNCKALSTISYPK  342 (379)
T ss_dssp             ECCTTC-CE-----------ECTTTTTTCTTCCCCCCCT
T ss_pred             EcCccc-cE-----------EHHHHhhCCCCCCEEEECC
Confidence            776542 11           1223456666676666643

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.18  E-value=0.004  Score=54.65  Aligned_cols=39  Identities=18%  Similarity=0.257  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            5 KQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         5 ~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +..+++.+.+.....++|+|+|.+|+|||||+.++....
T Consensus        16 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           16 RLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            345555566655677899999999999999999998875

>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=96.17  E-value=0.004  Score=53.79  Aligned_cols=27  Identities=26%  Similarity=0.380  Sum_probs=24.1

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|+|++|.||||+++.++...
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445799999999999999999998876

>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=96.15  E-value=0.0025  Score=53.53  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|++|+||||+|+.+ +..
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            37899999999999999999 544

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.15  E-value=0.0031  Score=53.31  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      .+|.|.|++|+||||+|+.+++
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5799999999999999999987

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.14  E-value=0.0046  Score=59.34  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+.++|++|+|||++|+++++..
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            3468999999999999999999876

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.12  E-value=0.0027  Score=54.03  Aligned_cols=25  Identities=32%  Similarity=0.343  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.|.|+|++|+||||+|+.+++..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999999876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.11  E-value=0.0027  Score=54.88  Aligned_cols=25  Identities=36%  Similarity=0.352  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|+|++|+||||+|+.++...
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999999876

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.07  E-value=0.0025  Score=60.38  Aligned_cols=43  Identities=19%  Similarity=0.324  Sum_probs=32.2

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.+...+.+...+.......+.|+|++|+|||++|+++++..
T Consensus        27 ~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           27 VGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             CSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             cChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            5777766655544443333459999999999999999999876

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.05  E-value=0.0034  Score=53.67  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|.|.|++|+||||+|+.+++..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999877

>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=96.05  E-value=0.0036  Score=53.53  Aligned_cols=24  Identities=38%  Similarity=0.448  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|++|+||||+++.++...
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcc
Confidence            589999999999999999998753

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.05  E-value=0.0032  Score=53.43  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++++|+|++|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            589999999999999999998765

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.02  E-value=0.0062  Score=54.41  Aligned_cols=26  Identities=23%  Similarity=0.264  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....|+|.|++|+||||+|+.++++.
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998865

>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=96.01  E-value=0.0049  Score=58.33  Aligned_cols=41  Identities=20%  Similarity=0.294  Sum_probs=31.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      +++.|+|.+|+||||||.+++... ..  .-..++|++....++
T Consensus        64 ~ii~I~G~pGsGKTtLal~la~~~-~~--~g~~vlyid~E~s~~  104 (356)
T 1u94_A           64 RIVEIYGPESSGKTTLTLQVIAAA-QR--EGKTCAFIDAEHALD  104 (356)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHH-HH--TTCCEEEEESSCCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH-HH--CCCeEEEEeCCCCcc
Confidence            589999999999999999988765 11  123578888866554

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.00  E-value=0.0068  Score=55.61  Aligned_cols=26  Identities=27%  Similarity=0.221  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|.|.|++|+||||+|+.++++.
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998865

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.99  E-value=0.0031  Score=52.96  Aligned_cols=24  Identities=38%  Similarity=0.480  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|+|++|+||||+++.++...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998875

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=95.98  E-value=0.018  Score=60.72  Aligned_cols=43  Identities=23%  Similarity=0.291  Sum_probs=34.5

Q ss_pred             CCChhHHHHHHHHHhcC---------CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKK---------DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~---------~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||.++.++.+..++...         ....+.++|++|+|||++|+++++..
T Consensus       461 ~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          461 FGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             CSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            57778888777777531         23479999999999999999999876

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.97  E-value=0.0061  Score=57.01  Aligned_cols=40  Identities=25%  Similarity=0.254  Sum_probs=30.6

Q ss_pred             hhHHHHHHHHHh----cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            4 PKQFYQVWRFLV----KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         4 ~~~~~~l~~~l~----~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.++++.+.+.    .+....|.|+|++|+||||+++.++...
T Consensus         5 ~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             HHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            445555555553    4566779999999999999999988765

>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=95.96  E-value=0.0042  Score=53.13  Aligned_cols=25  Identities=24%  Similarity=0.356  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|.|.|++|+||||+|+.+++..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.93  E-value=0.0041  Score=55.98  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|++|+||||+|++++.+.
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999999876

>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=95.93  E-value=0.0064  Score=57.45  Aligned_cols=41  Identities=17%  Similarity=0.277  Sum_probs=31.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      +++.|+|++|+||||||.+++....   ..-..++|++....++
T Consensus        62 ~iv~I~G~pGsGKTtLal~la~~~~---~~g~~vlyi~~E~~~~  102 (349)
T 2zr9_A           62 RVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHALD  102 (349)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCCCcC
Confidence            5899999999999999999987651   1123478888766544

>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=95.89  E-value=0.0042  Score=53.06  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|++|+||||+|+.+++..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            479999999999999999999876

>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=95.88  E-value=0.0033  Score=53.25  Aligned_cols=25  Identities=44%  Similarity=0.503  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.|.|+|++|+||||+|+.+++..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998876

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.86  E-value=0.0037  Score=54.21  Aligned_cols=25  Identities=32%  Similarity=0.619  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|+|+|++|+||||+++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4589999999999999999998876

>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=95.85  E-value=0.0081  Score=54.02  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|++|+||||||+.++...
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999999876

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.85  E-value=0.0036  Score=54.13  Aligned_cols=25  Identities=28%  Similarity=0.473  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|++|+||||+|+.++...
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998875

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.84  E-value=0.0036  Score=58.87  Aligned_cols=24  Identities=38%  Similarity=0.344  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|.+|+|||+|+..+++..
T Consensus       176 QR~lIfg~~g~GKT~Ll~~Ia~~i  199 (427)
T 3l0o_A          176 QRGMIVAPPKAGKTTILKEIANGI  199 (427)
T ss_dssp             CEEEEEECTTCCHHHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHHHH
Confidence            478999999999999999988864

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.84  E-value=0.0044  Score=53.50  Aligned_cols=26  Identities=27%  Similarity=0.415  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++|.|+.|.||||+++.++...
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            34689999999999999999998765

>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=95.79  E-value=0.0057  Score=51.44  Aligned_cols=25  Identities=24%  Similarity=0.506  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -.+++|+|++|.||||+++.++...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            3689999999999999999998764

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.78  E-value=0.0078  Score=58.51  Aligned_cols=40  Identities=28%  Similarity=0.532  Sum_probs=27.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      .++|+|.+|+|||||+..+..+..  ..+.+.++++-+++..
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~--~~~~~i~V~~~iGert  192 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIA--QEHGGISVFAGVGERT  192 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHH--HHTCCCEEEEEESSCH
T ss_pred             EEEEECCCCCCccHHHHHHHhhhh--hccCcEEEEeeeccCc
Confidence            689999999999999999887651  1122334555555443

>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=95.76  E-value=0.0049  Score=53.63  Aligned_cols=25  Identities=32%  Similarity=0.320  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++|+|++|+||||+++.++...
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998865

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.75  E-value=0.0067  Score=52.44  Aligned_cols=27  Identities=26%  Similarity=0.473  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|.|++|+||||+|+.+++..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            345789999999999999999998865

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=95.75  E-value=0.017  Score=55.64  Aligned_cols=123  Identities=13%  Similarity=0.130  Sum_probs=79.5

Q ss_pred             cccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          294 KWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      ....++.+.+..+..+ +...  ..+..+..+....+.   ++...|..+.+|+.+.+..+ +...-...|..+.+|+.+
T Consensus       251 ~~~~l~~~~~~~~~~~-i~~~~F~~~~~l~~~~~~~~~---i~~~~F~~~~~L~~i~l~~~-i~~I~~~aF~~c~~L~~i  325 (394)
T 4fs7_A          251 GCTDLESISIQNNKLR-IGGSLFYNCSGLKKVIYGSVI---VPEKTFYGCSSLTEVKLLDS-VKFIGEEAFESCTSLVSI  325 (394)
T ss_dssp             TCSSCCEEEECCTTCE-ECSCTTTTCTTCCEEEECSSE---ECTTTTTTCTTCCEEEECTT-CCEECTTTTTTCTTCCEE
T ss_pred             ccccceeEEcCCCcce-eeccccccccccceeccCcee---eccccccccccccccccccc-cceechhhhcCCCCCCEE
Confidence            4455666666554322 2221  356777777766543   44555777888888888766 343344567788888888


Q ss_pred             eccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeecc
Q 038724          372 DISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSC  434 (483)
Q Consensus       372 ~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~  434 (483)
                      ++.. .+..++.. |.++++|+.+.+..+ +..+           ....|..+++|+.+.+..+
T Consensus       326 ~lp~-~v~~I~~~aF~~c~~L~~i~lp~~-l~~I-----------~~~aF~~C~~L~~i~lp~~  376 (394)
T 4fs7_A          326 DLPY-LVEEIGKRSFRGCTSLSNINFPLS-LRKI-----------GANAFQGCINLKKVELPKR  376 (394)
T ss_dssp             CCCT-TCCEECTTTTTTCTTCCEECCCTT-CCEE-----------CTTTBTTCTTCCEEEEEGG
T ss_pred             EeCC-cccEEhHHhccCCCCCCEEEECcc-ccEe-----------hHHHhhCCCCCCEEEECCC
Confidence            8864 37777654 778888888888765 2221           2245777888888888654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.75  E-value=0.0061  Score=53.16  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=24.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|.|++|+||+|.|+.+++++
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999999999999877

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.75  E-value=0.0057  Score=52.38  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|++|+||||+|+.+++..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998865

>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=95.74  E-value=0.0059  Score=51.94  Aligned_cols=24  Identities=33%  Similarity=0.318  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ...|+|+|++|+||||+++.+++.
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            458999999999999999999886

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.71  E-value=0.0056  Score=51.12  Aligned_cols=25  Identities=20%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|+.|+||||+|+.+++..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999876

>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=95.69  E-value=0.02  Score=50.86  Aligned_cols=43  Identities=19%  Similarity=0.261  Sum_probs=31.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCcC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKELK   63 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~~   63 (483)
                      .++.|+|++|+|||||+..++... ....    .-..++|++....+.
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~   71 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFR   71 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCC
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcC
Confidence            489999999999999999998753 1111    235788887666443

>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=95.69  E-value=0.0039  Score=52.95  Aligned_cols=24  Identities=29%  Similarity=0.389  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|++|+||||+|+.+++..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            368999999999999999999876

>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=95.69  E-value=0.0064  Score=51.88  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .+++|.|++|.||||+++.++..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            47899999999999999999763

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.68  E-value=0.0053  Score=51.66  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|+||||+|+.+++..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.66  E-value=0.0058  Score=52.79  Aligned_cols=23  Identities=43%  Similarity=0.755  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|.|+.|+||||+|+.+++..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999877

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.65  E-value=0.0072  Score=51.68  Aligned_cols=38  Identities=13%  Similarity=0.090  Sum_probs=29.0

Q ss_pred             HHHHHHHHHhcC-CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            6 QFYQVWRFLVKK-DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         6 ~~~~l~~~l~~~-~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+..+..++..- ..+.+.|+|++|+|||++|.++++..
T Consensus        44 f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           44 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            455666666542 12379999999999999999999876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.64  E-value=0.0058  Score=52.42  Aligned_cols=25  Identities=32%  Similarity=0.473  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|++|+||||+|+.+++..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998866

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.63  E-value=0.0067  Score=51.54  Aligned_cols=24  Identities=21%  Similarity=0.389  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|.|++|+||||+|+.+++..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998865

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.63  E-value=0.0063  Score=52.63  Aligned_cols=24  Identities=17%  Similarity=0.433  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|+|||||++.++...
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            489999999999999999998754

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=95.62  E-value=0.023  Score=55.10  Aligned_cols=40  Identities=33%  Similarity=0.570  Sum_probs=30.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      ..++|.|.+|+|||+|+..+++...  +.+-+.++++-+++.
T Consensus       154 Qr~~Ifgg~G~GKT~L~~~i~~~~~--~~~~~v~V~~~iGER  193 (482)
T 2ck3_D          154 GKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGER  193 (482)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT--TTCSSEEEEEEESCC
T ss_pred             CeeeeecCCCCChHHHHHHHHHhhH--hhCCCEEEEEECCCc
Confidence            4789999999999999999988641  334466777766644

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.61  E-value=0.0074  Score=51.69  Aligned_cols=26  Identities=23%  Similarity=0.394  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++++|+|++|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            44689999999999999999998765

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.60  E-value=0.0081  Score=51.40  Aligned_cols=26  Identities=31%  Similarity=0.602  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|+|+.|.||||+|+.+.+..
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999998864

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.60  E-value=0.0068  Score=52.69  Aligned_cols=24  Identities=21%  Similarity=0.379  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|++|+||||+|+.+++..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999987

>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=95.59  E-value=0.0081  Score=51.80  Aligned_cols=26  Identities=35%  Similarity=0.473  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ....+|+|+|+.|+||||+|+.+++.
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34578999999999999999999873

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.57  E-value=0.0097  Score=53.50  Aligned_cols=26  Identities=38%  Similarity=0.391  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|.|+|++|.||||+|+.++...
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45689999999999999999998876

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.57  E-value=0.0083  Score=58.20  Aligned_cols=43  Identities=26%  Similarity=0.209  Sum_probs=33.0

Q ss_pred             CCChhHHHHHHHHHhc--------------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--------------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--------------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||-++..+.+..++..              ...+-+.++|++|+|||++|++++...
T Consensus        18 vGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           18 IGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            5667777777666522              124569999999999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.57  E-value=0.0061  Score=52.42  Aligned_cols=24  Identities=29%  Similarity=0.484  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|++|+||||+|+.+++..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999876

>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=95.56  E-value=0.0052  Score=51.54  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|++|+||||+|+.+++..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999999876

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=95.55  E-value=0.012  Score=55.78  Aligned_cols=41  Identities=20%  Similarity=0.266  Sum_probs=31.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      +++.|+|.+|+||||||.+++... ..  .-..++|++....++
T Consensus        75 ~li~I~G~pGsGKTtlal~la~~~-~~--~g~~vlyi~~E~s~~  115 (366)
T 1xp8_A           75 RITEIYGPESGGKTTLALAIVAQA-QK--AGGTCAFIDAEHALD  115 (366)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH-HH--TTCCEEEEESSCCCC
T ss_pred             cEEEEEcCCCCChHHHHHHHHHHH-HH--CCCeEEEEECCCChh
Confidence            488999999999999999988765 11  123578888776544

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.54  E-value=0.0087  Score=56.60  Aligned_cols=92  Identities=13%  Similarity=0.139  Sum_probs=52.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC----------------CCcCccchhHHh--hhcCCcEEE
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS----------------KELKLETSQDDM--ILSTKKFLL   80 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~----------------~~~~~~~~~~~i--~l~~~~~Ll   80 (483)
                      -.+++|+|+.|.||||+.+.+........+  ..++.+.-.                .......+...+  .+...+=+|
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~~~--~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~Pdvi  200 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNTKY--HHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDII  200 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHHCC--CEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCCCC--cEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEE
Confidence            359999999999999999998765411100  111111100                001111222222  677788888


Q ss_pred             EEcCCCCccccccccCCCCCCCCCCEEEEecCChh
Q 038724           81 LLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEE  115 (483)
Q Consensus        81 vlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~  115 (483)
                      ++|++-+.+.+..+...   ...|.-+++|+....
T Consensus       201 llDEp~d~e~~~~~~~~---~~~G~~vl~t~H~~~  232 (356)
T 3jvv_A          201 LVGEMRDLETIRLALTA---AETGHLVFGTLHTTS  232 (356)
T ss_dssp             EESCCCSHHHHHHHHHH---HHTTCEEEEEESCSS
T ss_pred             ecCCCCCHHHHHHHHHH---HhcCCEEEEEEccCh
Confidence            99999765544433222   123566888877653

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.54  E-value=0.0098  Score=57.37  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|.|.+|+|||+|+.+++++.
T Consensus       153 r~~Ifgg~G~GKt~L~~~Ia~~~  175 (465)
T 3vr4_D          153 KLPVFSGSGLPHKELAAQIARQA  175 (465)
T ss_dssp             BCCEEECTTSCHHHHHHHHHHHC
T ss_pred             EEEEeCCCCcChHHHHHHHHHHH
Confidence            57899999999999999999877

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=95.53  E-value=0.019  Score=55.56  Aligned_cols=26  Identities=31%  Similarity=0.496  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|.++|.+|+||||++..++...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            36799999999999999999998877

>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=95.52  E-value=0.0076  Score=51.45  Aligned_cols=25  Identities=28%  Similarity=0.398  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|++|+||||+|+.+++..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998865

>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=95.51  E-value=0.0072  Score=52.25  Aligned_cols=21  Identities=38%  Similarity=0.597  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHh
Q 038724           21 IIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      +|+|+|+.|+||||+++.++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999987

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.51  E-value=0.0055  Score=51.91  Aligned_cols=24  Identities=38%  Similarity=0.501  Sum_probs=18.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|.|.|++|+||||+|+.+++..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999998876

>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=95.51  E-value=0.0068  Score=54.26  Aligned_cols=25  Identities=28%  Similarity=0.453  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++|.|++|+||||+++.+++..
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999765

>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=95.50  E-value=0.007  Score=53.31  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|+|++|.||||+|+.++...
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998865

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.50  E-value=0.019  Score=55.73  Aligned_cols=37  Identities=16%  Similarity=0.226  Sum_probs=28.9

Q ss_pred             HHHHHHHHhc---------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVK---------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++.+.+..         ...++|.++|.+|+||||++..++...
T Consensus        79 ~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           79 RNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             HHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455566543         236799999999999999999998877

>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=95.49  E-value=0.0082  Score=52.01  Aligned_cols=22  Identities=45%  Similarity=0.585  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      .+|+|+|+.|.||||+++.++.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>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=95.49  E-value=0.0078  Score=50.83  Aligned_cols=23  Identities=48%  Similarity=0.673  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|+|+.|+|||||++.++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998765

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.49  E-value=0.0054  Score=53.43  Aligned_cols=23  Identities=30%  Similarity=0.205  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.+.|.||+||||+|..++...
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l   30 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQ   30 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            58889999999999999988876

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.47  E-value=0.021  Score=58.41  Aligned_cols=41  Identities=17%  Similarity=0.192  Sum_probs=35.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.+..++.+...+..+  ..+.|+|++|+||||||+.++...
T Consensus        44 ~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           44 IGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             CSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            57788888888888876  489999999999999999999866

>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=95.47  E-value=0.0096  Score=51.62  Aligned_cols=25  Identities=36%  Similarity=0.554  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|+|++|.||||+|+.+....
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.47  E-value=0.0078  Score=50.16  Aligned_cols=23  Identities=26%  Similarity=0.252  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.47  E-value=0.0067  Score=50.89  Aligned_cols=21  Identities=33%  Similarity=0.558  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 038724           20 GIIGLFGTGGVGKTTILKQIN   40 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~   40 (483)
                      .+++|+|++|.|||||++.++
T Consensus        10 ei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHc
Confidence            589999999999999999854

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=95.45  E-value=0.065  Score=51.53  Aligned_cols=139  Identities=14%  Similarity=0.116  Sum_probs=96.9

Q ss_pred             ccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          295 WLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ...++.+.+..+ ++.+...  ..+..++.+.+..+. ..+....|.....++.+....+. +.  ...+..+.+|+.+.
T Consensus       229 ~~~l~~i~ip~~-~~~i~~~~f~~~~~l~~~~~~~~~-~~i~~~~F~~~~~l~~~~~~~~~-i~--~~~F~~~~~L~~i~  303 (394)
T 4fs7_A          229 KTGVKNIIIPDS-FTELGKSVFYGCTDLESISIQNNK-LRIGGSLFYNCSGLKKVIYGSVI-VP--EKTFYGCSSLTEVK  303 (394)
T ss_dssp             TCCCCEEEECTT-CCEECSSTTTTCSSCCEEEECCTT-CEECSCTTTTCTTCCEEEECSSE-EC--TTTTTTCTTCCEEE
T ss_pred             cCCCceEEECCC-ceecccccccccccceeEEcCCCc-ceeeccccccccccceeccCcee-ec--cccccccccccccc
Confidence            345666666543 3333322  467889999988763 45666668888899998887663 22  23577889999999


Q ss_pred             ccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc-----cccCCCCCcc
Q 038724          373 ISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL-----CSLCGLPTVQ  446 (483)
Q Consensus       373 l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l-----~~l~~l~~l~  446 (483)
                      +..+ +..++.. |.++++|+.+++.++ +..           .....|..+.+|+.+.+..+ +     .++.+..+|+
T Consensus       304 l~~~-i~~I~~~aF~~c~~L~~i~lp~~-v~~-----------I~~~aF~~c~~L~~i~lp~~-l~~I~~~aF~~C~~L~  369 (394)
T 4fs7_A          304 LLDS-VKFIGEEAFESCTSLVSIDLPYL-VEE-----------IGKRSFRGCTSLSNINFPLS-LRKIGANAFQGCINLK  369 (394)
T ss_dssp             ECTT-CCEECTTTTTTCTTCCEECCCTT-CCE-----------ECTTTTTTCTTCCEECCCTT-CCEECTTTBTTCTTCC
T ss_pred             cccc-cceechhhhcCCCCCCEEEeCCc-ccE-----------EhHHhccCCCCCCEEEECcc-ccEehHHHhhCCCCCC
Confidence            9654 7777665 888999999999765 222           22346788899999998765 3     3567778888


Q ss_pred             ccccee
Q 038724          447 CLTSRR  452 (483)
Q Consensus       447 ~l~l~~  452 (483)
                      .+++..
T Consensus       370 ~i~lp~  375 (394)
T 4fs7_A          370 KVELPK  375 (394)
T ss_dssp             EEEEEG
T ss_pred             EEEECC
Confidence            887754

>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=95.45  E-value=0.0076  Score=51.99  Aligned_cols=25  Identities=24%  Similarity=0.329  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...|+|.|++|+||||+|+.+++..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.44  E-value=0.008  Score=52.00  Aligned_cols=24  Identities=42%  Similarity=0.444  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|++|+||||+++.++...
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998755

>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=95.44  E-value=0.0089  Score=54.00  Aligned_cols=25  Identities=36%  Similarity=0.493  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|.|.|++|+||||+|+.++...
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999998864

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=95.40  E-value=0.011  Score=50.38  Aligned_cols=34  Identities=12%  Similarity=0.063  Sum_probs=15.6

Q ss_pred             cCCCEEeccCCCCCcc-----CccccCCcCCCEEecCCC
Q 038724          366 VSLQHLDISFTSTLEL-----PEELKALEKLKYLDMDDH  399 (483)
Q Consensus       366 ~~L~~L~l~~~~i~~l-----p~~~~~l~~L~~L~l~~n  399 (483)
                      +.|++|+|++|.|+.-     -..+..-+.|+.|+|++|
T Consensus        98 ~tL~~L~L~~N~Ig~~Ga~ala~aL~~N~tL~~L~L~n~  136 (197)
T 1pgv_A           98 PSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADNQ  136 (197)
T ss_dssp             SSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCCC
T ss_pred             CccCeEecCCCcCCHHHHHHHHHHHhhCCceeEEECCCC
Confidence            4455555555554331     122333345666666544

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.40  E-value=0.0095  Score=53.52  Aligned_cols=26  Identities=23%  Similarity=0.383  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|.|++|.||||+|+.+++..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998865

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.39  E-value=0.0084  Score=51.26  Aligned_cols=23  Identities=35%  Similarity=0.522  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|+.|+||||+|+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998865

>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=95.39  E-value=0.03  Score=51.41  Aligned_cols=56  Identities=11%  Similarity=-0.013  Sum_probs=37.8

Q ss_pred             HHHHHHHh----cC-CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc
Q 038724            8 YQVWRFLV----KK-DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL   64 (483)
Q Consensus         8 ~~l~~~l~----~~-~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~   64 (483)
                      .+|.+.|.    .+ ...++.|+|++|+||||||.+++... ...+.-..++|++....++.
T Consensus        12 ~~LD~~LGg~~~GGl~~GiteI~G~pGsGKTtL~Lq~~~~~-~~~g~g~~vlyId~E~s~~~   72 (333)
T 3io5_A           12 PMMNIALSGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSY-MRQYPDAVCLFYDSEFGITP   72 (333)
T ss_dssp             HHHHHHHHSSTTCCBCSEEEEEEESSSSSHHHHHHHHHHHH-HHHCTTCEEEEEESSCCCCH
T ss_pred             HHHHHHhCCCCCCCCcCCeEEEECCCCCCHHHHHHHHHHHH-HhcCCCceEEEEeccchhhH
Confidence            34555665    22 22378999999999999999987765 21111346889987766654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.38  E-value=0.0066  Score=52.32  Aligned_cols=24  Identities=33%  Similarity=0.517  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++++|+|++|+|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            579999999999999999998755

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.38  E-value=0.0084  Score=52.38  Aligned_cols=23  Identities=39%  Similarity=0.520  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|.|++|+||||+|+.++++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998866

>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=95.37  E-value=0.0089  Score=52.22  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|.|++|+||||+|+.++++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.34  E-value=0.01  Score=51.59  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|+|+.|.|||||++.++...
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998865

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.34  E-value=0.0084  Score=52.13  Aligned_cols=25  Identities=24%  Similarity=0.161  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|+.|+||||+|+.+++..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999999876

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.33  E-value=0.042  Score=52.72  Aligned_cols=43  Identities=16%  Similarity=0.263  Sum_probs=30.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCC----CCCCEEEEEEeCCCcC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSER----PGFDVVIWVVVSKELK   63 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~----~~f~~~~~v~~~~~~~   63 (483)
                      .++.|+|++|+|||||+..++-.. ...    +.-..++|++....+.
T Consensus       179 ei~~I~G~sGsGKTTLl~~la~~~-~~p~~~Gg~~~~viyid~E~~~~  225 (400)
T 3lda_A          179 SITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFR  225 (400)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCC
T ss_pred             cEEEEEcCCCCChHHHHHHHHHHh-ccCcccCCCCCcEEEEeCCCccC
Confidence            489999999999999999775332 111    1235688887766544

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=95.32  E-value=0.031  Score=54.52  Aligned_cols=50  Identities=30%  Similarity=0.454  Sum_probs=34.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-ccchhHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-LETSQDDM   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-~~~~~~~i   71 (483)
                      ..++|.|.+|+|||+|+..++++.  .+.+-+.++++-+++... ..++.+++
T Consensus       166 qr~gIfgg~GvGKT~L~~~l~~~~--a~~~~~v~V~~~iGER~rEv~e~~~~~  216 (498)
T 1fx0_B          166 GKIGLFGGAGVGKTVLIMELINNI--AKAHGGVSVFGGVGERTREGNDLYMEM  216 (498)
T ss_dssp             CCEEEEECSSSSHHHHHHHHHHHT--TTTCSSCEEEEEESCCSHHHHHHHHHH
T ss_pred             CeEEeecCCCCCchHHHHHHHHHH--HhhCCCEEEEEEcccCcHHHHHHHHhh
Confidence            478999999999999999998864  133456777776665432 33444333

>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=95.28  E-value=0.031  Score=52.18  Aligned_cols=48  Identities=19%  Similarity=0.306  Sum_probs=35.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCcCccchh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKELKLETSQ   68 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~~~~~~~   68 (483)
                      .++.|+|++|+|||++|.+++... ....    .-..++|++....++..++.
T Consensus       108 ~i~~i~G~~GsGKT~la~~la~~~-~~~~~~gg~~~~vlyi~~e~~~~~~~l~  159 (324)
T 2z43_A          108 TMTEFFGEFGSGKTQLCHQLSVNV-QLPPEKGGLSGKAVYIDTEGTFRWERIE  159 (324)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCHHHHH
T ss_pred             cEEEEECCCCCCHhHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHH
Confidence            589999999999999999998764 1110    13468899888766554443

>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=95.26  E-value=0.0093  Score=51.96  Aligned_cols=25  Identities=24%  Similarity=0.315  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|+.|+||||+|+.+++..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999999876

>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=95.25  E-value=0.014  Score=50.94  Aligned_cols=39  Identities=21%  Similarity=0.191  Sum_probs=29.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKL   64 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~   64 (483)
                      .++.|+|++|+||||||..++. .     .-..++|++.......
T Consensus        21 ~~~~i~G~~GsGKTtl~~~l~~-~-----~~~~v~~i~~~~~~~~   59 (220)
T 2cvh_A           21 VLTQVYGPYASGKTTLALQTGL-L-----SGKKVAYVDTEGGFSP   59 (220)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH-H-----HCSEEEEEESSCCCCH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH-H-----cCCcEEEEECCCCCCH
Confidence            4899999999999999999987 2     1245778876654433

>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=95.24  E-value=0.018  Score=50.02  Aligned_cols=27  Identities=22%  Similarity=0.294  Sum_probs=23.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|.|++|+||||+|+.++...
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            345789999999999999999998866

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.24  E-value=0.01  Score=52.35  Aligned_cols=24  Identities=29%  Similarity=0.433  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|.|++|+||||+|+.+++..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999998865

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=95.21  E-value=0.052  Score=51.85  Aligned_cols=105  Identities=12%  Similarity=0.121  Sum_probs=78.7

Q ss_pred             cccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCC
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQ  369 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~  369 (483)
                      +.....|+.+.+..+ ++.+...  ..+.+|+.+.+..+ +..++...|..+.+|+.+.+.++.+...-+..|.++.+|+
T Consensus       236 f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~-i~~i~~~aF~~c~~L~~i~l~~~~i~~I~~~aF~~c~~L~  313 (379)
T 4h09_A          236 FYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAK-VKTVPYLLCSGCSNLTKVVMDNSAIETLEPRVFMDCVKLS  313 (379)
T ss_dssp             TTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCC-CSEECTTTTTTCTTCCEEEECCTTCCEECTTTTTTCTTCC
T ss_pred             ccCCccceEEEcCCC-ccEeCccccceeehhcccccccc-ceeccccccccccccccccccccccceehhhhhcCCCCCC
Confidence            345566777777654 4444433  46788999998754 6777888899999999999988754444456788999999


Q ss_pred             EEeccCCCCCccCcc-ccCCcCCCEEecCCC
Q 038724          370 HLDISFTSTLELPEE-LKALEKLKYLDMDDH  399 (483)
Q Consensus       370 ~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n  399 (483)
                      .+.+..+ ++.++.. |.++++|+.+.+..+
T Consensus       314 ~i~lp~~-l~~I~~~aF~~C~~L~~i~ip~~  343 (379)
T 4h09_A          314 SVTLPTA-LKTIQVYAFKNCKALSTISYPKS  343 (379)
T ss_dssp             EEECCTT-CCEECTTTTTTCTTCCCCCCCTT
T ss_pred             EEEcCcc-ccEEHHHHhhCCCCCCEEEECCc
Confidence            9999644 7777765 888999999988654

>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=95.18  E-value=0.01  Score=52.04  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|.|++|+||||+|+.+++..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            578999999999999999999876

>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=95.16  E-value=0.029  Score=49.31  Aligned_cols=41  Identities=27%  Similarity=0.362  Sum_probs=28.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhccc--CCC-CCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCS--ERP-GFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~--~~~-~f~~~~~v~~~~   60 (483)
                      .+++|+|++|+|||||++.++.....  ... ....++|+....
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~   69 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   69 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCC
Confidence            59999999999999999999864311  011 234567776443

>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=95.16  E-value=0.011  Score=51.09  Aligned_cols=24  Identities=29%  Similarity=0.274  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|.|+.|+||||+++.+++..
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998865

>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=95.13  E-value=0.011  Score=49.16  Aligned_cols=25  Identities=20%  Similarity=0.286  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++++|+|+.|+||||++.++....
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998876

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=95.11  E-value=0.012  Score=51.12  Aligned_cols=24  Identities=29%  Similarity=0.595  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+.|+|||||++.++.-.
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            489999999999999999998765

>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=95.10  E-value=0.048  Score=51.31  Aligned_cols=49  Identities=14%  Similarity=0.160  Sum_probs=35.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCcCccchh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKELKLETSQ   68 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~~~~~~~   68 (483)
                      -.++.|+|++|+|||+||.+++... ....    .-..++|++....++..++.
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~-~~~~~~gg~~~~vlyi~~E~~~~~~~l~  174 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTA-QLPGAGGYPGGKIIFIDTENTFRPDRLR  174 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHT-TSCBTTTBCCCEEEEEESSSCCCHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHH
Confidence            3689999999999999999998764 1111    23468899888766554443

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=95.09  E-value=0.0097  Score=62.18  Aligned_cols=61  Identities=20%  Similarity=0.335  Sum_probs=39.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC------Cc-CccchhHHh---hhcCCcEEEEEcCCCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK------EL-KLETSQDDM---ILSTKKFLLLLDDLWE   87 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~------~~-~~~~~~~~i---~l~~~~~LlvlDdv~~   87 (483)
                      .+-|.++|++|.|||.+|+++++..   ...     ++.++.      .. .......++   +-+..+++|+||+++.
T Consensus       511 ~~gvLl~GPPGtGKT~lAkaiA~e~---~~~-----f~~v~~~~l~s~~vGese~~vr~lF~~Ar~~~P~IifiDEiDs  581 (806)
T 3cf2_A          511 SKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDS  581 (806)
T ss_dssp             CSCCEEESSTTSSHHHHHHHHHHTT---TCE-----EEECCHHHHHTTTCSSCHHHHHHHHHHHHTTCSEEEECSCGGG
T ss_pred             CceEEEecCCCCCchHHHHHHHHHh---CCc-----eEEeccchhhccccchHHHHHHHHHHHHHHcCCceeechhhhH
Confidence            3458899999999999999999976   221     222221      11 011122222   4567899999999964

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.09  E-value=0.016  Score=53.87  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|.|++|+||||+|+.+....
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45699999999999999999998765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.09  E-value=0.012  Score=52.89  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|+.|.||||+++.+++..
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999999999999765

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.06  E-value=0.013  Score=54.61  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|+.|+||||||..++...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999999876

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=95.05  E-value=0.014  Score=56.29  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|.+|+|||+|+.+++++.
T Consensus       148 Qr~~Ifgg~G~GKt~L~~~Ia~~~  171 (464)
T 3gqb_B          148 QKLPIFSGSGLPANEIAAQIARQA  171 (464)
T ss_dssp             CBCCEEEETTSCHHHHHHHHHHHC
T ss_pred             CEEEEecCCCCCchHHHHHHHHHH
Confidence            357899999999999999999876

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=95.01  E-value=0.012  Score=51.52  Aligned_cols=24  Identities=13%  Similarity=0.289  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|+|||||.+.+....
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            589999999999999999998765

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=94.99  E-value=0.013  Score=50.69  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.|.|++|+||+|.|+.+++++
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57889999999999999999876

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.99  E-value=0.017  Score=57.08  Aligned_cols=41  Identities=15%  Similarity=-0.027  Sum_probs=31.4

Q ss_pred             ChhHHHHHHHHHh--cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            3 NPKQFYQVWRFLV--KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         3 r~~~~~~l~~~l~--~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |++..+.+.+...  .....+|.+.|++|.||||+|++++++.
T Consensus       377 rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          377 YPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             CHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            4555556666552  2244689999999999999999999988

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=94.98  E-value=0.027  Score=53.38  Aligned_cols=35  Identities=26%  Similarity=0.452  Sum_probs=26.9

Q ss_pred             HHHHHHh--cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            9 QVWRFLV--KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         9 ~l~~~l~--~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.+.+.  .....+|+|+|.+|+||||++..++...
T Consensus        67 ~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           67 QLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444443  3466799999999999999999987654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.97  E-value=0.044  Score=54.21  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|+|.+|+||||++.+++...
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998766

>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=94.96  E-value=0.016  Score=47.78  Aligned_cols=26  Identities=27%  Similarity=0.331  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-.+++|.|+.|.|||||++.++.-.
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34699999999999999999998765

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=94.93  E-value=0.016  Score=53.78  Aligned_cols=27  Identities=30%  Similarity=0.353  Sum_probs=23.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+|+|.|+.|.|||||++.++.-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            345699999999999999999998765

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.93  E-value=0.016  Score=53.24  Aligned_cols=24  Identities=25%  Similarity=0.483  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|+.|+||||||..+++..
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhC
Confidence            589999999999999999998865

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.93  E-value=0.015  Score=53.82  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|+|+|+.|+||||||..++++.
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999999876

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=94.92  E-value=0.021  Score=55.75  Aligned_cols=62  Identities=27%  Similarity=0.356  Sum_probs=42.4

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhcccCCCCCCE-EEEEEeCCCc-CccchhHHh-------------------------
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCSERPGFDV-VIWVVVSKEL-KLETSQDDM-------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~~~~~f~~-~~~v~~~~~~-~~~~~~~~i-------------------------   71 (483)
                      ..++|.|.+|+|||+|| ..+++..     .-+. ++++-+++.. ...++.+++                         
T Consensus       176 QR~~I~g~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~  250 (515)
T 2r9v_A          176 QRELIIGDRQTGKTAIAIDTIINQK-----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYI  250 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTTT-----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHH
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHH
Confidence            46899999999999996 5777754     2343 4566665443 233444333                         


Q ss_pred             ------------hhcCCcEEEEEcCCC
Q 038724           72 ------------ILSTKKFLLLLDDLW   86 (483)
Q Consensus        72 ------------~l~~~~~LlvlDdv~   86 (483)
                                  .-+++.+|+++||+.
T Consensus       251 a~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          251 APYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEeccHH
Confidence                        346899999999974

>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=94.92  E-value=0.016  Score=48.86  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|+|+.|.||||+++.++...
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999999998865

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.92  E-value=0.013  Score=51.53  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|.|.|++|+||||+|+.+++..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999999876

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=94.91  E-value=0.0067  Score=52.86  Aligned_cols=23  Identities=30%  Similarity=0.717  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.91  E-value=0.012  Score=51.63  Aligned_cols=24  Identities=38%  Similarity=0.618  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|+|||||++.++...
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            589999999999999999998754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.90  E-value=0.017  Score=51.62  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+|+|.|+.|.|||||++.++...
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998754

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.89  E-value=0.017  Score=52.81  Aligned_cols=24  Identities=29%  Similarity=0.685  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHh
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      ...+|+|+|++|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999983

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.88  E-value=0.016  Score=53.82  Aligned_cols=24  Identities=25%  Similarity=0.555  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|+.|+||||||..++++.
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHC
Confidence            589999999999999999999866

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.87  E-value=0.018  Score=65.78  Aligned_cols=66  Identities=15%  Similarity=0.110  Sum_probs=44.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCcc---------------------chhHHh---hh
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLE---------------------TSQDDM---IL   73 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~---------------------~~~~~i---~l   73 (483)
                      ..+.|.|+|++|+|||+||.+++....   ..-..+.|+++...++..                     +....+   .-
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~---~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr 1502 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1502 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHh
Confidence            346999999999999999999988762   222346677665443111                     122222   33


Q ss_pred             cCCcEEEEEcCCC
Q 038724           74 STKKFLLLLDDLW   86 (483)
Q Consensus        74 ~~~~~LlvlDdv~   86 (483)
                      +.+..+||+|.+.
T Consensus      1503 ~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1503 SGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HTCCSEEEESCGG
T ss_pred             cCCCCEEEEcChh
Confidence            4778899999994

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.85  E-value=0.03  Score=52.10  Aligned_cols=38  Identities=18%  Similarity=0.212  Sum_probs=29.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      .++.|.|.+|+||||+|..++... ...+  ..++|++...
T Consensus        69 ~l~li~G~pG~GKTtl~l~ia~~~-a~~g--~~vl~~slE~  106 (315)
T 3bh0_A           69 NFVLIAARPSMGKTAFALKQAKNM-SDND--DVVNLHSLEM  106 (315)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH-HTTT--CEEEEEESSS
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH-HHcC--CeEEEEECCC
Confidence            589999999999999999998766 2222  5688887653

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=94.84  E-value=0.015  Score=51.24  Aligned_cols=24  Identities=17%  Similarity=0.461  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|+|.|++|.||||+|+.+++..
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            489999999999999999999876

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.82  E-value=0.017  Score=49.10  Aligned_cols=25  Identities=24%  Similarity=0.187  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -+.|.|.|++|+||||||.+++++.
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3578999999999999999998764

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.80  E-value=0.023  Score=55.41  Aligned_cols=62  Identities=29%  Similarity=0.388  Sum_probs=41.9

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhcccCCCCCCE-EEEEEeCCCc-CccchhHHh-------------------------
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCSERPGFDV-VIWVVVSKEL-KLETSQDDM-------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~~~~~f~~-~~~v~~~~~~-~~~~~~~~i-------------------------   71 (483)
                      ..++|.|.+|+|||+|| ..+++..     +-+. ++++-+++.. ...++.+++                         
T Consensus       163 QR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~  237 (502)
T 2qe7_A          163 QRELIIGDRQTGKTTIAIDTIINQK-----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYL  237 (502)
T ss_dssp             CBCEEEECSSSCHHHHHHHHHHGGG-----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHH
T ss_pred             CEEEEECCCCCCchHHHHHHHHHhh-----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHH
Confidence            46899999999999995 5777765     2343 4566555433 233444333                         


Q ss_pred             ------------hhcCCcEEEEEcCCC
Q 038724           72 ------------ILSTKKFLLLLDDLW   86 (483)
Q Consensus        72 ------------~l~~~~~LlvlDdv~   86 (483)
                                  .-+++.+|+++||+.
T Consensus       238 a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          238 APYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence                        346899999999974

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.79  E-value=0.018  Score=50.27  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      ..+|+|.|+.|.||||+++.++.
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999976

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=94.77  E-value=0.016  Score=50.12  Aligned_cols=23  Identities=17%  Similarity=0.489  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|+.|+||||+|+.++...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999998876

>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=94.76  E-value=0.016  Score=50.53  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998866

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.75  E-value=0.016  Score=50.67  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|.|.|++|+||||+|+.+++..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999876

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.72  E-value=0.016  Score=50.84  Aligned_cols=23  Identities=30%  Similarity=0.541  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|.|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998876

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.69  E-value=0.027  Score=52.50  Aligned_cols=26  Identities=31%  Similarity=0.457  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++|+|+.|+||||+++.++...
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998766

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.69  E-value=0.0093  Score=54.76  Aligned_cols=26  Identities=27%  Similarity=0.525  Sum_probs=20.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|.|+.|+||||+|+.+.+..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999998865

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.68  E-value=0.013  Score=52.37  Aligned_cols=24  Identities=33%  Similarity=0.376  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|+|++|.||||+++.++...
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhc
Confidence            489999999999999999999876

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.67  E-value=0.02  Score=52.45  Aligned_cols=26  Identities=23%  Similarity=0.250  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|.|+.|+||||||..+++..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35689999999999999999999865

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=94.66  E-value=0.022  Score=55.67  Aligned_cols=62  Identities=18%  Similarity=0.327  Sum_probs=41.1

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhcccCCCCCC-EEEEEEeCCCcC-ccchhHHh-------------------------
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCSERPGFD-VVIWVVVSKELK-LETSQDDM-------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~~~~~f~-~~~~v~~~~~~~-~~~~~~~i-------------------------   71 (483)
                      ..++|.|.+|+|||+|| ..+++..   .  -+ .++++-+++... ..++.+++                         
T Consensus       164 QR~~Ifg~~g~GKT~Lal~~I~~~~---~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~  238 (507)
T 1fx0_A          164 QRELIIGDRQTGKTAVATDTILNQQ---G--QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  238 (507)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCC---T--TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CEEEEecCCCCCccHHHHHHHHHhh---c--CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHH
Confidence            36799999999999995 5777754   2  33 345565554332 33333333                         


Q ss_pred             ------------hhcCCcEEEEEcCCC
Q 038724           72 ------------ILSTKKFLLLLDDLW   86 (483)
Q Consensus        72 ------------~l~~~~~LlvlDdv~   86 (483)
                                  .-+++.+|+++||+.
T Consensus       239 a~~~a~tiAEyfrd~G~dVLli~Dslt  265 (507)
T 1fx0_A          239 APYTGAALAEYFMYRERHTLIIYDDLS  265 (507)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence                        346999999999973

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.64  E-value=0.02  Score=50.94  Aligned_cols=39  Identities=23%  Similarity=0.175  Sum_probs=28.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      .++.|.|++|+||||||.+++....   ..-..++|++....
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~~---~~~~~v~~~~~e~~   62 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNGL---KMGEPGIYVALEEH   62 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHH---HTTCCEEEEESSSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEccCC
Confidence            4899999999999999998876551   12235778876543

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=94.60  E-value=0.045  Score=53.93  Aligned_cols=38  Identities=26%  Similarity=0.359  Sum_probs=29.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      ..++|.|..|+|||+|+.++++..     +-+.++++-+++..
T Consensus       228 qr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~  265 (588)
T 3mfy_A          228 GTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERG  265 (588)
T ss_dssp             CEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSS
T ss_pred             CeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccH
Confidence            478999999999999999998864     23467777666543

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=94.60  E-value=0.011  Score=50.59  Aligned_cols=111  Identities=13%  Similarity=0.091  Sum_probs=68.0

Q ss_pred             hhcCCCccEEEccCC-ccCc----cCCcccccCcCCCEEeccCCCCCcc-----CccccCCcCCCEEecCCCCCcCCCCC
Q 038724          338 FQFMPCLKVLNLSYN-RFLT----KLPSGISKLVSLQHLDISFTSTLEL-----PEELKALEKLKYLDMDDHQQVMEEGN  407 (483)
Q Consensus       338 ~~~l~~L~~L~l~~n-~~~~----~~p~~~~~l~~L~~L~l~~~~i~~l-----p~~~~~l~~L~~L~l~~n~~~~~p~~  407 (483)
                      +..-+.|+.|+|++| .+..    .+-+.+..-+.|+.|+|++|.++.-     -..+..-+.|++|+|++|.+...   
T Consensus        37 l~~n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~ga~alA~aL~~N~tL~~L~L~~N~Ig~~---  113 (197)
T 1pgv_A           37 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPE---  113 (197)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHH---
T ss_pred             HhcCCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChHHHHHHHHHHhcCCccCeEecCCCcCCHH---
Confidence            344566777777764 3221    1223445557788888888887642     23345557899999999996421   


Q ss_pred             CCCccchhhHhhhccccccccceeecc---Cc---------cccCCCCCcccccceeeee
Q 038724          408 CQSDDAESLLKEMLCLEQLNIIRLTSC---SL---------CSLCGLPTVQCLTSRRLNL  455 (483)
Q Consensus       408 ~~l~~~~~~~~~l~~l~~L~~L~l~~~---~l---------~~l~~l~~l~~l~l~~~~~  455 (483)
                          ....+.+.+..=+.|+.|++++|   .+         ..+..-+.|..|+++.+.+
T Consensus       114 ----Ga~ala~aL~~N~tL~~L~L~n~~~~~ig~~g~~~ia~aL~~N~tL~~L~l~~~~~  169 (197)
T 1pgv_A          114 ----LLARLLRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFASM  169 (197)
T ss_dssp             ----HHHHHHHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCCCH
T ss_pred             ----HHHHHHHHHhhCCceeEEECCCCcCcCcCHHHHHHHHHHHHhCCCcCeEeccCCCc
Confidence                11234445666678999999865   33         1234445666776655443

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.58  E-value=0.04  Score=51.01  Aligned_cols=26  Identities=27%  Similarity=0.312  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|+|+.|.|||||++.+....
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            44699999999999999999998765

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=94.58  E-value=0.021  Score=55.39  Aligned_cols=66  Identities=15%  Similarity=0.203  Sum_probs=43.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCC-CCCEEEEEEeCCCc-CccchhHHh--------------------------
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERP-GFDVVIWVVVSKEL-KLETSQDDM--------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~-~f~~~~~v~~~~~~-~~~~~~~~i--------------------------   71 (483)
                      ..++|.|.+|+|||+|+..++++...... .-+.++++-+++.. ...++.+++                          
T Consensus       153 Qr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~~  232 (469)
T 2c61_A          153 QKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVT  232 (469)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHHH
Confidence            36788999999999999999998721111 11345666555433 233444333                          


Q ss_pred             -----------h-hcCCcEEEEEcCC
Q 038724           72 -----------I-LSTKKFLLLLDDL   85 (483)
Q Consensus        72 -----------~-l~~~~~LlvlDdv   85 (483)
                                 . -+++.+|+++||+
T Consensus       233 ~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          233 PRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence                       3 3689999999997

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.58  E-value=0.019  Score=53.05  Aligned_cols=25  Identities=28%  Similarity=0.551  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++|+|++|+||||+++.++...
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            4699999999999999999998766

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=94.56  E-value=0.02  Score=48.01  Aligned_cols=25  Identities=28%  Similarity=0.509  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++++|+|++|+|||||++.+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998765

>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=94.51  E-value=0.02  Score=50.73  Aligned_cols=24  Identities=29%  Similarity=0.385  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|.|.|++|+||||+|+.+++..
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999999876

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=94.51  E-value=0.027  Score=47.89  Aligned_cols=24  Identities=42%  Similarity=0.441  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|.|++..|.||||.|-..+-+.
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA   52 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARA   52 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            466677777799999999888776

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.51  E-value=0.017  Score=49.17  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++|+|+.|+|||||++.++...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            68999999999999999998876

>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=94.51  E-value=0.033  Score=51.04  Aligned_cols=24  Identities=25%  Similarity=0.601  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|-||+||||+|..++...
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~L   26 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHH
Confidence            678889999999999999998876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.50  E-value=0.014  Score=51.68  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=16.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH-hhc
Q 038724           20 GIIGLFGTGGVGKTTILKQIN-NRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~-~~~   43 (483)
                      .+++|+|+.|+|||||++.++ ...
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC---
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            589999999999999999998 543

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.50  E-value=0.092  Score=42.97  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      --|+|+|.+|+|||||..++....
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999999987654

>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=94.46  E-value=0.067  Score=49.87  Aligned_cols=51  Identities=16%  Similarity=0.219  Sum_probs=35.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhccc-----------CCCCC--CEEEEEEeCCCcCccchhH
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCS-----------ERPGF--DVVIWVVVSKELKLETSQD   69 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~-----------~~~~f--~~~~~v~~~~~~~~~~~~~   69 (483)
                      -.++.|+|.+|+|||++|.+++.....           ..+..  ..++|++....++..++..
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~  161 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ  161 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH
Confidence            368999999999999999998865300           01111  4688998887765554443

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=94.41  E-value=0.034  Score=54.15  Aligned_cols=63  Identities=19%  Similarity=0.198  Sum_probs=42.6

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhcccCCCCCCEEEEEEeCCCcC-ccchhHHh--------------------------
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCSERPGFDVVIWVVVSKELK-LETSQDDM--------------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~~~~~f~~~~~v~~~~~~~-~~~~~~~i--------------------------   71 (483)
                      ..++|.|..|+|||+|| ..++++.    ..-..++++-+++... ..++.+++                          
T Consensus       163 QR~~Ifg~~g~GKT~l~l~~I~n~~----~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~a  238 (513)
T 3oaa_A          163 QRELIIGDRQTGKTALAIDAIINQR----DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLA  238 (513)
T ss_dssp             CBCEEEESSSSSHHHHHHHHHHTTS----SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHHH
T ss_pred             CEEEeecCCCCCcchHHHHHHHhhc----cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHHH
Confidence            46899999999999996 5676643    2222356776665432 33444443                          


Q ss_pred             -----------hhcCCcEEEEEcCCC
Q 038724           72 -----------ILSTKKFLLLLDDLW   86 (483)
Q Consensus        72 -----------~l~~~~~LlvlDdv~   86 (483)
                                 .-+++.+|+++||+.
T Consensus       239 ~~~a~tiAEyfrd~G~dVLli~Dslt  264 (513)
T 3oaa_A          239 PYAGCAMGEYFRDRGEDALIIYDDLS  264 (513)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHhcCCCEEEEecChH
Confidence                       346899999999984

>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=94.35  E-value=0.039  Score=51.59  Aligned_cols=49  Identities=22%  Similarity=0.238  Sum_probs=34.1

Q ss_pred             HHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724           12 RFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus        12 ~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      ..+.+...+++.+.|-||+||||+|..++... .  ..-..++-++.....+
T Consensus         9 ~~l~~~~~~i~~~sgkGGvGKTt~a~~lA~~l-a--~~g~~vllid~D~~~~   57 (334)
T 3iqw_A            9 SILDQRSLRWIFVGGKGGVGKTTTSCSLAIQL-A--KVRRSVLLLSTDPAHN   57 (334)
T ss_dssp             HHHHCTTCCEEEEECSTTSSHHHHHHHHHHHH-T--TSSSCEEEEECCSSCH
T ss_pred             HHhcCCCeEEEEEeCCCCccHHHHHHHHHHHH-H--hCCCcEEEEECCCCCC
Confidence            34455556788899999999999999998877 2  2223456666554433

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.33  E-value=0.021  Score=50.21  Aligned_cols=33  Identities=18%  Similarity=0.340  Sum_probs=25.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||.+.++.-.    ....+.+++
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl~----~p~~G~i~~   63 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLLD----APTEGKVFL   63 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            489999999999999999997644    233455544

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.32  E-value=0.024  Score=52.25  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .+|.|.|++|+||||+|+.++++
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.32  E-value=0.021  Score=55.40  Aligned_cols=26  Identities=19%  Similarity=0.281  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|.|+|++|.||||+|+.++++.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998765

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=94.30  E-value=0.021  Score=50.53  Aligned_cols=33  Identities=21%  Similarity=0.398  Sum_probs=25.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||++.++.-.    ....+.+++
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl~----~p~~G~I~~   64 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCLD----KPTEGEVYI   64 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC----CCCceEEEE
Confidence            489999999999999999997644    233455554

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.28  E-value=0.13  Score=42.19  Aligned_cols=24  Identities=29%  Similarity=0.498  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      --|+|+|.+|+|||||...+....
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999998654

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.27  E-value=0.014  Score=48.74  Aligned_cols=24  Identities=29%  Similarity=0.491  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|.+|.|||||++.+..-.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998766

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.26  E-value=0.046  Score=50.81  Aligned_cols=26  Identities=38%  Similarity=0.622  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++|+|++|+||||++..++...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999998766

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.24  E-value=0.025  Score=50.23  Aligned_cols=33  Identities=21%  Similarity=0.225  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|.|+.|.|||||.+.++.-.    ....+.+++
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~----~p~~G~i~~   57 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV----KPDRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            689999999999999999998754    223455554

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.23  E-value=0.033  Score=52.41  Aligned_cols=50  Identities=18%  Similarity=0.207  Sum_probs=33.2

Q ss_pred             HHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           11 WRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        11 ~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      ...+.....+++.+.|-||+||||+|..++... .....-..++-++....
T Consensus        10 ~~~l~~~~~~i~~~~gkGGvGKTt~a~~lA~~l-a~~~~g~~vllid~D~~   59 (348)
T 3io3_A           10 ESIVQHDSLKWIFVGGKGGVGKTTTSSSVAVQL-ALAQPNEQFLLISTDPA   59 (348)
T ss_dssp             HHHHTCTTCSEEEEECSTTSSHHHHHHHHHHHH-HHHCTTSCEEEEECCSS
T ss_pred             HHHhcCCCcEEEEEeCCCCCcHHHHHHHHHHHH-HHhcCCCeEEEEECCCC
Confidence            344555566899999999999999999998776 20022223555555433

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=94.21  E-value=0.042  Score=53.16  Aligned_cols=25  Identities=36%  Similarity=0.391  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|.++|++|+||||++..++...
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999998776

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.19  E-value=0.037  Score=50.44  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++.|+|++|+|||||+..++...
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            489999999999999999988654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.18  E-value=0.021  Score=49.45  Aligned_cols=23  Identities=26%  Similarity=0.270  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .+++|.|+.|.|||||++.++.-
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            38999999999999999998764

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=94.15  E-value=0.051  Score=48.65  Aligned_cols=36  Identities=31%  Similarity=0.374  Sum_probs=28.0

Q ss_pred             HHHHHHHhcC-C-eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            8 YQVWRFLVKK-D-VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         8 ~~l~~~l~~~-~-~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+..++... . ...+.++|++|.|||.+|.++++..
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            3456666654 2 3479999999999999999999854

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=94.14  E-value=0.051  Score=53.75  Aligned_cols=37  Identities=30%  Similarity=0.436  Sum_probs=28.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      ..++|.|..|+|||+|+.++++..     +-+.++++-+++.
T Consensus       233 qr~~Ifgg~g~GKT~L~~~ia~~~-----~~~v~V~~~iGER  269 (600)
T 3vr4_A          233 GAAAVPGPFGAGKTVVQHQIAKWS-----DVDLVVYVGCGER  269 (600)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEEC
T ss_pred             CEEeeecCCCccHHHHHHHHHhcc-----CCCEEEEEEeccc
Confidence            478999999999999999999865     2345666655543

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.14  E-value=0.024  Score=52.12  Aligned_cols=25  Identities=40%  Similarity=0.519  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++|+|++|+||||++..++...
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999998766

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.12  E-value=0.048  Score=51.44  Aligned_cols=25  Identities=36%  Similarity=0.578  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++|+|+.|+||||+++.++...
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhc
Confidence            4699999999999999999998876

>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=94.08  E-value=0.046  Score=51.69  Aligned_cols=30  Identities=33%  Similarity=0.325  Sum_probs=23.2

Q ss_pred             HhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           14 LVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        14 l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +......++.+.|-||+||||+|..++...
T Consensus        13 ~~~~~~~i~v~sgKGGvGKTTvaanLA~~l   42 (354)
T 2woj_A           13 ITSTTHKWIFVGGKGGVGKTTSSCSIAIQM   42 (354)
T ss_dssp             HTCSSCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            333344567777999999999999988776

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.07  E-value=0.033  Score=51.38  Aligned_cols=25  Identities=36%  Similarity=0.578  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++|+|+.|+||||+++.++...
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999998876

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.04  E-value=0.029  Score=49.38  Aligned_cols=24  Identities=29%  Similarity=0.261  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|++|+|||||++.++...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998654

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=94.03  E-value=0.026  Score=50.03  Aligned_cols=24  Identities=21%  Similarity=0.552  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|.|||||++.++.-.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            489999999999999999997644

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.03  E-value=0.032  Score=51.49  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++|+|++|+||||++..++...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            35699999999999999999998876

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=94.03  E-value=0.036  Score=54.20  Aligned_cols=67  Identities=21%  Similarity=0.195  Sum_probs=43.1

Q ss_pred             EEEEEEcCCCCcHHHHH-HHHHhhccc---CCCCCC-EEEEEEeCCCc-CccchhHHh----------------------
Q 038724           20 GIIGLFGTGGVGKTTIL-KQINNRFCS---ERPGFD-VVIWVVVSKEL-KLETSQDDM----------------------   71 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa-~~~~~~~~~---~~~~f~-~~~~v~~~~~~-~~~~~~~~i----------------------   71 (483)
                      ..++|.|.+|+|||+|| ..+++....   ..++-+ .++++-+++.. ...++.+++                      
T Consensus       163 QR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~  242 (510)
T 2ck3_A          163 QRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPL  242 (510)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHH
T ss_pred             CEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHHH
Confidence            46899999999999995 567666510   012233 35666666543 233444433                      


Q ss_pred             ---------------hhcCCcEEEEEcCCC
Q 038724           72 ---------------ILSTKKFLLLLDDLW   86 (483)
Q Consensus        72 ---------------~l~~~~~LlvlDdv~   86 (483)
                                     .-+++.+|+++||+.
T Consensus       243 r~~a~~~a~tiAEyfrd~G~dVLli~Dslt  272 (510)
T 2ck3_A          243 QYLAPYSGCSMGEYFRDNGKHALIIYDDLS  272 (510)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEEcCHH
Confidence                           346899999999974

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=94.01  E-value=0.13  Score=43.17  Aligned_cols=24  Identities=25%  Similarity=0.383  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      --|+|+|.+|+|||||...+....
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            358999999999999999998654

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=93.99  E-value=0.026  Score=51.18  Aligned_cols=33  Identities=24%  Similarity=0.426  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||++.++--.    ....+.+++
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl~----~p~~G~I~~   67 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGIL----KPSSGRILF   67 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC----CCCCeEEEE
Confidence            489999999999999999997644    234555555

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.98  E-value=0.027  Score=50.83  Aligned_cols=33  Identities=33%  Similarity=0.438  Sum_probs=25.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||.+.++.-.    ....+.+++
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl~----~p~~G~i~~   65 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFLE----KPSEGAIIV   65 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC----CCCCcEEEE
Confidence            489999999999999999997644    233455555

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.98  E-value=0.19  Score=41.76  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-|+|+|.+|+|||||..++....
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998654

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=93.97  E-value=0.14  Score=43.26  Aligned_cols=24  Identities=42%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      --|+|+|.+|+|||||++.+....
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            468999999999999998776654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.96  E-value=0.15  Score=43.36  Aligned_cols=26  Identities=27%  Similarity=0.303  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....|+|+|.+|+|||||...+....
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999997654

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.95  E-value=0.019  Score=58.47  Aligned_cols=43  Identities=16%  Similarity=0.020  Sum_probs=30.4

Q ss_pred             CCChhHHHHHHHHHhcCCeE-----------EEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVKKDVG-----------IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~-----------~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|.++....+...+..+..+           .|.++|++|+|||+||+++++..
T Consensus       298 ~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          298 YGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             SCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             cChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            46666555554444433222           58999999999999999998865

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=93.94  E-value=0.031  Score=53.24  Aligned_cols=24  Identities=38%  Similarity=0.649  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|+.|+||||||..++...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            589999999999999999999876

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=93.93  E-value=0.049  Score=50.27  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|++|+|||||.+.+. ..
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             cEEEEECCCCCCHHHHHHHHH-Hh
Confidence            488999999999999999998 55

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=93.91  E-value=0.036  Score=47.77  Aligned_cols=37  Identities=19%  Similarity=0.166  Sum_probs=21.8

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.+.+.......-.|+|+|.+|+|||||...+....
T Consensus        18 ~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           18 GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3334344444445578999999999999999988654

>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=93.91  E-value=0.034  Score=49.00  Aligned_cols=25  Identities=32%  Similarity=0.611  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...|+|.|++|+||||+++.+++..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999988

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.89  E-value=0.055  Score=45.93  Aligned_cols=26  Identities=23%  Similarity=0.222  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....|+|+|.+|+|||||...+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34579999999999999999998754

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=93.89  E-value=0.032  Score=49.91  Aligned_cols=23  Identities=30%  Similarity=0.524  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .+++|.|+.|.|||||++.++.-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999874

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=93.88  E-value=0.034  Score=47.40  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...|+|+|.+|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999998754

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=93.88  E-value=0.091  Score=48.33  Aligned_cols=27  Identities=19%  Similarity=0.273  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcC-CCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGT-GGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~-~GiGKTtLa~~~~~~~   43 (483)
                      ...++|.|+|. ||+||||+|..++...
T Consensus       102 ~~~kvI~vts~kgG~GKTtva~nLA~~l  129 (299)
T 3cio_A          102 TENNILMITGATPDSGKTFVSSTLAAVI  129 (299)
T ss_dssp             CSCCEEEEEESSSSSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCChHHHHHHHHHHH
Confidence            45679999986 7999999999998766

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.87  E-value=0.029  Score=49.84  Aligned_cols=33  Identities=33%  Similarity=0.397  Sum_probs=25.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||.+.++--.    ....+.+++
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl~----~p~~G~i~~   65 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGLV----RAQKGKIIF   65 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            489999999999999999997744    233555555

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=93.87  E-value=0.029  Score=50.70  Aligned_cols=24  Identities=25%  Similarity=0.674  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|.|||||++.++.-.
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            489999999999999999997754

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.87  E-value=0.04  Score=45.53  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|+|.+|+|||||...+....
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~~   27 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGEN   27 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCCS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999998643

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.86  E-value=0.051  Score=54.51  Aligned_cols=41  Identities=22%  Similarity=0.144  Sum_probs=30.2

Q ss_pred             ChhHHHHHHHHHh--cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            3 NPKQFYQVWRFLV--KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         3 r~~~~~~l~~~l~--~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.+..+.+.+...  .....+|.++|++|+||||+|+.+.+..
T Consensus       354 r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L  396 (546)
T 2gks_A          354 RPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATML  396 (546)
T ss_dssp             CHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             chhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHh
Confidence            3445555555552  2335689999999999999999998875

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=93.85  E-value=0.043  Score=55.39  Aligned_cols=26  Identities=23%  Similarity=0.153  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|.|.|++|.||||+|+.+.+..
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999999876

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=93.85  E-value=0.059  Score=50.38  Aligned_cols=29  Identities=31%  Similarity=0.347  Sum_probs=23.5

Q ss_pred             hcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           15 VKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        15 ~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+...+++.+.|-||+||||+|..++...
T Consensus        15 ~~~~~~i~v~sgkGGvGKTTva~~LA~~l   43 (329)
T 2woo_A           15 EQTSLKWIFVGGKGGVGKTTTSCSLAIQM   43 (329)
T ss_dssp             HCTTCCEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCCEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            34445677788999999999999998876

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=93.84  E-value=0.067  Score=50.43  Aligned_cols=42  Identities=26%  Similarity=0.444  Sum_probs=29.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCC---CCC-CEEEEEEeCCC
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSER---PGF-DVVIWVVVSKE   61 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~---~~f-~~~~~v~~~~~   61 (483)
                      -.++.|+|++|+|||||+..++... ...   +.. ..++|++....
T Consensus       131 G~i~~I~G~~GsGKTTL~~~l~~~~-~~~~~~Gg~~G~vi~i~~e~~  176 (349)
T 1pzn_A          131 QAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENT  176 (349)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh-ccchhcCCCCCeEEEEeCCCC
Confidence            3699999999999999999998764 111   111 23588876554

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.84  E-value=0.2  Score=42.42  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..-|+|+|.+|+|||||...+....
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3568999999999999999998754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.84  E-value=0.039  Score=45.10  Aligned_cols=24  Identities=17%  Similarity=0.387  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|+|.+|+|||||+..+....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            568999999999999999998754

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.83  E-value=0.039  Score=49.05  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...|+|.|+.|+||||+++.+++..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999999876

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.83  E-value=0.07  Score=50.33  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.8

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|+|.+|+|||||..++....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            36799999999999999999998643

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=93.83  E-value=0.1  Score=47.30  Aligned_cols=38  Identities=21%  Similarity=0.331  Sum_probs=27.3

Q ss_pred             HHHHHHHHHh----cCCeEEEEEEcC-CCCcHHHHHHHHHhhc
Q 038724            6 QFYQVWRFLV----KKDVGIIGLFGT-GGVGKTTILKQINNRF   43 (483)
Q Consensus         6 ~~~~l~~~l~----~~~~~~v~i~G~-~GiGKTtLa~~~~~~~   43 (483)
                      .+..|+..+.    +...++|.|+|. ||+||||+|..++...
T Consensus        65 a~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~l  107 (271)
T 3bfv_A           65 KFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAY  107 (271)
T ss_dssp             HHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHH
Confidence            3444444443    235678999875 8999999999998866

>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=93.83  E-value=0.037  Score=49.76  Aligned_cols=26  Identities=31%  Similarity=0.451  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...++.+.|.||+||||++..++...
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            35688999999999999999998866

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=93.82  E-value=0.03  Score=50.35  Aligned_cols=33  Identities=18%  Similarity=0.377  Sum_probs=25.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||.+.++.-.    ....+.+++
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl~----~p~~G~i~~   66 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGFL----KADEGRVYF   66 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            489999999999999999997654    223455554

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.82  E-value=0.16  Score=42.90  Aligned_cols=25  Identities=28%  Similarity=0.201  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..-|+|+|.+|+|||||...+....
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468999999999999999998654

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=93.81  E-value=0.03  Score=50.46  Aligned_cols=33  Identities=24%  Similarity=0.270  Sum_probs=25.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||++.++.-.    ....+.+++
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl~----~p~~G~I~~   83 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLLE----DFDEGEIII   83 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcCC----CCCCcEEEE
Confidence            489999999999999999997654    223455555

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=93.78  E-value=0.026  Score=49.14  Aligned_cols=33  Identities=30%  Similarity=0.529  Sum_probs=25.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||.+.++.-.    ....+.+++
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~----~p~~G~I~~   68 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYL----KPLKGEIIY   68 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC----CCCCeEEEE
Confidence            378999999999999999997754    223455554

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=93.78  E-value=0.034  Score=50.28  Aligned_cols=23  Identities=26%  Similarity=0.572  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .+++|+|+.|.|||||++.++.-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999874

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=93.76  E-value=0.049  Score=52.39  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++|+|+.|+|||||.+.++...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCC
Confidence            34699999999999999999998743

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.76  E-value=0.16  Score=43.44  Aligned_cols=26  Identities=23%  Similarity=0.241  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...-|+|+|.+|+|||||+..+....
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            44578999999999999999998755

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=93.76  E-value=0.032  Score=49.22  Aligned_cols=24  Identities=29%  Similarity=0.571  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|.|||||.+.++.-.
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999997754

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=93.75  E-value=0.067  Score=49.16  Aligned_cols=52  Identities=19%  Similarity=0.217  Sum_probs=32.8

Q ss_pred             HHHHHHHHHhcCCeEEEEEEc---CCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724            6 QFYQVWRFLVKKDVGIIGLFG---TGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus         6 ~~~~l~~~l~~~~~~~v~i~G---~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      .++++.+.+... .++|+|++   -||+||||+|..++... ...+  ..++-|+....
T Consensus        22 ~~~~~~r~~~~~-~~~i~v~~~s~KGGvGKTT~a~nLA~~l-a~~G--~rVlliD~D~q   76 (298)
T 2oze_A           22 ILEELRRILSNK-NEAIVILNNYFKGGVGKSKLSTMFAYLT-DKLN--LKVLMIDKDLQ   76 (298)
T ss_dssp             HHHHHHHHHHHH-CSCEEEEECCSSSSSSHHHHHHHHHHHH-HHTT--CCEEEEEECTT
T ss_pred             HHHHHHHHhcCC-CcEEEEEeccCCCCchHHHHHHHHHHHH-HhCC--CeEEEEeCCCC
Confidence            345566655543 35677765   89999999999998766 2221  23555555543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=93.75  E-value=0.032  Score=49.82  Aligned_cols=33  Identities=27%  Similarity=0.474  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||++.++.-.    ....+.+++
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~----~p~~G~I~i   68 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFY----IPENGQVLI   68 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC----CCCCcEEEE
Confidence            489999999999999999997754    233455555

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=93.72  E-value=0.062  Score=52.65  Aligned_cols=26  Identities=35%  Similarity=0.565  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++|+|+.|+||||+++.++...
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            34699999999999999999998766

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.70  E-value=0.045  Score=54.86  Aligned_cols=25  Identities=24%  Similarity=0.372  Sum_probs=22.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -.+++|+|+.|.|||||++.++...
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhh
Confidence            3689999999999999999999876

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=93.70  E-value=0.22  Score=42.15  Aligned_cols=25  Identities=28%  Similarity=0.409  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .--|+|+|.+|+|||||...+....
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468999999999999999998654

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.69  E-value=0.052  Score=50.72  Aligned_cols=38  Identities=11%  Similarity=0.044  Sum_probs=29.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      .++.|.|.+|+||||+|..++.... .  .-..++|++...
T Consensus        47 ~LiiIaG~pG~GKTt~al~ia~~~a-~--~g~~Vl~fSlEm   84 (338)
T 4a1f_A           47 SLVIIGARPSMGKTSLMMNMVLSAL-N--DDRGVAVFSLEM   84 (338)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH-H--TTCEEEEEESSS
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH-H--cCCeEEEEeCCC
Confidence            4899999999999999999988762 2  234577777653

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.68  E-value=0.041  Score=49.52  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-.+++|+|+.|.||||+++.++...
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhC
Confidence            33699999999999999999987654

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.68  E-value=0.03  Score=47.29  Aligned_cols=22  Identities=36%  Similarity=0.587  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|+|+|.+|+|||||+..+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5889999999999999999763

>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=93.68  E-value=0.1  Score=49.75  Aligned_cols=26  Identities=19%  Similarity=0.296  Sum_probs=22.4

Q ss_pred             CeEEEEEE-cCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLF-GTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~-G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|+ |-||+||||+|..++...
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~L  168 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAH  168 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHH
Confidence            56889888 589999999999998766

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=93.67  E-value=0.036  Score=49.37  Aligned_cols=24  Identities=33%  Similarity=0.600  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|.|||||.+.++.-.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            589999999999999999998754

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.66  E-value=0.2  Score=42.91  Aligned_cols=25  Identities=32%  Similarity=0.555  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4568999999999999999987654

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=93.66  E-value=0.036  Score=51.03  Aligned_cols=24  Identities=25%  Similarity=0.448  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|++|+|||||++.++...
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            489999999999999999998766

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.66  E-value=0.033  Score=49.96  Aligned_cols=33  Identities=36%  Similarity=0.517  Sum_probs=25.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|.|+.|.|||||.+.++--.    ....+.+++
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl~----~p~~G~I~~   74 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTLI----KPSSGIVTV   74 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            489999999999999999997644    233455555

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=93.65  E-value=0.1  Score=61.71  Aligned_cols=62  Identities=24%  Similarity=0.245  Sum_probs=0.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-----------------hhcCCcEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-----------------ILSTKKFLLLL   82 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-----------------~l~~~~~Llvl   82 (483)
                      +-|.++|++|+|||++|+.+....     .-.....+..+...+...+...+                 ...++++++++
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~-----~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFi 1342 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNS-----SLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFC 1342 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC-----SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcC-----CCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEEEEe


Q ss_pred             cCCC
Q 038724           83 DDLW   86 (483)
Q Consensus        83 Ddv~   86 (483)
                      ||++
T Consensus      1343 DEin 1346 (2695)
T 4akg_A         1343 DEIN 1346 (2695)
T ss_dssp             ETTT
T ss_pred             cccc

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.58  E-value=0.035  Score=49.98  Aligned_cols=32  Identities=28%  Similarity=0.363  Sum_probs=25.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||++.++.-.   . . .+.+++
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl~---~-~-~G~I~i   78 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRFY---D-A-EGDIKI   78 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS---C-C-EEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC---C-C-CeEEEE
Confidence            489999999999999999998754   2 2 466655

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=93.58  E-value=0.038  Score=47.37  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...|+|+|.+|+|||||.+.+....
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999998754

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.57  E-value=0.035  Score=50.30  Aligned_cols=33  Identities=21%  Similarity=0.384  Sum_probs=25.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||++.++.-.    ....+.+++
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl~----~p~~G~I~~   78 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNLY----QPTGGKVLL   78 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC----CCCCCEEEE
Confidence            489999999999999999997754    233555655

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=93.56  E-value=0.035  Score=49.53  Aligned_cols=24  Identities=33%  Similarity=0.596  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|.|||||.+.++.-.
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            489999999999999999998754

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=93.51  E-value=0.12  Score=48.34  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|+.|.|||||++.++.-.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            389999999999999999998765

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.48  E-value=0.25  Score=41.67  Aligned_cols=24  Identities=29%  Similarity=0.473  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|+|.+|+|||||...+....
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.47  E-value=0.054  Score=45.71  Aligned_cols=24  Identities=33%  Similarity=0.495  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999999874

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=93.46  E-value=0.042  Score=50.54  Aligned_cols=24  Identities=13%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|.|||||++.+..-.
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhhhc
Confidence            589999999999999999998754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.44  E-value=0.038  Score=49.95  Aligned_cols=33  Identities=18%  Similarity=0.215  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||.+.++.-.    ....+.+++
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl~----~p~~G~I~~   66 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGLI----EPTSGDVLY   66 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC----CCCCcEEEE
Confidence            489999999999999999997644    233555555

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.43  E-value=0.038  Score=50.30  Aligned_cols=33  Identities=30%  Similarity=0.392  Sum_probs=25.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|+|+.|.|||||.+.++.-.    ....+.+++
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl~----~p~~G~I~~   80 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAYE----PATSGTVNL   80 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC----CCCCeEEEE
Confidence            489999999999999999997754    223455554

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.41  E-value=0.043  Score=48.59  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+|+|.|+.|.||||+++.++...
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34589999999999999999998865

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.41  E-value=0.046  Score=45.23  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      +-|.|.|.+|+||||+|.+...+
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            46889999999999999999774

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.40  E-value=0.038  Score=49.49  Aligned_cols=24  Identities=29%  Similarity=0.584  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+.|.|||||.+.++.-.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999997754

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=93.36  E-value=0.041  Score=52.34  Aligned_cols=26  Identities=19%  Similarity=0.059  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++|+|++|.|||||++.++...
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            44699999999999999999999754

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=93.34  E-value=0.074  Score=49.59  Aligned_cols=25  Identities=36%  Similarity=0.413  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++.+.|-||+||||+|..++...
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~l   38 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWM   38 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHH
Confidence            4577778999999999999998876

>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=93.32  E-value=0.15  Score=48.13  Aligned_cols=26  Identities=35%  Similarity=0.402  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+++.+.|-||+||||+|..++...
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~l   50 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYL   50 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHH
Confidence            44566777999999999999998876

---

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	483
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	4e-21
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	4e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-07
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	6e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-07
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	7e-07
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	6e-06
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	3e-05
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	6e-05
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	2e-04
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	0.001
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	8e-04
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.003
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	0.001
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	0.002
d1xwdc1	242	c.10.2.7 (C:18-259) Follicle-stimulating hormone r	0.002
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	0.002
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.003

>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 = 90.6 bits (224), Expect = 4e-21
 Identities = 35/259 (13%), Positives = 71/259 (27%), Gaps = 63/259 (24%)

Query: 9   QVWRFLVK---KDVGIIGLFGTGGVGKTTILKQI-NNRFCSERPGFDVVIWVVVSKELKL 64
           +V + L +    D   + L G  G GK+ I  Q  +         +D ++W+  S     
Sbjct: 31  RVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPK 90

Query: 65  ETSQDDMI---------------------------------LSTKKFLLLLDDLWETIDL 91
            T                                       +     L + DD+ +    
Sbjct: 91  STFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET- 149

Query: 92  SKIGVPLPSQKIVSKVVFTTHSEEVC-----------VDCFTPQESWQVFQMKVGNETLV 140
                   +Q++  + + TT   E+            V      E +   +       + 
Sbjct: 150 -----IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG 204

Query: 141 SHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQFPGINKVY 200
                        +   G P  L +  ++    KT E+        + + L+  G+  V 
Sbjct: 205 EKEEDV--LNKTIELSSGNPATLMMFFKSCE-PKTFEKMAQ-----LNNKLESRGLVGVE 256

Query: 201 YRLKFSFDRLPSDQIRSCF 219
               +S+  L    ++ C 
Sbjct: 257 CITPYSYKSLAM-ALQRCV 274

>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 = 52.7 bits (125), Expect = 4e-08
 Identities = 15/77 (19%), Positives = 32/77 (41%), Gaps = 4/77 (5%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  ++L  N I  +    S   L  LF  +N + D+ +     +  +  L+  +N+    
Sbjct: 309 LTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSS--LANLTNINWLSAGHNQISDL 366

Query: 358 LPSGISKLVSLQHLDIS 374
            P  ++ L  +  L ++
Sbjct: 367 TP--LANLTRITQLGLN 381

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 51.5 bits (122), Expect = 1e-07
 Identities = 20/100 (20%), Positives = 40/100 (40%), Gaps = 5/100 (5%)

Query: 299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKL 358
             + L  NQ++ +    +  +L  L L  N + DI       +  L+ L  + N+     
Sbjct: 288 TNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFANNKV--SD 343

Query: 359 PSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDD 398
            S ++ L ++  L        +L   L  L ++  L ++D
Sbjct: 344 VSSLANLTNINWLSAGHNQISDLT-PLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 47.7 bits (112), Expect = 2e-06
 Identities = 26/123 (21%), Positives = 37/123 (30%), Gaps = 23/123 (18%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDI--------------------KNGF 337
           L  + L NNQI  L        L  L L  N + +I                        
Sbjct: 243 LTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISP 302

Query: 338 FQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMD 397
              +  L  L L +N      P  +S L  LQ L  +    +     L  L  + +L   
Sbjct: 303 ISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFANNK-VSDVSSLANLTNINWLSAG 359

Query: 398 DHQ 400
            +Q
Sbjct: 360 HNQ 362

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 39.6 bits (91), Expect = 6e-04
 Identities = 12/70 (17%), Positives = 29/70 (41%), Gaps = 4/70 (5%)

Query: 283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMP 342
            + D+ P  +L    L+R+   NN++  + +  +  ++  L    N + D+       + 
Sbjct: 318 NISDISPVSSLT--KLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLTP--LANLT 373

Query: 343 CLKVLNLSYN 352
            +  L L+  
Sbjct: 374 RITQLGLNDQ 383

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 50.4 bits (119), Expect = 2e-07
 Identities = 26/123 (21%), Positives = 48/123 (39%)

Query: 318 PHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS 377
           P    L L +N + +IK+G F+ +  L  L L  N+     P   + LV L+ L +S   
Sbjct: 31  PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ 90

Query: 378 TLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC 437
             ELPE++    +   +  ++  +V +      +    +      L+   I       + 
Sbjct: 91  LKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMK 150

Query: 438 SLC 440
            L 
Sbjct: 151 KLS 153

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 49.1 bits (115), Expect = 7e-07
 Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 7/72 (9%)

Query: 298 LRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK 357
           L  +++ NN++  L      P L  L  + N+L ++          LK L++ YN  L +
Sbjct: 286 LEELNVSNNKLIEL--PALPPRLERLIASFNHLAEVPE----LPQNLKQLHVEYNP-LRE 338

Query: 358 LPSGISKLVSLQ 369
            P     +  L+
Sbjct: 339 FPDIPESVEDLR 350

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 46.0 bits (107), Expect = 6e-06
 Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 4/75 (5%)

Query: 317 CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT 376
              L       N   +         P L+ LN+S N+ L +LP+       L+ L  SF 
Sbjct: 259 LSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNK-LIELPALPP---RLERLIASFN 314

Query: 377 STLELPEELKALEKL 391
              E+PE  + L++L
Sbjct: 315 HLAEVPELPQNLKQL 329

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 41.2 bits (96), Expect = 3e-05
 Identities = 27/111 (24%), Positives = 48/111 (43%), Gaps = 14/111 (12%)

Query: 345 KVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME 404
           +VL+L++   LT L   + +L+ + HLD+S      LP  L AL  L+ L   D+     
Sbjct: 1   RVLHLAHKD-LTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV 58

Query: 405 EGNCQSDDAESL------------LKEMLCLEQLNIIRLTSCSLCSLCGLP 443
           +G       + L            ++ ++   +L ++ L   SLC   G+ 
Sbjct: 59  DGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQ 109

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 40.5 bits (94), Expect = 6e-05
 Identities = 17/115 (14%), Positives = 34/115 (29%), Gaps = 22/115 (19%)

Query: 299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQ------------------- 339
           R + L +  +  L +      +  L L+ N L+ +                         
Sbjct: 1   RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDG 60

Query: 340 --FMPCLKVLNLSYNRFLT-KLPSGISKLVSLQHLDISFTSTLELPEELKALEKL 391
              +P L+ L L  NR         +     L  L++   S  +     + L ++
Sbjct: 61  VANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEM 115

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 41.3 bits (95), Expect = 2e-04
 Identities = 14/62 (22%), Positives = 25/62 (40%)

Query: 337 FFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDM 396
                  L  L+L  NR    LP G+++L  L  L++SF +      +   L++      
Sbjct: 239 KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAY 298

Query: 397 DD 398
            +
Sbjct: 299 AN 300

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 39.0 bits (89), Expect = 0.001
 Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 1/58 (1%)

Query: 317 CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS 374
             +L  L L +N +          +  L  LN+S+N    ++P G   L        +
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYA 299

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.5 bits (88), Expect = 8e-04
 Identities = 11/57 (19%), Positives = 24/57 (42%), Gaps = 2/57 (3%)

Query: 294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLS 350
               L  +   +N+I  +    S P+L+ + L +N + D+          L ++ L+
Sbjct: 171 NLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVSP--LANTSNLFIVTLT 225

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 36.9 bits (84), Expect = 0.003
 Identities = 12/59 (20%), Positives = 28/59 (47%), Gaps = 4/59 (6%)

Query: 316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS 374
           +   L TL  +DN + DI       +P L  ++L  N+ ++ +   ++   +L  + ++
Sbjct: 171 NLSKLTTLKADDNKISDISP--LASLPNLIEVHLKNNQ-ISDVSP-LANTSNLFIVTLT 225

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 38.2 bits (87), Expect = 0.001
 Identities = 17/82 (20%), Positives = 31/82 (37%)

Query: 317 CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT 376
              L  L+L  N L+ +  G     P L+ L+L+ N         ++ L +L  L +   
Sbjct: 123 LGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQEN 182

Query: 377 STLELPEELKALEKLKYLDMDD 398
           S   +P+       L +  +  
Sbjct: 183 SLYTIPKGFFGSHLLPFAFLHG 204

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (85), Expect = 0.002
 Identities = 18/86 (20%), Positives = 29/86 (33%), Gaps = 11/86 (12%)

Query: 298 LRRMSLMNNQIKTLLNTP----SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNR 353
           L  ++L NN++  L +        P+L  L L+ N L+  +         L+ L L  N 
Sbjct: 67  LLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS 126

Query: 354 FLTKLPSG-------ISKLVSLQHLD 372
                            +   L  LD
Sbjct: 127 LSDTFRDQSTYISAIRERFPKLLRLD 152

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score = 37.6 bits (85), Expect = 0.002
 Identities = 11/63 (17%), Positives = 22/63 (34%)

Query: 317 CPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT 376
                    ++N L+++ N  F       +L++S  R  +    G+  L  L+       
Sbjct: 176 TQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNL 235

Query: 377 STL 379
             L
Sbjct: 236 KKL 238

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 36.9 bits (84), Expect = 0.002
 Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 7  FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSE 46
          F ++WR    ++  +I + G    GKTTIL Q +      
Sbjct: 4  FTRIWRLFNHQEHKVI-IVGLDNAGKTTILYQFSMNEVVH 42

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.6 bits (85), Expect = 0.003
 Identities = 22/106 (20%), Positives = 42/106 (39%), Gaps = 18/106 (16%)

Query: 326 NDNYLQDIKNGFFQFMPCLKVLNLSYNRF----LTKLPSGISKLVSLQHLDISFTS---- 377
            D  ++++  G  Q    L+VL L+         + L + +    SL+ LD+S       
Sbjct: 353 EDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDA 412

Query: 378 -TLELPEELKALE-KLKYLDMDDHQQVMEEGNCQSDDAESLLKEML 421
             L+L E ++     L+ L + D           S++ E  L+ + 
Sbjct: 413 GILQLVESVRQPGCLLEQLVLYD--------IYWSEEMEDRLQALE 450

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	483
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.59
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.57
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.55
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.53
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.53
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.53
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.52
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.52
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.51
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.49
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.46
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.45
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.43
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.43
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.41
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.39
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.38
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.37
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.33
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.33
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.33
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.26
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.19
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.19
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.19
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.17
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.16
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.02
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.99
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.96
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.94
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.89
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.88
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.86
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.84
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.84
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.8
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.8
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.7
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.67
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.64
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.61
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.59
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.56
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.53
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.5
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.4
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.38
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.3
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.28
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.23
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.18
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.11
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	98.06
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.05
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.03
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.02
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.94
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.9
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.83
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.82
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.63
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.27
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.19
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.15
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.14
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.13
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.1
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.07
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.05
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.04
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.01
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.98
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.96
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.96
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.94
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.93
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.87
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.85
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.83
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.78
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.77
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.76
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.75
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.75
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.72
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.71
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.64
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.6
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.59
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.58
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.58
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.57
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.49
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.46
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.44
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.43
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.4
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.39
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.37
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.36
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.32
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.31
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.28
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.24
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.23
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.13
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.11
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.11
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.11
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.1
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.08
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.07
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.07
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.07
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.06
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.03
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.02
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.02
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.02
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.99
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.98
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.97
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.94
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.85
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.69
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.68
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.63
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.62
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.62
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.61
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.61
d1okkd2	207	GTPase domain of the signal recognition particle r	95.59
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.59
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.54
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.49
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.49
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.42
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.39
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.37
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.36
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.34
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.28
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.22
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.15
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.13
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.1
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.93
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.92
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.89
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.86
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.66
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.66
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.58
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.58
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.53
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.51
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.45
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.43
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.37
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.36
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.36
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.36
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.36
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.36
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.24
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.2
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.16
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.15
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.12
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.07
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.06
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.98
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.97
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.97
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.97
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.95
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.94
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.88
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.87
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.84
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.8
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.77
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.74
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.71
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.65
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.65
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.62
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.58
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.56
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.49
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.41
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.41
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.39
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.34
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.34
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.31
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.31
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.28
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.23
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.22
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.18
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.16
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.14
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.12
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.05
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.04
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.04
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.03
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.01
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.99
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.98
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.92
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.9
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.89
d2fh5b1	207	Signal recognition particle receptor beta-subunit	92.86
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.84
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.83
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	92.81
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	92.73
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.72
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.69
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.68
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.68
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.58
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.55
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	92.54
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.41
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.37
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	92.3
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.3
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.29
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.23
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.23
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.17
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.16
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.15
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.15
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.1
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.08
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.06
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.04
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.9
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.84
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.82
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.8
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.75
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.61
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.54
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.52
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.49
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	91.42
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.28
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.19
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	91.16
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.14
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.9
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	90.79
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	90.63
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	90.59
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.2
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	89.95
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	89.7
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.64
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	89.22
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.03
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	88.54
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.28
d1tuea_	205	Replication protein E1 helicase domain {Human papi	87.62
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.61
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	86.62
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	86.36
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	85.95
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	85.62
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	83.67
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.51
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	83.23
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	83.18
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	83.11
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	82.42
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	82.02
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	81.85
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	81.82
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	81.51
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	81.4
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	81.34

>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=100.00  E-value=1e-38  Score=294.20  Aligned_cols=207  Identities=16%  Similarity=0.149  Sum_probs=173.6

Q ss_pred             CCChhHHHHHHHHHhc---CCeEEEEEEcCCCCcHHHHHHHHHhhcc-cCCCCCCEEEEEEeCCCcCccchhHHh-----
Q 038724            1 IENPKQFYQVWRFLVK---KDVGIIGLFGTGGVGKTTILKQINNRFC-SERPGFDVVIWVVVSKELKLETSQDDM-----   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~---~~~~~v~i~G~~GiGKTtLa~~~~~~~~-~~~~~f~~~~~v~~~~~~~~~~~~~~i-----   71 (483)
                      +||+.++++|.++|.+   .+.++|+|+||||+||||||+++|++.. ....+|++++|+++++.++...+...+     
T Consensus        23 ~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~~  102 (277)
T d2a5yb3          23 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  102 (277)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             eCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHHHH
Confidence            5999999999999963   4678999999999999999999998752 246689999999999887765554433     


Q ss_pred             ----------------------------hhcCCcEEEEEcCCCCccccccccCCCCCCCCCCEEEEecCChhhh------
Q 038724           72 ----------------------------ILSTKKFLLLLDDLWETIDLSKIGVPLPSQKIVSKVVFTTHSEEVC------  117 (483)
Q Consensus        72 ----------------------------~l~~~~~LlvlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtR~~~~~------  117 (483)
                                                  .+.++++|+||||||+..++..+.      ..||+||||||++.++      
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~~~~~~  176 (277)
T d2a5yb3         103 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNAASQT  176 (277)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGGGCCSC
T ss_pred             HhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHHhcCCC
Confidence                                        357899999999999998887553      2379999999999887      


Q ss_pred             -----hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHHHHHHHhcCCCCHHHHHHHHHHHHhcccC
Q 038724          118 -----VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALTIVGRAMAYKKTPEEWKDAIEILMRSALQ  192 (483)
Q Consensus       118 -----l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~~~~~~l~~~~~~~~w~~~~~~l~~~~~~  192 (483)
                           +++|+.++|++||...++...  ..+..++.+++|+++|+|+|||++++|+.++. .+.+.|.+..+.+......
T Consensus       177 ~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L~~~~~~  253 (277)
T d2a5yb3         177 CEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESRGLV  253 (277)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHHHHHCSS
T ss_pred             CceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHHhcCcHH
Confidence                 889999999999999887554  23455788899999999999999999999987 6788999988888764433


Q ss_pred             CCChHHHHHhhhcccCCCCchhhhHHHhhh
Q 038724          193 FPGINKVYYRLKFSFDRLPSDQIRSCFLFC  222 (483)
Q Consensus       193 ~~~~~~~~~~l~~s~~~L~~~~~~~~~~~~  222 (483)
                           .+..++.+||+.||+ ++|.||.++
T Consensus       254 -----~v~~il~~sY~~L~~-~lk~c~~~l  277 (277)
T d2a5yb3         254 -----GVECITPYSYKSLAM-ALQRCVEVL  277 (277)
T ss_dssp             -----TTCCCSSSSSSSHHH-HHHHHHHTS
T ss_pred             -----HHHHHHHHHHhcccH-HHHHHHHhC
Confidence                 788999999999999 899999764

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=3.3e-15  Score=135.76  Aligned_cols=163  Identities=24%  Similarity=0.243  Sum_probs=107.1

Q ss_pred             hcccCccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccc
Q 038724          284 LRDVVPSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGIS  363 (483)
Q Consensus       284 l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~  363 (483)
                      +..+.+..+..+++|+.|++++|.++.++....+++|++|+|++|.++..++. +..+++|++|++++|.+....+..+.
T Consensus        43 i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~~~~l~~L~~L~Ls~N~l~~~~~~-~~~l~~L~~L~l~~~~~~~~~~~~~~  121 (266)
T d1p9ag_          43 LYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLL-GQTLPALTVLDVSFNRLTSLPLGALR  121 (266)
T ss_dssp             CSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCC-TTTCTTCCEEECCSSCCCCCCSSTTT
T ss_pred             CCCcCHHHhhccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccceeeccccc
Confidence            33333444556667777777777777666666677777777777776665543 66677777777777765555555666


Q ss_pred             cCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccC--
Q 038724          364 KLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLC--  440 (483)
Q Consensus       364 ~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~--  440 (483)
                      .+.++++|++++|.+..+|.. +..+++|+.|++++|++..+           .+..+..+++|+.|+|++|.+..+.  
T Consensus       122 ~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~-----------~~~~~~~l~~L~~L~Ls~N~L~~lp~~  190 (266)
T d1p9ag_         122 GLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTEL-----------PAGLLNGLENLDTLLLQENSLYTIPKG  190 (266)
T ss_dssp             TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCC-----------CTTTTTTCTTCCEEECCSSCCCCCCTT
T ss_pred             cccccccccccccccceeccccccccccchhccccccccccc-----------CccccccccccceeecccCCCcccChh
Confidence            677777777777777776655 45567777777777775543           2234778899999999999987653  


Q ss_pred             --CCCCcccccceeeeeeeeecccc
Q 038724          441 --GLPTVQCLTSRRLNLEVEDWHKC  463 (483)
Q Consensus       441 --~l~~l~~l~l~~~~~~~~~~~~~  463 (483)
                        .+++|+.|     .+..++|.|-
T Consensus       191 ~~~~~~L~~L-----~L~~Np~~Cd  210 (266)
T d1p9ag_         191 FFGSHLLPFA-----FLHGNPWLCN  210 (266)
T ss_dssp             TTTTCCCSEE-----ECCSCCBCCS
T ss_pred             HCCCCCCCEE-----EecCCCCCCC
Confidence              34444444     4455566553

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=1.1e-14  Score=132.27  Aligned_cols=149  Identities=24%  Similarity=0.240  Sum_probs=82.4

Q ss_pred             ceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          297 GLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      .++.|++++|.++.+++.  ..+++|++|+|++|.++.++.  +..+++|++|++++|+ +...|..+..+++|++|+++
T Consensus        32 ~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~--~~~l~~L~~L~Ls~N~-l~~~~~~~~~l~~L~~L~l~  108 (266)
T d1p9ag_          32 DTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV--DGTLPVLGTLDLSHNQ-LQSLPLLGQTLPALTVLDVS  108 (266)
T ss_dssp             TCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC--CSCCTTCCEEECCSSC-CSSCCCCTTTCTTCCEEECC
T ss_pred             CCCEEECcCCcCCCcCHHHhhcccccccccccccccccccc--cccccccccccccccc-cccccccccccccccccccc
Confidence            344455555555444432  334445555555554444433  3344445555555553 23333344444555555555


Q ss_pred             CCCCCccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc-----cCCCCCcccc
Q 038724          375 FTSTLELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS-----LCGLPTVQCL  448 (483)
Q Consensus       375 ~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~-----l~~l~~l~~l  448 (483)
                      +|.+..++.. +..+.+++.|++++|.+..+           .+..+..+++|+.|++++|++..     +..+++|+.|
T Consensus       109 ~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l-----------~~~~~~~l~~l~~l~l~~N~l~~~~~~~~~~l~~L~~L  177 (266)
T d1p9ag_         109 FNRLTSLPLGALRGLGELQELYLKGNELKTL-----------PPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTL  177 (266)
T ss_dssp             SSCCCCCCSSTTTTCTTCCEEECTTSCCCCC-----------CTTTTTTCTTCCEEECTTSCCSCCCTTTTTTCTTCCEE
T ss_pred             ccccceeecccccccccccccccccccccee-----------ccccccccccchhcccccccccccCcccccccccccee
Confidence            5444443332 34444555555555443332           22345678899999999998754     5668899999


Q ss_pred             cceeeeeeeee
Q 038724          449 TSRRLNLEVED  459 (483)
Q Consensus       449 ~l~~~~~~~~~  459 (483)
                      ++++|.+...+
T Consensus       178 ~Ls~N~L~~lp  188 (266)
T d1p9ag_         178 LLQENSLYTIP  188 (266)
T ss_dssp             ECCSSCCCCCC
T ss_pred             ecccCCCcccC
Confidence            99999988654

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.55  E-value=1.2e-14  Score=115.02  Aligned_cols=102  Identities=23%  Similarity=0.328  Sum_probs=50.6

Q ss_pred             EEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCC
Q 038724          322 TLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQ  401 (483)
Q Consensus       322 ~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~  401 (483)
                      +|+|++|.++.++.  +..+++|++|++++|. +..+|+.++.+++|++|++++|.+..+| ++..+++|++|++++|++
T Consensus         2 ~L~Ls~n~l~~l~~--l~~l~~L~~L~ls~N~-l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N~i   77 (124)
T d1dcea3           2 VLHLAHKDLTVLCH--LEQLLLVTHLDLSHNR-LRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             EEECTTSCCSSCCC--GGGGTTCCEEECCSSC-CCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSCC
T ss_pred             EEEcCCCCCCCCcc--cccCCCCCEEECCCCc-cCcchhhhhhhhcccccccccccccccC-ccccccccCeEECCCCcc
Confidence            45555555554432  4455555555555553 3444545555555555555555555554 255555555555555554


Q ss_pred             cCCCCCCCCccchhhHhhhccccccccceeeccCcc
Q 038724          402 VMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLC  437 (483)
Q Consensus       402 ~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~  437 (483)
                      ...|.          +..+..+++|+.|++++|++.
T Consensus        78 ~~~~~----------~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          78 QQSAA----------IQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             CSSST----------TGGGGGCTTCCEEECTTSGGG
T ss_pred             CCCCC----------chhhcCCCCCCEEECCCCcCC
Confidence            32211          123444555555555555543

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.53  E-value=2e-14  Score=124.34  Aligned_cols=146  Identities=16%  Similarity=0.207  Sum_probs=118.5

Q ss_pred             cccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEec
Q 038724          294 KWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDI  373 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l  373 (483)
                      .+.+++.|++.+|.++.+.....+++|++|++++|.++.+++  ++.+++|++|++++|. ...+| .+..+++|++|++
T Consensus        38 ~l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~n~-~~~~~-~l~~l~~L~~L~l  113 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQ-IADIT-PLANLTNLTGLTL  113 (199)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCCG-GGTTCTTCSEEEC
T ss_pred             HhcCCCEEECCCCCCCCccccccCCCcCcCccccccccCccc--ccCCcccccccccccc-ccccc-ccccccccccccc
Confidence            467888999999999888777788999999999999988776  8889999999999996 45555 4888999999999


Q ss_pred             cCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccccc
Q 038724          374 SFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCLTS  450 (483)
Q Consensus       374 ~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l~l  450 (483)
                      ++|.+..++ .+..+++|+.|++++|.+...             ..+..+++|+.|++.+|.+..   +.++++|+.|++
T Consensus       114 ~~~~~~~~~-~~~~l~~L~~L~l~~n~l~~~-------------~~l~~~~~L~~L~l~~n~l~~l~~l~~l~~L~~L~l  179 (199)
T d2omxa2         114 FNNQITDID-PLKNLTNLNRLELSSNTISDI-------------SALSGLTSLQQLNFSSNQVTDLKPLANLTTLERLDI  179 (199)
T ss_dssp             CSSCCCCCG-GGTTCTTCSEEECCSSCCCCC-------------GGGTTCTTCSEEECCSSCCCCCGGGTTCTTCCEEEC
T ss_pred             ccccccccc-ccchhhhhHHhhhhhhhhccc-------------ccccccccccccccccccccCCccccCCCCCCEEEC
Confidence            988877765 478889999999999985422             346678888889988887644   567788888888


Q ss_pred             eeeeeee
Q 038724          451 RRLNLEV  457 (483)
Q Consensus       451 ~~~~~~~  457 (483)
                      ++|.++.
T Consensus       180 s~N~i~~  186 (199)
T d2omxa2         180 SSNKVSD  186 (199)
T ss_dssp             CSSCCCC
T ss_pred             CCCCCCC
Confidence            8877764

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.53  E-value=2.2e-14  Score=113.41  Aligned_cols=104  Identities=23%  Similarity=0.315  Sum_probs=92.7

Q ss_pred             EEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          299 RRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       299 ~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      |.|++++|.++.++....+++|++|++++|.++.+|+. +..+++|++|++++|. +..+| .++.+++|++|++++|.+
T Consensus         1 R~L~Ls~n~l~~l~~l~~l~~L~~L~ls~N~l~~lp~~-~~~l~~L~~L~l~~N~-i~~l~-~~~~l~~L~~L~l~~N~i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPA-LAALRCLEVLQASDNA-LENVD-GVANLPRLQELLLCNNRL   77 (124)
T ss_dssp             SEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGG-GGGCTTCCEEECCSSC-CCCCG-GGTTCSSCCEEECCSSCC
T ss_pred             CEEEcCCCCCCCCcccccCCCCCEEECCCCccCcchhh-hhhhhccccccccccc-ccccC-ccccccccCeEECCCCcc
Confidence            46899999999998878899999999999999998775 7899999999999997 55666 599999999999999999


Q ss_pred             CccCc--cccCCcCCCEEecCCCCCcCCC
Q 038724          379 LELPE--ELKALEKLKYLDMDDHQQVMEE  405 (483)
Q Consensus       379 ~~lp~--~~~~l~~L~~L~l~~n~~~~~p  405 (483)
                      ..+|.  .+..+++|++|++++|.+...+
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~i~~~~  106 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNSLCQEE  106 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSGGGGSS
T ss_pred             CCCCCchhhcCCCCCCEEECCCCcCCcCc
Confidence            98874  5889999999999999976553

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.53  E-value=1.6e-14  Score=124.17  Aligned_cols=130  Identities=23%  Similarity=0.291  Sum_probs=87.7

Q ss_pred             EEEccccccccccCCCCCCcccEEEecCCcccc-ccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCC
Q 038724          300 RMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQD-IKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTST  378 (483)
Q Consensus       300 ~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~-~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i  378 (483)
                      .++.+++.++.+|..- .+++++|+|++|.++. +++..|..+++|+.|++++|.+....+..+..+++|++|++++|++
T Consensus        12 ~v~Cs~~~L~~iP~~l-p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l   90 (192)
T d1w8aa_          12 TVDCTGRGLKEIPRDI-PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI   90 (192)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCC
T ss_pred             EEEEeCCCcCccCCCC-CCCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccc
Confidence            4666777777666432 2567777777777754 4555567777777777777776666666777777777777777777


Q ss_pred             CccCcc-ccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCC
Q 038724          379 LELPEE-LKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCG  441 (483)
Q Consensus       379 ~~lp~~-~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~  441 (483)
                      ..+|+. |.++++|++|+|++|++..+|           +..|..+++|++|++++|++.+...
T Consensus        91 ~~l~~~~F~~l~~L~~L~L~~N~l~~i~-----------~~~f~~l~~L~~l~L~~N~~~~~~~  143 (192)
T d1w8aa_          91 KEISNKMFLGLHQLKTLNLYDNQISCVM-----------PGSFEHLNSLTSLNLASNPFNCNCH  143 (192)
T ss_dssp             CEECSSSSTTCTTCCEEECCSSCCCEEC-----------TTSSTTCTTCCEEECTTCCBCCSGG
T ss_pred             cccCHHHHhCCCcccccccCCccccccC-----------HHHhcCCcccccccccccccccccc
Confidence            777664 667777777777777765442           2235666777777777777654433

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.52  E-value=2.9e-14  Score=124.44  Aligned_cols=144  Identities=23%  Similarity=0.324  Sum_probs=88.3

Q ss_pred             ccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      +.+++.|++++|.++.+.....+++|++|++++|.++.+++  ++.+++|++|++++|+ +..+| .+..+++|+.|+++
T Consensus        45 L~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i~~l~~--~~~l~~L~~L~l~~n~-i~~l~-~l~~l~~L~~L~l~  120 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENK-VKDLS-SLKDLKKLKSLSLE  120 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSC-CCCGG-GGTTCTTCCEEECT
T ss_pred             hcCccEEECcCCCCCCchhHhhCCCCCEEeCCCccccCccc--cccCcccccccccccc-ccccc-cccccccccccccc
Confidence            44566677777776666655566777777777776666654  5566777777777765 34444 46666777777777


Q ss_pred             CCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccccce
Q 038724          375 FTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCLTSR  451 (483)
Q Consensus       375 ~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l~l~  451 (483)
                      +|.+..++ .+..+++|+.+++++|.+...             ..+..+++|+.+++++|++..   +.++++|+.|+++
T Consensus       121 ~~~~~~~~-~l~~l~~l~~l~~~~n~l~~~-------------~~~~~l~~L~~l~l~~n~l~~i~~l~~l~~L~~L~Ls  186 (210)
T d1h6ta2         121 HNGISDIN-GLVHLPQLESLYLGNNKITDI-------------TVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLS  186 (210)
T ss_dssp             TSCCCCCG-GGGGCTTCCEEECCSSCCCCC-------------GGGGGCTTCSEEECCSSCCCCCGGGTTCTTCCEEECC
T ss_pred             cccccccc-ccccccccccccccccccccc-------------ccccccccccccccccccccccccccCCCCCCEEECC
Confidence            77666554 356666677777776664322             224445566666666665432   3455566666666


Q ss_pred             eeeee
Q 038724          452 RLNLE  456 (483)
Q Consensus       452 ~~~~~  456 (483)
                      +|.++
T Consensus       187 ~N~i~  191 (210)
T d1h6ta2         187 KNHIS  191 (210)
T ss_dssp             SSCCC
T ss_pred             CCCCC
Confidence            55554

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=1.2e-14  Score=120.99  Aligned_cols=122  Identities=20%  Similarity=0.194  Sum_probs=67.6

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEE
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYL  394 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L  394 (483)
                      .+..++.|+|++|+++.++. .+..+++|++|++++|. +..++ .+..+++|++|++++|.+..+|+. +..+++|++|
T Consensus        16 n~~~lr~L~L~~n~I~~i~~-~~~~l~~L~~L~Ls~N~-i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L   92 (162)
T d1a9na_          16 NAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNE-IRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTEL   92 (162)
T ss_dssp             CTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSC-CCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEE
T ss_pred             CcCcCcEEECCCCCCCccCc-cccccccCCEEECCCCC-CCccC-CcccCcchhhhhcccccccCCCccccccccccccc
Confidence            34456666666666666543 34556666666666664 33443 356666666666666666666554 3456666666


Q ss_pred             ecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc--------CCCCCcccccc
Q 038724          395 DMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL--------CGLPTVQCLTS  450 (483)
Q Consensus       395 ~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l--------~~l~~l~~l~l  450 (483)
                      ++++|++...          .....+..+++|+.|++++|++..+        ..+|+|+.|+.
T Consensus        93 ~L~~N~i~~~----------~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          93 ILTNNSLVEL----------GDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             ECCSCCCCCG----------GGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             eecccccccc----------ccccccccccccchhhcCCCccccccchHHHHHHHCCCcCeeCC
Confidence            6666664422          1223455566666666666655332        33455555553

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.51  E-value=6.4e-14  Score=122.20  Aligned_cols=143  Identities=22%  Similarity=0.303  Sum_probs=120.2

Q ss_pred             cccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          292 ALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       292 ~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      +..+++|+.|++++|.++.+++...+++|++|++++|.++.++.  +..+++|+.|++++|. ...++ .+..+++++.+
T Consensus        64 l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~l~~--l~~l~~L~~L~l~~~~-~~~~~-~l~~l~~l~~l  139 (210)
T d1h6ta2          64 IQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSS--LKDLKKLKSLSLEHNG-ISDIN-GLVHLPQLESL  139 (210)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGG--GTTCTTCCEEECTTSC-CCCCG-GGGGCTTCCEE
T ss_pred             HhhCCCCCEEeCCCccccCccccccCcccccccccccccccccc--cccccccccccccccc-ccccc-ccccccccccc
Confidence            45678999999999999999888889999999999999998764  8889999999999996 44444 68899999999


Q ss_pred             eccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccc
Q 038724          372 DISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCL  448 (483)
Q Consensus       372 ~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l  448 (483)
                      ++++|.+...+ .+..+++|+.+++++|.+..+             ..+..+++|+.|++++|.+..   +.++++|+.|
T Consensus       140 ~~~~n~l~~~~-~~~~l~~L~~l~l~~n~l~~i-------------~~l~~l~~L~~L~Ls~N~i~~l~~l~~l~~L~~L  205 (210)
T d1h6ta2         140 YLGNNKITDIT-VLSRLTKLDTLSLEDNQISDI-------------VPLAGLTKLQNLYLSKNHISDLRALAGLKNLDVL  205 (210)
T ss_dssp             ECCSSCCCCCG-GGGGCTTCSEEECCSSCCCCC-------------GGGTTCTTCCEEECCSSCCCBCGGGTTCTTCSEE
T ss_pred             ccccccccccc-ccccccccccccccccccccc-------------ccccCCCCCCEEECCCCCCCCChhhcCCCCCCEE
Confidence            99999988765 478899999999999986532             237789999999999998755   5566677777


Q ss_pred             ccee
Q 038724          449 TSRR  452 (483)
Q Consensus       449 ~l~~  452 (483)
                      +++.
T Consensus       206 ~Ls~  209 (210)
T d1h6ta2         206 ELFS  209 (210)
T ss_dssp             EEEE
T ss_pred             EccC
Confidence            6643

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=3.8e-14  Score=117.77  Aligned_cols=130  Identities=19%  Similarity=0.217  Sum_probs=105.4

Q ss_pred             ccccceEEEEccccccccccCC-CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEE
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNT-PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L  371 (483)
                      ....+++.|++++|.|+.++.. ..+++|+.|++++|.++.++.  +..+++|++|++++|++....+..+..+++|++|
T Consensus        15 ~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~--~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L   92 (162)
T d1a9na_          15 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDG--FPLLRRLKTLLVNNNRICRIGEGLDQALPDLTEL   92 (162)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECC--CCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEE
T ss_pred             cCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCC--cccCcchhhhhcccccccCCCccccccccccccc
Confidence            3556789999999999999765 568999999999999998854  8899999999999997544334445679999999


Q ss_pred             eccCCCCCccCc--cccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceee
Q 038724          372 DISFTSTLELPE--ELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLT  432 (483)
Q Consensus       372 ~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~  432 (483)
                      ++++|.+..++.  .+..+++|++|++++|.+...|.        .....+..+++|+.|+-+
T Consensus        93 ~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i~~~~~--------~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_          93 ILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKH--------YRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             ECCSCCCCCGGGGGGGGGCTTCCEEECCSSGGGGSTT--------HHHHHHHHCTTCSEETTE
T ss_pred             eeccccccccccccccccccccchhhcCCCccccccc--------hHHHHHHHCCCcCeeCCC
Confidence            999999998875  57899999999999998764432        123346778899888744

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.46  E-value=8.6e-14  Score=129.53  Aligned_cols=170  Identities=18%  Similarity=0.200  Sum_probs=133.1

Q ss_pred             CccccccccceEEEEccc-ccccc-ccC-CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCccccc
Q 038724          288 VPSDALKWLGLRRMSLMN-NQIKT-LLN-TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISK  364 (483)
Q Consensus       288 ~~~~~~~~~~l~~l~l~~-~~~~~-~~~-~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~  364 (483)
                      ++..+..+++|++|++++ |.+++ +|+ ...+++|++|+|++|.+...++..+..+++|+++++++|.+...+|..++.
T Consensus        68 lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~  147 (313)
T d1ogqa_          68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISS  147 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGG
T ss_pred             CChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhcc
Confidence            556677889999999986 67773 443 367899999999999999888888888999999999999888889999999


Q ss_pred             CcCCCEEeccCCCCC-ccCccccCCcCC-CEEecCCCCCcCC-CC-CCCCc-----------------------------
Q 038724          365 LVSLQHLDISFTSTL-ELPEELKALEKL-KYLDMDDHQQVME-EG-NCQSD-----------------------------  411 (483)
Q Consensus       365 l~~L~~L~l~~~~i~-~lp~~~~~l~~L-~~L~l~~n~~~~~-p~-~~~l~-----------------------------  411 (483)
                      +++|+++++++|.+. .+|..+..+.++ +.+++++|++... |. +..+.                             
T Consensus       148 l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~  227 (313)
T d1ogqa_         148 LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIH  227 (313)
T ss_dssp             CTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEE
T ss_pred             Ccccceeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999999854 788888888776 7888888887654 33 22211                             


Q ss_pred             ----cchhhHhhhccccccccceeeccCcc-----ccCCCCCcccccceeeeeee
Q 038724          412 ----DAESLLKEMLCLEQLNIIRLTSCSLC-----SLCGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       412 ----~~~~~~~~l~~l~~L~~L~l~~~~l~-----~l~~l~~l~~l~l~~~~~~~  457 (483)
                          .....+..+..+++|+.|++++|++.     .+.++++|+.|++++|++..
T Consensus       228 ~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g  282 (313)
T d1ogqa_         228 LAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCG  282 (313)
T ss_dssp             CCSSEECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEE
T ss_pred             cccccccccccccccccccccccCccCeecccCChHHhCCCCCCEEECcCCcccc
Confidence                11123445677888999999999874     46778899999999988874

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.45  E-value=7.9e-14  Score=119.81  Aligned_cols=108  Identities=19%  Similarity=0.204  Sum_probs=95.9

Q ss_pred             cceEEEEccccccccccC-C--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          296 LGLRRMSLMNNQIKTLLN-T--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~-~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..++.|++++|.++...+ .  ..+++|+.|++++|.+..+++..|..+++|++|+|++|++....|..|.++++|++|+
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~  108 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLN  108 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEE
T ss_pred             CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeeccccccccCHHHHhCCCcccccc
Confidence            578899999999986443 3  4689999999999999999999999999999999999986666667799999999999


Q ss_pred             ccCCCCCccCcc-ccCCcCCCEEecCCCCCcC
Q 038724          373 ISFTSTLELPEE-LKALEKLKYLDMDDHQQVM  403 (483)
Q Consensus       373 l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~  403 (483)
                      |++|.+..+|+. |..+++|++|+|++|.+..
T Consensus       109 L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~  140 (192)
T d1w8aa_         109 LYDNQISCVMPGSFEHLNSLTSLNLASNPFNC  140 (192)
T ss_dssp             CCSSCCCEECTTSSTTCTTCCEEECTTCCBCC
T ss_pred             cCCccccccCHHHhcCCccccccccccccccc
Confidence            999999999876 7899999999999998654

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.43  E-value=1.6e-13  Score=127.65  Aligned_cols=181  Identities=14%  Similarity=0.148  Sum_probs=123.8

Q ss_pred             hhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS  360 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~  360 (483)
                      .+.+.+|..+..+++|++|++++|.+..+++.  ..+.+|+.+++++|.+....+..+..++.|+++++++|.+.+.+|.
T Consensus        88 ~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~  167 (313)
T d1ogqa_          88 NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD  167 (313)
T ss_dssp             TEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCG
T ss_pred             ccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCcccceeecccccccccccc
Confidence            45556777788899999999999998877653  4677888888888877766666688888888888888877677777


Q ss_pred             ccccCcCC-CEEeccCCCCC------------------------ccCccccCCcCCCEEecCCCCCcCC-CCCCCCc---
Q 038724          361 GISKLVSL-QHLDISFTSTL------------------------ELPEELKALEKLKYLDMDDHQQVME-EGNCQSD---  411 (483)
Q Consensus       361 ~~~~l~~L-~~L~l~~~~i~------------------------~lp~~~~~l~~L~~L~l~~n~~~~~-p~~~~l~---  411 (483)
                      .+..+..+ +.+++++|.+.                        .+|..+..+++|+.|++++|.+... |.++.++   
T Consensus       168 ~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~  247 (313)
T d1ogqa_         168 SYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLN  247 (313)
T ss_dssp             GGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            66666554 55555544321                        2333445566666666666665544 3332221   


Q ss_pred             --------cchhhHhhhccccccccceeeccCcc----ccCCCCCcccccceeee-eeeeecccc
Q 038724          412 --------DAESLLKEMLCLEQLNIIRLTSCSLC----SLCGLPTVQCLTSRRLN-LEVEDWHKC  463 (483)
Q Consensus       412 --------~~~~~~~~l~~l~~L~~L~l~~~~l~----~l~~l~~l~~l~l~~~~-~~~~~~~~~  463 (483)
                              .....|+.+..|++|+.|+|++|++.    .+..+++|+.+++++|+ +...+...|
T Consensus       248 ~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~~~~L~~L~~l~l~~N~~l~g~plp~c  312 (313)
T d1ogqa_         248 GLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGSPLPAC  312 (313)
T ss_dssp             EEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCSTTGGGSCGGGTCSSSEEESTTSSCC
T ss_pred             cccCccCeecccCChHHhCCCCCCEEECcCCcccccCCCcccCCCCCHHHhCCCccccCCCCCCC
Confidence                    23367788999999999999999875    34456677777777765 444444444

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.43  E-value=4.2e-13  Score=122.89  Aligned_cols=173  Identities=18%  Similarity=0.139  Sum_probs=95.3

Q ss_pred             hhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEec-CCccccccchhhhcCCCccEEEccCCccCccCC
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLN-DNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP  359 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~-~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p  359 (483)
                      .+..+....+..+++++.+++++|.+..++..  ..+..+..+... .+.++.+++..|..+++|++|++++|.+....+
T Consensus        43 ~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~  122 (284)
T d1ozna_          43 RISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGP  122 (284)
T ss_dssp             CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCT
T ss_pred             cCCCCCHHHhhccccccccccccccccccccccccccccccccccccccccccccchhhcccccCCEEecCCcccccccc
Confidence            33344444455566666666666666554432  123334443332 233444444455566666666666665433344


Q ss_pred             cccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCcCC-CC-CCCCc-----------cchhhHhhhccccc
Q 038724          360 SGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQVME-EG-NCQSD-----------DAESLLKEMLCLEQ  425 (483)
Q Consensus       360 ~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~~~-p~-~~~l~-----------~~~~~~~~l~~l~~  425 (483)
                      ..+....+|+.+++++|.++.+|.. +..+++|++|++++|.+..+ |. +..++           .....+..+..+++
T Consensus       123 ~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~  202 (284)
T d1ozna_         123 GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGR  202 (284)
T ss_dssp             TTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTT
T ss_pred             cccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchhhhccccccchhhhhhccccccChhHhhhhhh
Confidence            4555566666666666666666543 45556666666666665544 22 22211           22334566788888


Q ss_pred             cccceeeccCccc-----cCCCCCcccccceeeee
Q 038724          426 LNIIRLTSCSLCS-----LCGLPTVQCLTSRRLNL  455 (483)
Q Consensus       426 L~~L~l~~~~l~~-----l~~l~~l~~l~l~~~~~  455 (483)
                      |+.|++++|.+..     +..+++|+.|++++|.+
T Consensus       203 L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l  237 (284)
T d1ozna_         203 LMTLYLFANNLSALPTEALAPLRALQYLRLNDNPW  237 (284)
T ss_dssp             CCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCE
T ss_pred             cccccccccccccccccccccccccCEEEecCCCC
Confidence            8888888888744     35666666666655443

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=5.2e-13  Score=122.25  Aligned_cols=149  Identities=22%  Similarity=0.222  Sum_probs=125.1

Q ss_pred             hhcccCccccccccceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc
Q 038724          283 KLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS  360 (483)
Q Consensus       283 ~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~  360 (483)
                      .+..+.+..+..+++|+.+++++|.+..++..  ..+.+|+.+++++|.++.+++..|..+++|+.|++++|++....|.
T Consensus        92 ~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~  171 (284)
T d1ozna_          92 QLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPER  171 (284)
T ss_dssp             TCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEECTT
T ss_pred             ccccccchhhcccccCCEEecCCcccccccccccchhcccchhhhccccccccChhHhccccchhhcccccCcccccchh
Confidence            34445566677788999999999998877654  4678999999999999999988899999999999999986666677


Q ss_pred             ccccCcCCCEEeccCCCCCcc-CccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCcccc
Q 038724          361 GISKLVSLQHLDISFTSTLEL-PEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSL  439 (483)
Q Consensus       361 ~~~~l~~L~~L~l~~~~i~~l-p~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l  439 (483)
                      .+..+++|+++++++|.+..+ |..|..+++|++|++++|.+...           .+..+..+++|+.|++++|++.+-
T Consensus       172 ~f~~l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~-----------~~~~~~~~~~L~~L~l~~N~l~C~  240 (284)
T d1ozna_         172 AFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSAL-----------PTEALAPLRALQYLRLNDNPWVCD  240 (284)
T ss_dssp             TTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCC-----------CHHHHTTCTTCCEEECCSSCEECS
T ss_pred             hhccccccchhhhhhccccccChhHhhhhhhcccccccccccccc-----------cccccccccccCEEEecCCCCCCC
Confidence            889999999999999998777 55689999999999999997644           345678899999999999998765


Q ss_pred             CCC
Q 038724          440 CGL  442 (483)
Q Consensus       440 ~~l  442 (483)
                      +++
T Consensus       241 C~~  243 (284)
T d1ozna_         241 CRA  243 (284)
T ss_dssp             GGG
T ss_pred             ccc
Confidence            544

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.39  E-value=5e-13  Score=115.36  Aligned_cols=156  Identities=17%  Similarity=0.230  Sum_probs=119.4

Q ss_pred             EccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCcc
Q 038724          302 SLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLEL  381 (483)
Q Consensus       302 ~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~l  381 (483)
                      .+..+.+++......+.++++|++++|.+..+..  ++.+++|++|++++|++. .++ .++.+++|++|++++|.+..+
T Consensus        24 ~l~~~~~~~~~~~~~l~~l~~L~l~~~~i~~l~~--l~~l~nL~~L~Ls~N~l~-~~~-~l~~l~~L~~L~l~~n~~~~~   99 (199)
T d2omxa2          24 VLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNNQLT-DIT-PLKNLTKLVDILMNNNQIADI   99 (199)
T ss_dssp             HTTCSSTTSEECHHHHTTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSCCC-CCG-GGTTCTTCCEEECCSSCCCCC
T ss_pred             HhCCCCCCCccCHHHhcCCCEEECCCCCCCCccc--cccCCCcCcCcccccccc-Ccc-cccCCcccccccccccccccc
Confidence            3444555555444567899999999999988754  788999999999999754 444 399999999999999999998


Q ss_pred             CccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCcccccceeeeeeee
Q 038724          382 PEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCLTSRRLNLEVE  458 (483)
Q Consensus       382 p~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l~l~~~~~~~~  458 (483)
                      |. +..+++|+.|++++|....             ...+..+++|+.|++++|++..   +..+++++.|++.++.+...
T Consensus       100 ~~-l~~l~~L~~L~l~~~~~~~-------------~~~~~~l~~L~~L~l~~n~l~~~~~l~~~~~L~~L~l~~n~l~~l  165 (199)
T d2omxa2         100 TP-LANLTNLTGLTLFNNQITD-------------IDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSNQVTDL  165 (199)
T ss_dssp             GG-GTTCTTCSEEECCSSCCCC-------------CGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCC
T ss_pred             cc-ccccccccccccccccccc-------------ccccchhhhhHHhhhhhhhhcccccccccccccccccccccccCC
Confidence            74 8899999999999998543             2346789999999999998744   67778999999988877653


Q ss_pred             e-cccccCccceeecCCccc
Q 038724          459 D-WHKCTGEVHKVLQSGGSE  477 (483)
Q Consensus       459 ~-~~~~~~~~~~~~~~~~~~  477 (483)
                      + +..+..+  ..+++.++.
T Consensus       166 ~~l~~l~~L--~~L~ls~N~  183 (199)
T d2omxa2         166 KPLANLTTL--ERLDISSNK  183 (199)
T ss_dssp             GGGTTCTTC--CEEECCSSC
T ss_pred             ccccCCCCC--CEEECCCCC
Confidence            2 3333333  445555543

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.38  E-value=2.6e-12  Score=113.28  Aligned_cols=146  Identities=19%  Similarity=0.279  Sum_probs=79.5

Q ss_pred             ccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..+++|+.+++++|.++.+.+...+++++++++++|.++.++.  +..+++|++++++++.....  ..+.....+..+.
T Consensus        60 ~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~i~~--l~~l~~L~~l~l~~~~~~~~--~~~~~~~~~~~l~  135 (227)
T d1h6ua2          60 QYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSA--IAGLQSIKTLDLTSTQITDV--TPLAGLSNLQVLY  135 (227)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCGG--GTTCTTCCEEECTTSCCCCC--GGGTTCTTCCEEE
T ss_pred             hcCCCCcEeecCCceeecccccccccccccccccccccccccc--cccccccccccccccccccc--chhccccchhhhh
Confidence            3456666666666666665555566666666666665555433  45566666666666542221  1233334444444


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc---cCCCCCccccc
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS---LCGLPTVQCLT  449 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~---l~~l~~l~~l~  449 (483)
                      ++.+.+...+ .+..+++|++|++++|.+...             ..+..+++|+.|++++|.+..   +..+++|+.|+
T Consensus       136 ~~~~~~~~~~-~~~~~~~L~~L~l~~n~~~~~-------------~~l~~l~~L~~L~Ls~n~l~~l~~l~~l~~L~~L~  201 (227)
T d1h6ua2         136 LDLNQITNIS-PLAGLTNLQYLSIGNAQVSDL-------------TPLANLSKLTTLKADDNKISDISPLASLPNLIEVH  201 (227)
T ss_dssp             CCSSCCCCCG-GGGGCTTCCEEECCSSCCCCC-------------GGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEE
T ss_pred             chhhhhchhh-hhccccccccccccccccccc-------------hhhcccccceecccCCCccCCChhhcCCCCCCEEE
Confidence            4444433332 245566677777776664321             124556666666666665533   34556666666


Q ss_pred             ceeeeee
Q 038724          450 SRRLNLE  456 (483)
Q Consensus       450 l~~~~~~  456 (483)
                      +++|+++
T Consensus       202 Ls~N~lt  208 (227)
T d1h6ua2         202 LKNNQIS  208 (227)
T ss_dssp             CTTSCCC
T ss_pred             CcCCcCC
Confidence            6666554

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.37  E-value=2e-12  Score=119.62  Aligned_cols=164  Identities=20%  Similarity=0.209  Sum_probs=110.9

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCc-------------
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPS-------------  360 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~-------------  360 (483)
                      +.+++|++++|+++.+++.  ..+++|++|++++|.+..+++..|..+++|++|++++|++ ..+|.             
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l-~~l~~~~~~~l~~L~~~~  109 (305)
T d1xkua_          31 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL-KELPEKMPKTLQELRVHE  109 (305)
T ss_dssp             TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCC-SBCCSSCCTTCCEEECCS
T ss_pred             CCCCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCcc-CcCccchhhhhhhhhccc
Confidence            4577788888888777753  4677888888888877777776677778888888877752 22221             


Q ss_pred             -----------------------------------ccccCcCCCEEeccCCCCCccCccccCCcCCCEEecCCCCCcCC-
Q 038724          361 -----------------------------------GISKLVSLQHLDISFTSTLELPEELKALEKLKYLDMDDHQQVME-  404 (483)
Q Consensus       361 -----------------------------------~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~-  404 (483)
                                                         .+..+++|+++++++|.+..+|..+  +++|+.|++++|..... 
T Consensus       110 n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~~--~~~L~~L~l~~n~~~~~~  187 (305)
T d1xkua_         110 NEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL--PPSLTELHLDGNKITKVD  187 (305)
T ss_dssp             SCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSC--CTTCSEEECTTSCCCEEC
T ss_pred             cchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccccCccc--CCccCEEECCCCcCCCCC
Confidence                                               2445566777777777777776543  46777777777765554 


Q ss_pred             CC-CCCCc-----------cchhhHhhhccccccccceeeccCccc----cCCCCCcccccceeeeeeeeeccc
Q 038724          405 EG-NCQSD-----------DAESLLKEMLCLEQLNIIRLTSCSLCS----LCGLPTVQCLTSRRLNLEVEDWHK  462 (483)
Q Consensus       405 p~-~~~l~-----------~~~~~~~~l~~l~~L~~L~l~~~~l~~----l~~l~~l~~l~l~~~~~~~~~~~~  462 (483)
                      |. +..+.           .....+..+..+++|+.|++++|++..    +..+++|+.|++++|++...+...
T Consensus       188 ~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~N~i~~i~~~~  261 (305)
T d1xkua_         188 AASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSND  261 (305)
T ss_dssp             TGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCCCTTS
T ss_pred             hhHhhccccccccccccccccccccccccccccceeeecccccccccccccccccCCCEEECCCCccCccChhh
Confidence            22 22221           222234556778899999999998754    567888999999888887654433

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.33  E-value=4.6e-12  Score=121.00  Aligned_cols=101  Identities=22%  Similarity=0.316  Sum_probs=50.3

Q ss_pred             ccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEecc
Q 038724          295 WLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDIS  374 (483)
Q Consensus       295 ~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~  374 (483)
                      ..+++.+++.+|.++.++....+++|+.|++++|.++.+++  +..+++|++|++++|.+. .++ .+..+..++.+.++
T Consensus       218 ~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~--~~~~~~L~~L~l~~~~l~-~~~-~~~~~~~l~~l~~~  293 (384)
T d2omza2         218 LTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQIS-NIS-PLAGLTALTNLELN  293 (384)
T ss_dssp             CTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCCCCCGG--GTTCTTCSEEECCSSCCC-CCG-GGTTCTTCSEEECC
T ss_pred             cCCCCEEECCCCCCCCcchhhcccccchhccccCccCCCCc--ccccccCCEeeccCcccC-CCC-cccccccccccccc
Confidence            34455566666655555444455556666666555555443  455555566655555422 222 24444444444444


Q ss_pred             CCCCCccCccccCCcCCCEEecCCCC
Q 038724          375 FTSTLELPEELKALEKLKYLDMDDHQ  400 (483)
Q Consensus       375 ~~~i~~lp~~~~~l~~L~~L~l~~n~  400 (483)
                      .|.+..++ .+..++++++|++++|+
T Consensus       294 ~n~l~~~~-~~~~~~~l~~L~ls~n~  318 (384)
T d2omza2         294 ENQLEDIS-PISNLKNLTYLTLYFNN  318 (384)
T ss_dssp             SSCCSCCG-GGGGCTTCSEEECCSSC
T ss_pred             cccccccc-ccchhcccCeEECCCCC
Confidence            44444432 23444444444444444

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.33  E-value=4e-12  Score=117.49  Aligned_cols=144  Identities=14%  Similarity=0.116  Sum_probs=117.4

Q ss_pred             ccccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCC
Q 038724          289 PSDALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSL  368 (483)
Q Consensus       289 ~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L  368 (483)
                      ...+..+.+++.+++.+|.++.++.. .+++|+.|++++|.....++..|..++.+++|++++|.+....|..+..+++|
T Consensus       143 ~~~~~~l~~L~~l~l~~n~l~~l~~~-~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L  221 (305)
T d1xkua_         143 NGAFQGMKKLSYIRIADTNITTIPQG-LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHL  221 (305)
T ss_dssp             TTGGGGCTTCCEEECCSSCCCSCCSS-CCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTC
T ss_pred             ccccccccccCccccccCCccccCcc-cCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccc
Confidence            34455677889999999999877543 57899999999998888888889999999999999998777677888999999


Q ss_pred             CEEeccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccc
Q 038724          369 QHLDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       369 ~~L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      ++|++++|.++++|..+..+++|++|+|++|++..++..     .-..+.....+.+|+.|++++|++..
T Consensus       222 ~~L~L~~N~L~~lp~~l~~l~~L~~L~Ls~N~i~~i~~~-----~f~~~~~~~~~~~L~~L~L~~N~~~~  286 (305)
T d1xkua_         222 RELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSN-----DFCPPGYNTKKASYSGVSLFSNPVQY  286 (305)
T ss_dssp             CEEECCSSCCSSCCTTTTTCSSCCEEECCSSCCCCCCTT-----SSSCSSCCTTSCCCSEEECCSSSSCG
T ss_pred             eeeecccccccccccccccccCCCEEECCCCccCccChh-----hccCcchhcccCCCCEEECCCCcCcc
Confidence            999999999999999999999999999999997766330     00112234567789999999998754

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.33  E-value=5.4e-12  Score=111.23  Aligned_cols=163  Identities=20%  Similarity=0.263  Sum_probs=129.3

Q ss_pred             ccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEe
Q 038724          293 LKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLD  372 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~  372 (483)
                      ..+.+++.|++.+|.++.+.....+++|++|++++|.+..+.+  +..+++|+++++++|. ...++ .+..+++|++++
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~~~--l~~l~~l~~l~~~~n~-~~~i~-~l~~l~~L~~l~  113 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNP-LKNVS-AIAGLQSIKTLD  113 (227)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCC-CSCCG-GGTTCTTCCEEE
T ss_pred             HHcCCcCEEECCCCCCCcchhHhcCCCCcEeecCCceeecccc--cccccccccccccccc-ccccc-cccccccccccc
Confidence            3567899999999999998777889999999999999988776  8899999999999996 44554 688999999999


Q ss_pred             ccCCCCCccCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc---cccCCCCCccccc
Q 038724          373 ISFTSTLELPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL---CSLCGLPTVQCLT  449 (483)
Q Consensus       373 l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l---~~l~~l~~l~~l~  449 (483)
                      ++++....++. +...+.+..+.++++.+...             ..+...++|+.|.+++|.+   ..+.++++|+.|+
T Consensus       114 l~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~-------------~~~~~~~~L~~L~l~~n~~~~~~~l~~l~~L~~L~  179 (227)
T d1h6ua2         114 LTSTQITDVTP-LAGLSNLQVLYLDLNQITNI-------------SPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLK  179 (227)
T ss_dssp             CTTSCCCCCGG-GTTCTTCCEEECCSSCCCCC-------------GGGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             cccccccccch-hccccchhhhhchhhhhchh-------------hhhccccccccccccccccccchhhcccccceecc
Confidence            99998777653 66778999999998875422             2366788999999999976   3478899999999


Q ss_pred             ceeeeeeeee-cccccCccceeecC
Q 038724          450 SRRLNLEVED-WHKCTGEVHKVLQS  473 (483)
Q Consensus       450 l~~~~~~~~~-~~~~~~~~~~~~~~  473 (483)
                      +++|.+...+ +..+..+.+..++-
T Consensus       180 Ls~n~l~~l~~l~~l~~L~~L~Ls~  204 (227)
T d1h6ua2         180 ADDNKISDISPLASLPNLIEVHLKN  204 (227)
T ss_dssp             CCSSCCCCCGGGGGCTTCCEEECTT
T ss_pred             cCCCccCCChhhcCCCCCCEEECcC
Confidence            9998886542 34444444444433

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.26  E-value=1e-13  Score=119.37  Aligned_cols=107  Identities=21%  Similarity=0.266  Sum_probs=54.2

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCCCCccCccccCCcCCCEEe
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTSTLELPEELKALEKLKYLD  395 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~  395 (483)
                      .+++|++|+|++|.++.+++  +..+++|++|++++|. +..+|.....+.+|++|++++|.+..++ .+..+++|+.|+
T Consensus        46 ~L~~L~~L~Ls~n~I~~i~~--l~~l~~L~~L~Ls~N~-i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~  121 (198)
T d1m9la_          46 TLKACKHLALSTNNIEKISS--LSGMENLRILSLGRNL-IKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVLY  121 (198)
T ss_dssp             HTTTCCEEECSEEEESCCCC--HHHHTTCCEEECCEEE-ECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEEE
T ss_pred             cccccceeECcccCCCCccc--ccCCccccChhhcccc-cccccccccccccccccccccccccccc-cccccccccccc
Confidence            34555555555555555432  4555555555555554 3344433334445555555555555553 245555555555


Q ss_pred             cCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCc
Q 038724          396 MDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       396 l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                      +++|++..          ...+..+..+++|+.|++++|++
T Consensus       122 L~~N~i~~----------~~~~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_         122 MSNNKITN----------WGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             ESEEECCC----------HHHHHHHTTTTTCSEEEECSSHH
T ss_pred             cccchhcc----------ccccccccCCCccceeecCCCcc
Confidence            55555331          11223455555555555555544

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=2.7e-11  Score=107.72  Aligned_cols=187  Identities=16%  Similarity=0.128  Sum_probs=111.1

Q ss_pred             cceEEEEccccccccccCC--CCCCcccEEEecCCcccc-ccchhhhcCCCccEEEccC-CccCccCCcccccCcCCCEE
Q 038724          296 LGLRRMSLMNNQIKTLLNT--PSCPHLLTLFLNDNYLQD-IKNGFFQFMPCLKVLNLSY-NRFLTKLPSGISKLVSLQHL  371 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~~~~--~~~~~L~~L~l~~n~~~~-~~~~~~~~l~~L~~L~l~~-n~~~~~~p~~~~~l~~L~~L  371 (483)
                      .++++|++++|.++.++..  ..+++|++|++++|.+.. +++..|..++.++++.+.. |.+....|..+..+++|++|
T Consensus        29 ~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l  108 (242)
T d1xwdc1          29 RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYL  108 (242)
T ss_dssp             SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEE
T ss_pred             CCCCEEECcCCcCCccChhHhhccchhhhhhhccccccceeecccccccccccccccccccccccccccccccccccccc
Confidence            3577788888887777654  457778888888776654 4555567777777777654 44444555667777888888


Q ss_pred             eccCCCCCccCcc--ccCCcCCCEEecCCCCCcCCCC--CCCCc-----------cchhhHhhhccccccccc-eeeccC
Q 038724          372 DISFTSTLELPEE--LKALEKLKYLDMDDHQQVMEEG--NCQSD-----------DAESLLKEMLCLEQLNII-RLTSCS  435 (483)
Q Consensus       372 ~l~~~~i~~lp~~--~~~l~~L~~L~l~~n~~~~~p~--~~~l~-----------~~~~~~~~l~~l~~L~~L-~l~~~~  435 (483)
                      ++++|.+...|..  +..++.+..+...++.+..++.  +..+.           .....+......+++..+ .+.+|.
T Consensus       109 ~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~~~~l~~~~~l~~n~  188 (242)
T d1xwdc1         109 LISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNN  188 (242)
T ss_dssp             EEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTTTTCCEEEEECTTCTT
T ss_pred             ccchhhhcccccccccccccccccccccccccccccccccccccccceeeecccccccccccccccchhhhccccccccc
Confidence            8887777665542  3344445455555555444421  21111           011112222233444333 455565


Q ss_pred             ccc-----cCCCCCcccccceeeeeeeeecccccCccc-eeecCCcccccccC
Q 038724          436 LCS-----LCGLPTVQCLTSRRLNLEVEDWHKCTGEVH-KVLQSGGSEIFTPL  482 (483)
Q Consensus       436 l~~-----l~~l~~l~~l~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  482 (483)
                      +..     +.++++|+.|+++++++...+-..+..+.. +.++..+.+-+||+
T Consensus       189 l~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~~~l~~lp~~  241 (242)
T d1xwdc1         189 LEELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNLKKLPTL  241 (242)
T ss_dssp             CCCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSEESSSCSCCC
T ss_pred             cccccHHHhcCCCCCCEEECCCCcCCccCHHHHcCCcccccCcCCCCCcCCCC
Confidence            533     466788888988888888665555666555 45666666666664

>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=99.19  E-value=1.4e-11  Score=112.06  Aligned_cols=156  Identities=17%  Similarity=0.216  Sum_probs=95.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----ccchhHHh----
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----LETSQDDM----   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----~~~~~~~i----   71 (483)
                      +||+++++++.+.    ..+.|.|+|++|+|||+|+++++++.   ...   ..|+.......     ...+...+    
T Consensus        15 ~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~---~~~---~~~i~~~~~~~~~~~~~~~~~~~~~~~~   84 (283)
T d2fnaa2          15 FDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL---NLP---YIYLDLRKFEERNYISYKDFLLELQKEI   84 (283)
T ss_dssp             CCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH---TCC---EEEEEGGGGTTCSCCCHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC---CCC---eEEEEeccccccccccHHHHHHHHHHHh
Confidence            7999999998764    33689999999999999999998876   222   23443221111     11111111    


Q ss_pred             -----------------------------------------------hhcCCcEEEEEcCCCCccc------cccccCCC
Q 038724           72 -----------------------------------------------ILSTKKFLLLLDDLWETID------LSKIGVPL   98 (483)
Q Consensus        72 -----------------------------------------------~l~~~~~LlvlDdv~~~~~------~~~l~~~~   98 (483)
                                                                     ...++++++|+|++.....      ...+....
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~~~  164 (283)
T d2fnaa2          85 NKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYAY  164 (283)
T ss_dssp             HHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHHH
T ss_pred             hhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHHHHH
Confidence                                                           3558899999999853211      11111110


Q ss_pred             CCCCCCCEEEEecCChhhh----------------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHc
Q 038724           99 PSQKIVSKVVFTTHSEEVC----------------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDC  156 (483)
Q Consensus        99 ~~~~~gs~ilvTtR~~~~~----------------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c  156 (483)
                       ........+++.+.....                      +++++.+++.+++.+....... ..    +..++|++.+
T Consensus       165 -~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~-~~----~~~~~i~~~~  238 (283)
T d2fnaa2         165 -DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADI-DF----KDYEVVYEKI  238 (283)
T ss_dssp             -HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTC-CC----CCHHHHHHHH
T ss_pred             -HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCC-CH----HHHHHHHHHh
Confidence             111223444443332211                      7899999999999876533221 11    1267999999


Q ss_pred             CCchHHHHHHHHHhcC
Q 038724          157 GGLPLALTIVGRAMAY  172 (483)
Q Consensus       157 ~g~Plal~~~~~~l~~  172 (483)
                      +|+|..+..++..+..
T Consensus       239 ~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         239 GGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             CSCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999876643

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=7e-11  Score=96.96  Aligned_cols=103  Identities=16%  Similarity=0.157  Sum_probs=81.5

Q ss_pred             EEEccccccccccCC-CCCCcccEEEecCC-ccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC
Q 038724          300 RMSLMNNQIKTLLNT-PSCPHLLTLFLNDN-YLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS  377 (483)
Q Consensus       300 ~l~l~~~~~~~~~~~-~~~~~L~~L~l~~n-~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~  377 (483)
                      .++..++.+...+.. ..+++|+.|++++| .++.+++..|.++++|+.|++++|++....|..|..+++|++|+|++|+
T Consensus        12 ~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             eEEecCCCCccCcccccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccceeccCCC
Confidence            466677776666543 56788899998765 5888888878889999999999997655556778889999999999999


Q ss_pred             CCccCccccCCcCCCEEecCCCCCc
Q 038724          378 TLELPEELKALEKLKYLDMDDHQQV  402 (483)
Q Consensus       378 i~~lp~~~~~l~~L~~L~l~~n~~~  402 (483)
                      ++.+|.++....+|++|+|++|.+.
T Consensus        92 l~~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          92 LESLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             CSCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             CcccChhhhccccccccccCCCccc
Confidence            9999888666667899999988754

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.17  E-value=1.1e-10  Score=111.26  Aligned_cols=162  Identities=22%  Similarity=0.233  Sum_probs=126.3

Q ss_pred             ccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          291 DALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      ....++++..+.+++|.++.+++...+++|+.|++++|.++.++.  +..+++|+.|++++|.+. .++ .++.+++|++
T Consensus       192 ~~~~l~~~~~l~l~~n~i~~~~~~~~~~~L~~L~l~~n~l~~~~~--l~~l~~L~~L~l~~n~l~-~~~-~~~~~~~L~~  267 (384)
T d2omza2         192 VLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGT--LASLTNLTDLDLANNQIS-NLA-PLSGLTKLTE  267 (384)
T ss_dssp             GGGGCTTCSEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG--GGGCTTCSEEECCSSCCC-CCG-GGTTCTTCSE
T ss_pred             ccccccccceeeccCCccCCCCcccccCCCCEEECCCCCCCCcch--hhcccccchhccccCccC-CCC-cccccccCCE
Confidence            344567788999999999998887888999999999999888754  788999999999999754 444 4888999999


Q ss_pred             EeccCCCCCccCccccCCcCCCEEecCCCCCcCCCC---CCCCc------cchhhHhhhccccccccceeeccCcc---c
Q 038724          371 LDISFTSTLELPEELKALEKLKYLDMDDHQQVMEEG---NCQSD------DAESLLKEMLCLEQLNIIRLTSCSLC---S  438 (483)
Q Consensus       371 L~l~~~~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~---~~~l~------~~~~~~~~l~~l~~L~~L~l~~~~l~---~  438 (483)
                      |+++++.+..+++ +..++.++.+++++|.+...+.   ...+.      ........+..+++|+.|++++|++.   .
T Consensus       268 L~l~~~~l~~~~~-~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l~~l~~l~~l~~L~~L~L~~n~l~~l~~  346 (384)
T d2omza2         268 LKLGANQISNISP-LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSS  346 (384)
T ss_dssp             EECCSSCCCCCGG-GTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCCSCCGGGGGCTTCCEEECCSSCCCCCGG
T ss_pred             eeccCcccCCCCc-cccccccccccccccccccccccchhcccCeEECCCCCCCCCcccccCCCCCEEECCCCCCCCChh
Confidence            9999999988875 7788999999999998766532   12221      11111234778889999999999764   4


Q ss_pred             cCCCCCcccccceeeeeee
Q 038724          439 LCGLPTVQCLTSRRLNLEV  457 (483)
Q Consensus       439 l~~l~~l~~l~l~~~~~~~  457 (483)
                      +.++++|+.|++++|++..
T Consensus       347 l~~l~~L~~L~l~~N~l~~  365 (384)
T d2omza2         347 LANLTNINWLSAGHNQISD  365 (384)
T ss_dssp             GGGCTTCCEEECCSSCCCB
T ss_pred             HcCCCCCCEEECCCCcCCC
Confidence            6677888888888887764

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.16  E-value=3.3e-13  Score=116.08  Aligned_cols=135  Identities=25%  Similarity=0.299  Sum_probs=103.9

Q ss_pred             ccccccceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCE
Q 038724          291 DALKWLGLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQH  370 (483)
Q Consensus       291 ~~~~~~~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~  370 (483)
                      .+..+.+++.|++++|.++.++....+++|+.|++++|.++.+++. +..+++|++|++++|. +..++ .+..+++|++
T Consensus        43 sl~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~i~~~-~~~~~~L~~L~l~~N~-i~~l~-~~~~l~~L~~  119 (198)
T d1m9la_          43 TLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENL-DAVADTLEELWISYNQ-IASLS-GIEKLVNLRV  119 (198)
T ss_dssp             HHHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECSCSSH-HHHHHHCCEEECSEEE-CCCHH-HHHHHHHSSE
T ss_pred             HHhcccccceeECcccCCCCcccccCCccccChhhccccccccccc-cccccccccccccccc-ccccc-cccccccccc
Confidence            3556889999999999999987667889999999999999888653 5556789999999997 45554 5889999999


Q ss_pred             EeccCCCCCccCc--cccCCcCCCEEecCCCCCcCC-CCCCCCccchhhHhhhccccccccce
Q 038724          371 LDISFTSTLELPE--ELKALEKLKYLDMDDHQQVME-EGNCQSDDAESLLKEMLCLEQLNIIR  430 (483)
Q Consensus       371 L~l~~~~i~~lp~--~~~~l~~L~~L~l~~n~~~~~-p~~~~l~~~~~~~~~l~~l~~L~~L~  430 (483)
                      |++++|.+..++.  .+..+++|+.|++++|.+... +.....  ......-+..+++|+.|+
T Consensus       120 L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~--~~~r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         120 LYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNAT--SEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             EEESEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTH--HHHHHHHHHHCSSCCEES
T ss_pred             cccccchhccccccccccCCCccceeecCCCccccCcccccch--hhHHHHHHHHCCCcCEeC
Confidence            9999999998874  589999999999999986544 221100  000112255677777765

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.02  E-value=3.7e-10  Score=92.57  Aligned_cols=114  Identities=16%  Similarity=0.074  Sum_probs=89.9

Q ss_pred             CCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCC-cccccCcCCCEEeccCCCCCccCcc-ccCCcCCCE
Q 038724          316 SCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLP-SGISKLVSLQHLDISFTSTLELPEE-LKALEKLKY  393 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p-~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~  393 (483)
                      .+.....++.+++++...+.. +..+++|+.|++++|+.+..++ ..|..+++|+.|++++|.|+.+++. |..+++|++
T Consensus         6 ~c~~~~~l~c~~~~~~~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~   84 (156)
T d2ifga3           6 CPHGSSGLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSR   84 (156)
T ss_dssp             CCSSSSCEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCE
T ss_pred             CcCCCCeEEecCCCCccCccc-ccCccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccccccccccc
Confidence            344566788898888877665 7788999999998775455554 5689999999999999999999665 899999999


Q ss_pred             EecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccCccccCCC
Q 038724          394 LDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCSLCSLCGL  442 (483)
Q Consensus       394 L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~l~~l~~l  442 (483)
                      |+|++|++..+|.           ..+. ..+|+.|+|++|++.+-+.+
T Consensus        85 L~Ls~N~l~~l~~-----------~~~~-~~~l~~L~L~~Np~~C~C~~  121 (156)
T d2ifga3          85 LNLSFNALESLSW-----------KTVQ-GLSLQELVLSGNPLHCSCAL  121 (156)
T ss_dssp             EECCSSCCSCCCS-----------TTTC-SCCCCEEECCSSCCCCCGGG
T ss_pred             eeccCCCCcccCh-----------hhhc-cccccccccCCCcccCCchH
Confidence            9999999876643           1133 23699999999998654444

>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=98.99  E-value=4.1e-10  Score=98.83  Aligned_cols=156  Identities=12%  Similarity=0.124  Sum_probs=101.5

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh--------h
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM--------I   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i--------~   72 (483)
                      ||.++.++.|..++..+..+.+.++|++|+||||+|+.+++.. ........+.-+..+............        .
T Consensus        17 vg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l-~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~   95 (227)
T d1sxjc2          17 YGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI-YGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQI   95 (227)
T ss_dssp             CSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH-HTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCS
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHh-hcCCCcceeEEecccccCCeeeeecchhhccccccc
Confidence            6889999999999998887778899999999999999999876 212211222333333333322222222        2


Q ss_pred             hcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCCc
Q 038724           73 LSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        73 l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      ..++...+|+|+++...  ....+...+......++++++|....-.            +.+++.++....+.+.+..+.
T Consensus        96 ~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~~e~  175 (227)
T d1sxjc2          96 FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEK  175 (227)
T ss_dssp             SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             cCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccccccccccccccccccccc
Confidence            33455688999997552  2233333333334457777776654332            888999999988888775554


Q ss_pred             ccCCCCchhHHHHHHhHcCCch
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      .   .-..+..+.|++.++|-.
T Consensus       176 i---~i~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         176 L---KLSPNAEKALIELSNGDM  194 (227)
T ss_dssp             C---CBCHHHHHHHHHHHTTCH
T ss_pred             c---cCCHHHHHHHHHHcCCcH
Confidence            2   223456788999998864

>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=98.96  E-value=3.2e-10  Score=99.33  Aligned_cols=158  Identities=9%  Similarity=0.117  Sum_probs=103.4

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------   71 (483)
                      ||.++.++.|.+++.++..+.+.++|++|+||||+|+.+++........++ +.-+..+.......+...+         
T Consensus        18 ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~-~~~~n~~~~~~~~~i~~~~~~~~~~~~~   96 (224)
T d1sxjb2          18 VGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADG-VLELNASDDRGIDVVRNQIKHFAQKKLH   96 (224)
T ss_dssp             CSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHH-EEEECTTSCCSHHHHHTHHHHHHHBCCC
T ss_pred             cCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccc-cccccccccCCceehhhHHHHHHHhhcc
Confidence            688999999999999988777899999999999999999887621111112 3444555544433333333         


Q ss_pred             hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHHHHHHHhcCC
Q 038724           72 ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        72 ~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~l~~~~~~~~  137 (483)
                      ...++..++|+|+++....  ...+...+......++++++|.+..-.            +++++.++-...+...+..+
T Consensus        97 ~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~~~l~~i~~~e  176 (224)
T d1sxjb2          97 LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLE  176 (224)
T ss_dssp             CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhhHHHHHHHHHhc
Confidence            2335667899999975532  222222222233345666665544322            88999999999888777544


Q ss_pred             cccCCCCchhHHHHHHhHcCCchHH
Q 038724          138 TLVSHPAIHKPAKMVAKDCGGLPLA  162 (483)
Q Consensus       138 ~~~~~~~~~~~~~~i~~~c~g~Pla  162 (483)
                      ..   .-..+..+.|++.|+|.+..
T Consensus       177 ~~---~i~~~~l~~I~~~s~Gd~R~  198 (224)
T d1sxjb2         177 DV---KYTNDGLEAIIFTAEGDMRQ  198 (224)
T ss_dssp             TC---CBCHHHHHHHHHHHTTCHHH
T ss_pred             cc---CCCHHHHHHHHHHcCCcHHH
Confidence            42   22345688999999998754

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=1.5e-09  Score=96.09  Aligned_cols=168  Identities=17%  Similarity=0.165  Sum_probs=108.5

Q ss_pred             hhhcccCccccccccceEEEEccccccccccCC---CCCCcccEEEec-CCccccccchhhhcCCCccEEEccCCccCcc
Q 038724          282 EKLRDVVPSDALKWLGLRRMSLMNNQIKTLLNT---PSCPHLLTLFLN-DNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK  357 (483)
Q Consensus       282 ~~l~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~---~~~~~L~~L~l~-~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~  357 (483)
                      ..+..+....+..+++|+.+++++|.+....+.   ..+++++.+.+. .|.+...++..|..+++|+++++++|.+. .
T Consensus        39 n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~-~  117 (242)
T d1xwdc1          39 TKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIK-H  117 (242)
T ss_dssp             CCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESCCCC-S
T ss_pred             CcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccccchhhhc-c
Confidence            344445555567788999999999988764333   357888888875 46777788887889999999999998643 3


Q ss_pred             CCc--ccccCcCCCEEeccCCCCCccCcc-ccCC-cCCCEEecCCCCCcCCCC--CCCCc----------cchhhH-hhh
Q 038724          358 LPS--GISKLVSLQHLDISFTSTLELPEE-LKAL-EKLKYLDMDDHQQVMEEG--NCQSD----------DAESLL-KEM  420 (483)
Q Consensus       358 ~p~--~~~~l~~L~~L~l~~~~i~~lp~~-~~~l-~~L~~L~l~~n~~~~~p~--~~~l~----------~~~~~~-~~l  420 (483)
                      .|.  .+..+..+..+...++.+..++.. +..+ ..++.|++++|++..++.  +....          .....+ ..+
T Consensus       118 ~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~f  197 (242)
T d1xwdc1         118 LPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVF  197 (242)
T ss_dssp             CCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTTTTCCEEEEECTTCTTCCCCCTTTT
T ss_pred             cccccccccccccccccccccccccccccccccccccceeeecccccccccccccccchhhhccccccccccccccHHHh
Confidence            332  233444455555555567777654 4444 367778888887766532  11111          111222 346


Q ss_pred             ccccccccceeeccCcccc-----CCCCCcccccc
Q 038724          421 LCLEQLNIIRLTSCSLCSL-----CGLPTVQCLTS  450 (483)
Q Consensus       421 ~~l~~L~~L~l~~~~l~~l-----~~l~~l~~l~l  450 (483)
                      ..+++|+.|++++|++..+     .+++.|+.+++
T Consensus       198 ~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~  232 (242)
T d1xwdc1         198 HGASGPVILDISRTRIHSLPSYGLENLKKLRARST  232 (242)
T ss_dssp             TTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSE
T ss_pred             cCCCCCCEEECCCCcCCccCHHHHcCCcccccCcC
Confidence            7889999999999987644     44455555544

>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=98.89  E-value=1.6e-09  Score=95.24  Aligned_cols=157  Identities=11%  Similarity=0.097  Sum_probs=99.8

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh--------h
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM--------I   72 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i--------~   72 (483)
                      ||.++.+++|..++..+..+.+.++|++|+||||+|+.+++........++ .+-+..+.......+...+        .
T Consensus        27 ig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~-~~e~n~s~~~~~~~~~~~~~~~~~~~~~  105 (231)
T d1iqpa2          27 VGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHN-FLELNASDERGINVIREKVKEFARTKPI  105 (231)
T ss_dssp             CSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHH-EEEEETTCHHHHHTTHHHHHHHHHSCCG
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCC-eeEEecCcccchhHHHHHHHHHHhhhhc
Confidence            688999999999999988888999999999999999999987621111122 2334444433332222222        3


Q ss_pred             hcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChh-hh-----------hccCChHHHHHHHHHHhcCCc
Q 038724           73 LSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEE-VC-----------VDCFTPQESWQVFQMKVGNET  138 (483)
Q Consensus        73 l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~-~~-----------l~~L~~~~a~~l~~~~~~~~~  138 (483)
                      ...+..++++|+++...  ....+...+........+++||.... +.           +.+.+.++....+...+....
T Consensus       106 ~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~e~  185 (231)
T d1iqpa2         106 GGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG  185 (231)
T ss_dssp             GGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             cCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhHHHHHHHHHHHhC
Confidence            45677889999996542  22233222222222345555554332 21           778888888888888776554


Q ss_pred             ccCCCCchhHHHHHHhHcCCchH
Q 038724          139 LVSHPAIHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       139 ~~~~~~~~~~~~~i~~~c~g~Pl  161 (483)
                      .   .-..+..+.|++.|+|...
T Consensus       186 i---~i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         186 L---ELTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             C---EECHHHHHHHHHHHTTCHH
T ss_pred             C---CCCHHHHHHHHHHcCCCHH
Confidence            2   2234567889999988654

>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=98.88  E-value=9.4e-10  Score=97.16  Aligned_cols=157  Identities=9%  Similarity=0.089  Sum_probs=98.6

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------   71 (483)
                      ||.++.++.|..++.....+.+.++|++|+||||+|+.++++.............+..+...........+         
T Consensus        15 ig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (237)
T d1sxjd2          15 TAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVS   94 (237)
T ss_dssp             CSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHSCCC
T ss_pred             cCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhhhhhh
Confidence            68899999999999988877899999999999999999998741111111222334444333332222222         


Q ss_pred             ---------hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccCChHHHHH
Q 038724           72 ---------ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCFTPQESWQ  128 (483)
Q Consensus        72 ---------~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L~~~~a~~  128 (483)
                               ...++.-++|+|+++....  ...+...+......+++++|+....-.            +.+++.++..+
T Consensus        95 ~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~~~~~~~~~  174 (237)
T d1sxjd2          95 KPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAID  174 (237)
T ss_dssp             CCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHHHHHH
T ss_pred             hhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhccccccccccch
Confidence                     2233444789999975522  222222222223345666665443222            88999999999


Q ss_pred             HHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          129 VFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       129 l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      ++...+..+..   .-..+..+.|++.++|-.
T Consensus       175 ~L~~i~~~e~i---~i~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         175 RLRFISEQENV---KCDDGVLERILDISAGDL  203 (237)
T ss_dssp             HHHHHHHTTTC---CCCHHHHHHHHHHTSSCH
T ss_pred             hhhhhhhhhcC---cCCHHHHHHHHHHcCCCH
Confidence            99888765542   223466789999998865

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.86  E-value=4.9e-09  Score=92.45  Aligned_cols=160  Identities=16%  Similarity=0.176  Sum_probs=104.0

Q ss_pred             CCChhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC-------------------CCCCEEEEEEeCC
Q 038724            1 IENPKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER-------------------PGFDVVIWVVVSK   60 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~-------------------~~f~~~~~v~~~~   60 (483)
                      ||.++.++.+..++..+.. +.+.|+|++|+||||+|+.+++......                   .+++ ++.+..+.
T Consensus        15 ig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~-~~~~~~~~   93 (239)
T d1njfa_          15 VGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD-LIEIDAAS   93 (239)
T ss_dssp             CSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTT-EEEEETTC
T ss_pred             cChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCe-EEEecchh
Confidence            6889999999999988764 4588999999999999999887652111                   1122 34555444


Q ss_pred             CcCccchhHHh------hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhhh------------hcc
Q 038724           61 ELKLETSQDDM------ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDC  120 (483)
Q Consensus        61 ~~~~~~~~~~i------~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~  120 (483)
                      ......+..-+      ...++..++|||+++...  ....+...+......++++++|.+..-.            +.+
T Consensus        94 ~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~  173 (239)
T d1njfa_          94 RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKA  173 (239)
T ss_dssp             SSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             cCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhccccccc
Confidence            44433333222      334667799999998652  2333433333334456777776654433            888


Q ss_pred             CChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchH-HHH
Q 038724          121 FTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPL-ALT  164 (483)
Q Consensus       121 L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-al~  164 (483)
                      ++.++..+.+......+..   .-.++..+.|++.++|.+. |+.
T Consensus       174 ~~~~~i~~~l~~i~~~e~~---~~~~~~l~~i~~~s~Gd~R~ain  215 (239)
T d1njfa_         174 LDVEQIRHQLEHILNEEHI---AHEPRALQLLARAAEGSLRDALS  215 (239)
T ss_dssp             CCHHHHHHHHHHHHHHHTC---CBCHHHHHHHHHHTTTCHHHHHH
T ss_pred             CcHHHhhhHHHHHHhhhcc---CCCHHHHHHHHHHcCCCHHHHHH
Confidence            9999988888777644431   2234567889999999885 443

>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=98.84  E-value=7.6e-10  Score=100.58  Aligned_cols=82  Identities=24%  Similarity=0.230  Sum_probs=39.1

Q ss_pred             cceEEEEccccccccc--cC-CCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCcc--CCcccccCcCCCE
Q 038724          296 LGLRRMSLMNNQIKTL--LN-TPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTK--LPSGISKLVSLQH  370 (483)
Q Consensus       296 ~~l~~l~l~~~~~~~~--~~-~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~--~p~~~~~l~~L~~  370 (483)
                      .++++|+++++.++..  .. ...+++|++|+++++.+.......+..+++|++|++++|..++.  +..-...+++|++
T Consensus        46 ~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~  125 (284)
T d2astb2          46 FRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDE  125 (284)
T ss_dssp             BCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCE
T ss_pred             CCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhccc
Confidence            3456666665554321  11 13455666666666555443333345555566666655432221  1111234455555


Q ss_pred             EeccCCC
Q 038724          371 LDISFTS  377 (483)
Q Consensus       371 L~l~~~~  377 (483)
                      |++++|.
T Consensus       126 L~ls~c~  132 (284)
T d2astb2         126 LNLSWCF  132 (284)
T ss_dssp             EECCCCT
T ss_pred             ccccccc
Confidence            5555543

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.84  E-value=1.8e-08  Score=94.13  Aligned_cols=37  Identities=16%  Similarity=0.092  Sum_probs=29.1

Q ss_pred             ccccccceeeccCccccC-CCCCcccccceeeeeeeee
Q 038724          423 LEQLNIIRLTSCSLCSLC-GLPTVQCLTSRRLNLEVED  459 (483)
Q Consensus       423 l~~L~~L~l~~~~l~~l~-~l~~l~~l~l~~~~~~~~~  459 (483)
                      +++|++|++++|++..+. .+++|+.|++++|+++..+
T Consensus       283 ~~~L~~L~Ls~N~l~~lp~~~~~L~~L~L~~N~L~~l~  320 (353)
T d1jl5a_         283 PPSLEELNVSNNKLIELPALPPRLERLIASFNHLAEVP  320 (353)
T ss_dssp             CTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSCCC
T ss_pred             CCCCCEEECCCCccCccccccCCCCEEECCCCcCCccc
Confidence            468999999999987774 4678899998888877543

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.80  E-value=7.9e-09  Score=96.57  Aligned_cols=131  Identities=25%  Similarity=0.233  Sum_probs=97.9

Q ss_pred             ceEEEEccccccccccCCCCCCcccEEEecCCccccccchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCC
Q 038724          297 GLRRMSLMNNQIKTLLNTPSCPHLLTLFLNDNYLQDIKNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFT  376 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~  376 (483)
                      ++++|+++++.++.+|.  ..++|++|++++|.++.+|..    +.+|+.|++++|+ ...++. +  .+.|++|++++|
T Consensus        39 ~l~~LdLs~~~L~~lp~--~~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~n~-l~~l~~-l--p~~L~~L~L~~n  108 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPE--LPPHLESLVASCNSLTELPEL----PQSLKSLLVDNNN-LKALSD-L--PPLLEYLGVSNN  108 (353)
T ss_dssp             TCSEEECTTSCCSCCCS--CCTTCSEEECCSSCCSSCCCC----CTTCCEEECCSSC-CSCCCS-C--CTTCCEEECCSS
T ss_pred             CCCEEEeCCCCCCCCCC--CCCCCCEEECCCCCCcccccc----hhhhhhhhhhhcc-cchhhh-h--cccccccccccc
Confidence            57789999999998875  357899999999999988753    4679999999996 555553 2  246999999999


Q ss_pred             CCCccCccccCCcCCCEEecCCCCCcCCCC-CCCCc------cchhhHhhhccccccccceeeccCccc
Q 038724          377 STLELPEELKALEKLKYLDMDDHQQVMEEG-NCQSD------DAESLLKEMLCLEQLNIIRLTSCSLCS  438 (483)
Q Consensus       377 ~i~~lp~~~~~l~~L~~L~l~~n~~~~~p~-~~~l~------~~~~~~~~l~~l~~L~~L~l~~~~l~~  438 (483)
                      .+..+|. ++.+++|++|++++|.+...|. ...+.      ........+..++.++.|.+.+|....
T Consensus       109 ~l~~lp~-~~~l~~L~~L~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~l~~l~~l~~L~l~~n~~~~  176 (353)
T d1jl5a_         109 QLEKLPE-LQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKK  176 (353)
T ss_dssp             CCSSCCC-CTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSS
T ss_pred             ccccccc-hhhhccceeeccccccccccccccccccchhhccccccccccccccccceecccccccccc
Confidence            9999985 6889999999999998776643 22221      122233456677788888888876543

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, 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: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.80  E-value=2.8e-08  Score=87.59  Aligned_cols=132  Identities=18%  Similarity=0.204  Sum_probs=86.5

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCC--CC-CCEEEEE-EeC----CCcCccchh---H
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSER--PG-FDVVIWV-VVS----KELKLETSQ---D   69 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~-f~~~~~v-~~~----~~~~~~~~~---~   69 (483)
                      |||+++++++.+.|....-.-+.++|++|+|||+++..++.+.....  .. ....+|. +.+    +....-++.   .
T Consensus        21 igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r~~  100 (268)
T d1r6bx2          21 IGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFK  100 (268)
T ss_dssp             CSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHH
T ss_pred             cChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHHHHH
Confidence            79999999999999987667888999999999999999988763211  11 1234443 322    111122222   2


Q ss_pred             Hh---hhcCCcEEEEEcCCCCcc----------ccccc-cCCCCCCCCCCEEEEecCChhhh-----------------h
Q 038724           70 DM---ILSTKKFLLLLDDLWETI----------DLSKI-GVPLPSQKIVSKVVFTTHSEEVC-----------------V  118 (483)
Q Consensus        70 ~i---~l~~~~~LlvlDdv~~~~----------~~~~l-~~~~~~~~~gs~ilvTtR~~~~~-----------------l  118 (483)
                      .+   .-+...+++++|++...-          +...+ ++++.  ...-++|.||....+.                 +
T Consensus       101 ~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~~~~e~d~al~rrF~~I~V  178 (268)
T d1r6bx2         101 ALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDI  178 (268)
T ss_dssp             HHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHHCCCCCTTSSGGGEEEEEC
T ss_pred             HHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHHHHHhhcHHHHhhhccccc
Confidence            22   235677899999986441          12223 33443  2246788888777665                 8


Q ss_pred             ccCChHHHHHHHHHHh
Q 038724          119 DCFTPQESWQVFQMKV  134 (483)
Q Consensus       119 ~~L~~~~a~~l~~~~~  134 (483)
                      ++.+.+++.+++....
T Consensus       179 ~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         179 TEPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhh
Confidence            8899999999887644

>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=98.70  E-value=7.3e-09  Score=92.18  Aligned_cols=160  Identities=14%  Similarity=0.098  Sum_probs=89.6

Q ss_pred             CCChhHHHHHHHHHhcC-CeEEEEEEcCCCCcHHHHHHHHHhhcccC---CCCCCEEEEEEeCCC---------------
Q 038724            1 IENPKQFYQVWRFLVKK-DVGIIGLFGTGGVGKTTILKQINNRFCSE---RPGFDVVIWVVVSKE---------------   61 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~-~~~~v~i~G~~GiGKTtLa~~~~~~~~~~---~~~f~~~~~v~~~~~---------------   61 (483)
                      ||+++..+.|..++... ..+.+.|+|++|+||||+|+++++.....   ...++...+......               
T Consensus        14 ig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (252)
T d1sxje2          14 SHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEI   93 (252)
T ss_dssp             CSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSEEEE
T ss_pred             cCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCcccee
Confidence            68889999998888765 34568899999999999999999875111   111122222111100               


Q ss_pred             -----c-Cc----cchhHHh-------------hhcCCcEEEEEcCCCCcc--ccccccCCCCCCCCCCEEEEecCChhh
Q 038724           62 -----L-KL----ETSQDDM-------------ILSTKKFLLLLDDLWETI--DLSKIGVPLPSQKIVSKVVFTTHSEEV  116 (483)
Q Consensus        62 -----~-~~----~~~~~~i-------------~l~~~~~LlvlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtR~~~~  116 (483)
                           . ..    .......             ...++.-++|+|+++...  ....+...+......+++|+||.+...
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn~~~~  173 (252)
T d1sxje2          94 TPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSP  173 (252)
T ss_dssp             CCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCS
T ss_pred             eecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccccceeeeccccc
Confidence                 0 00    0000000             223455689999997652  222222222223344666766654421


Q ss_pred             h------------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHH
Q 038724          117 C------------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLA  162 (483)
Q Consensus       117 ~------------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  162 (483)
                      .            +.+++.++..+.+...+..+...  ...++..+.|++.+.|.+..
T Consensus       174 i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~--~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         174 IIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ--LETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE--ECCSHHHHHHHHHHTTCHHH
T ss_pred             hhhhhhcchheeeecccchhhHHHHHHHHHHHcCCC--CCcHHHHHHHHHHcCCcHHH
Confidence            1            78899999999887766433211  12345678899999887653

>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=98.67  E-value=7.3e-09  Score=93.92  Aligned_cols=145  Identities=21%  Similarity=0.132  Sum_probs=100.4

Q ss_pred             CCCCcccEEEecCCccccc-cchhhhcCCCccEEEccCCccCccCCcccccCcCCCEEeccCCC-CCc--cCccccCCcC
Q 038724          315 PSCPHLLTLFLNDNYLQDI-KNGFFQFMPCLKVLNLSYNRFLTKLPSGISKLVSLQHLDISFTS-TLE--LPEELKALEK  390 (483)
Q Consensus       315 ~~~~~L~~L~l~~n~~~~~-~~~~~~~l~~L~~L~l~~n~~~~~~p~~~~~l~~L~~L~l~~~~-i~~--lp~~~~~l~~  390 (483)
                      ....+|++|+++++.+... ....+..+++|++|++++|++....+..++.+++|++|+++++. ++.  +..-...+++
T Consensus        43 ~~~~~L~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~  122 (284)
T d2astb2          43 FSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSR  122 (284)
T ss_dssp             CCCBCCCEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTT
T ss_pred             ccCCCCCEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHh
Confidence            3456899999999977643 34557889999999999998777777888999999999999975 654  2222467899


Q ss_pred             CCEEecCCCCCcCC-----------CCCCCCc-------cchhhHh-hhccccccccceeeccC-c-----cccCCCCCc
Q 038724          391 LKYLDMDDHQQVME-----------EGNCQSD-------DAESLLK-EMLCLEQLNIIRLTSCS-L-----CSLCGLPTV  445 (483)
Q Consensus       391 L~~L~l~~n~~~~~-----------p~~~~l~-------~~~~~~~-~l~~l~~L~~L~l~~~~-l-----~~l~~l~~l  445 (483)
                      |++|++++|.....           |.+..+.       .....+. -...+++|++|++++|. +     ..+.++++|
T Consensus       123 L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L  202 (284)
T d2astb2         123 LDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYL  202 (284)
T ss_dssp             CCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGGGGCTTC
T ss_pred             ccccccccccccccccchhhhcccccccchhhhcccccccccccccccccccccccccccccccCCCchhhhhhcccCcC
Confidence            99999999753311           1111111       1122222 23567889999998874 2     346677888


Q ss_pred             ccccceee-eeeeee
Q 038724          446 QCLTSRRL-NLEVED  459 (483)
Q Consensus       446 ~~l~l~~~-~~~~~~  459 (483)
                      +.|+++++ +++...
T Consensus       203 ~~L~L~~C~~i~~~~  217 (284)
T d2astb2         203 QHLSLSRCYDIIPET  217 (284)
T ss_dssp             CEEECTTCTTCCGGG
T ss_pred             CEEECCCCCCCChHH
Confidence            88888774 454433

>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=98.64  E-value=2.6e-07  Score=81.07  Aligned_cols=155  Identities=16%  Similarity=0.133  Sum_probs=98.4

Q ss_pred             CCChhHHHHHHHHHhc-----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcC
Q 038724            1 IENPKQFYQVWRFLVK-----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILST   75 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~   75 (483)
                      ||-++.++++..++..     ...+.+.++|++|+|||++|+.+++..   .  ++ ...++.+......++...+....
T Consensus        12 vGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~---~--~~-~~~~~~~~~~~~~~~~~~~~~~~   85 (238)
T d1in4a2          12 IGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---Q--TN-IHVTSGPVLVKQGDMAAILTSLE   85 (238)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---T--CC-EEEEETTTCCSHHHHHHHHHHCC
T ss_pred             CChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc---C--CC-cccccCcccccHHHHHHHHHhhc
Confidence            6888889999888853     234578899999999999999999987   2  22 23345455445555555556667


Q ss_pred             CcEEEEEcCCCCccc---------cccccCCC-----------CCCCCCCEEEEe-cCChhhh------------hccCC
Q 038724           76 KKFLLLLDDLWETID---------LSKIGVPL-----------PSQKIVSKVVFT-THSEEVC------------VDCFT  122 (483)
Q Consensus        76 ~~~LlvlDdv~~~~~---------~~~l~~~~-----------~~~~~gs~ilvT-tR~~~~~------------l~~L~  122 (483)
                      ++..+++|.++....         .+......           ....+...+|++ ++.....            ++..+
T Consensus        86 ~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~  165 (238)
T d1in4a2          86 RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYT  165 (238)
T ss_dssp             TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCC
T ss_pred             cCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeeeEEEEecCCC
Confidence            788889998865421         00000000           001123445544 4443332            77888


Q ss_pred             hHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          123 PQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       123 ~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      .++...++........   .....+..+.+++.++|.+..+.
T Consensus       166 ~~~~~~~l~~~~~~~~---~~~~~~~l~~i~~~s~gd~R~ai  204 (238)
T d1in4a2         166 VKELKEIIKRAASLMD---VEIEDAAAEMIAKRSRGTPRIAI  204 (238)
T ss_dssp             HHHHHHHHHHHHHHTT---CCBCHHHHHHHHHTSTTCHHHHH
T ss_pred             HHHHHHHHHHhhhhcc---chhhHHHHHHHHHhCCCCHHHHH
Confidence            9998888887775443   23345568889999998876553

>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=98.61  E-value=1.3e-07  Score=84.69  Aligned_cols=132  Identities=14%  Similarity=0.217  Sum_probs=78.5

Q ss_pred             CCChhHHHHHHHHHhc------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---
Q 038724            1 IENPKQFYQVWRFLVK------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---   71 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---   71 (483)
                      |||+.++++|.++|..      ...+.+.|+|++|+|||++|+++++.. .....+. .+|+..............+   
T Consensus        19 ~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l-~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   96 (276)
T d1fnna2          19 PHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTTAR-FVYINGFIYRNFTAIIGEIARS   96 (276)
T ss_dssp             TTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCCCE-EEEEETTTCCSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH-hcccCCc-EEEecchhhhhhhhhhhhhHHh
Confidence            6999999999999863      245689999999999999999999987 2222332 3444433322222221111   


Q ss_pred             -----------------------hhcCCcEEEEEcCCCCccc-----cccccCCCCCC-CCCCEEEEecCChhhh-----
Q 038724           72 -----------------------ILSTKKFLLLLDDLWETID-----LSKIGVPLPSQ-KIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        72 -----------------------~l~~~~~LlvlDdv~~~~~-----~~~l~~~~~~~-~~gs~ilvTtR~~~~~-----  117 (483)
                                             ........+++|+++....     ...+....... .....++.++......     
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~  176 (276)
T d1fnna2          97 LNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDP  176 (276)
T ss_dssp             TTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCH
T ss_pred             hhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhcch
Confidence                                   4456777888888865532     11111111111 1123344444432221     


Q ss_pred             ------------hccCChHHHHHHHHHHh
Q 038724          118 ------------VDCFTPQESWQVFQMKV  134 (483)
Q Consensus       118 ------------l~~L~~~~a~~l~~~~~  134 (483)
                                  +.+.+.++.++++.+..
T Consensus       177 ~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         177 STRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhhhhhcchhccccchhHHHHHHHHHHHH
Confidence                        67788899888887654

>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=98.59  E-value=1.1e-07  Score=84.38  Aligned_cols=150  Identities=12%  Similarity=0.116  Sum_probs=89.5

Q ss_pred             CCChhHHHHHHHHHhc-----------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC
Q 038724            1 IENPKQFYQVWRFLVK-----------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~   63 (483)
                      ||.++.+++|.+++..                 ...+.+.++|++|+||||+|+++++..     .++ ..++..+....
T Consensus        17 ig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~~-~~~~~~~~~~~   90 (253)
T d1sxja2          17 CGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYD-ILEQNASDVRS   90 (253)
T ss_dssp             CSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TCE-EEEECTTSCCC
T ss_pred             cCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hhh-hhccccccchh
Confidence            6888999999998853                 234689999999999999999999976     222 34555443332


Q ss_pred             ccchhHHh--------------------hhcCCcEEEEEcCCCCccc-----cccccCCCCCCCCCCEEEEecC-Ch-hh
Q 038724           64 LETSQDDM--------------------ILSTKKFLLLLDDLWETID-----LSKIGVPLPSQKIVSKVVFTTH-SE-EV  116 (483)
Q Consensus        64 ~~~~~~~i--------------------~l~~~~~LlvlDdv~~~~~-----~~~l~~~~~~~~~gs~ilvTtR-~~-~~  116 (483)
                      ...+...+                    ...++..++++|+++....     +..+...... .....+++++. .. .+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~-~~~~ii~i~~~~~~~~~  169 (253)
T d1sxja2          91 KTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK-TSTPLILICNERNLPKM  169 (253)
T ss_dssp             HHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH-CSSCEEEEESCTTSSTT
T ss_pred             hHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcc-ccccccccccccccccc
Confidence            22111111                    3446778899999864422     1111111111 11123333332 21 11


Q ss_pred             h----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          117 C----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       117 ~----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                      .          +.+.+.++....+......+....   .++..+.|++.++|-.
T Consensus       170 ~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i---~~~~l~~i~~~s~GDi  220 (253)
T d1sxja2         170 RPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKL---DPNVIDRLIQTTRGDI  220 (253)
T ss_dssp             GGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCC---CTTHHHHHHHHTTTCH
T ss_pred             ccccceeeeeeccccchhHHHHHHHHHHHHhCCCC---CHHHHHHHHHhCCCcH
Confidence            1          778888888888877664433211   2345788999999866

>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=98.56  E-value=2e-08  Score=83.55  Aligned_cols=88  Identities=19%  Similarity=0.296  Sum_probs=59.4

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccCC--CC-CCEEEE-EEeC----CCcC-------cc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSER--PG-FDVVIW-VVVS----KELK-------LE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~--~~-f~~~~~-v~~~----~~~~-------~~   65 (483)
                      |||+++++++.+.|....-.-+.++|.+|+|||+++..++.+....+  .. .+..+| ++.+    +...       +.
T Consensus        25 igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E~rl~  104 (195)
T d1jbka_          25 IGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLK  104 (195)
T ss_dssp             CSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHHHHHH
Confidence            79999999999999987667889999999999999999988762111  11 123344 4322    1211       11


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCc
Q 038724           66 TSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      .+.+++.-...++++++|++...
T Consensus       105 ~il~e~~~~~~~iILfIDeih~l  127 (195)
T d1jbka_         105 GVLNDLAKQEGNVILFIDELHTM  127 (195)
T ss_dssp             HHHHHHHHSTTTEEEEEETGGGG
T ss_pred             HHHHHHhcCCCcEEEEcchHHHH
Confidence            22223234556899999998644

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.53  E-value=1.7e-07  Score=80.18  Aligned_cols=152  Identities=9%  Similarity=0.005  Sum_probs=95.7

Q ss_pred             hhHHHHHHHHHhcCCe-EEEEEEcCCCCcHHHHHHHHHhhcccCC------------------CCCCEEEEEEeCCCc--
Q 038724            4 PKQFYQVWRFLVKKDV-GIIGLFGTGGVGKTTILKQINNRFCSER------------------PGFDVVIWVVVSKEL--   62 (483)
Q Consensus         4 ~~~~~~l~~~l~~~~~-~~v~i~G~~GiGKTtLa~~~~~~~~~~~------------------~~f~~~~~v~~~~~~--   62 (483)
                      +...+++.+.+..+.. ..+.++|++|+||||+|+.+++..-...                  +......++......  
T Consensus         8 ~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   87 (207)
T d1a5ta2           8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNT   87 (207)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSS
T ss_pred             HHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccc
Confidence            3457788888887764 4589999999999999999887541000                  011122333322221  


Q ss_pred             -Ccc---chhHHh---hhcCCcEEEEEcCCCCccc--cccccCCCCCCCCCCEEEEecCChhhh------------hccC
Q 038724           63 -KLE---TSQDDM---ILSTKKFLLLLDDLWETID--LSKIGVPLPSQKIVSKVVFTTHSEEVC------------VDCF  121 (483)
Q Consensus        63 -~~~---~~~~~i---~l~~~~~LlvlDdv~~~~~--~~~l~~~~~~~~~gs~ilvTtR~~~~~------------l~~L  121 (483)
                       ...   ++...+   ...+++-++|+||++....  ...+...+........+|+||++..-.            +.++
T Consensus        88 i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~  167 (207)
T d1a5ta2          88 LGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPP  167 (207)
T ss_dssp             BCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             cccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCC
Confidence             122   223322   3556788999999986532  444444444444567777777665432            7889


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLAL  163 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal  163 (483)
                      +.++....+.....        -..+.+..|++.++|.|..+
T Consensus       168 ~~~~~~~~L~~~~~--------~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         168 PEQYAVTWLSREVT--------MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             CHHHHHHHHHHHCC--------CCHHHHHHHHHHTTTCHHHH
T ss_pred             CHHHHHHHHHHcCC--------CCHHHHHHHHHHcCCCHHHH
Confidence            99998888865431        12456788999999988554

>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=98.50  E-value=1.7e-06  Score=75.72  Aligned_cols=155  Identities=15%  Similarity=0.119  Sum_probs=90.6

Q ss_pred             CCChhHHHHHHHHHhc-----CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh-hhc
Q 038724            1 IENPKQFYQVWRFLVK-----KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM-ILS   74 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-----~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i-~l~   74 (483)
                      ||-++..+++..++..     ...+.+.++||+|+||||+|+.+++..   ...   ..+++.+...........+ ...
T Consensus        12 vGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~---~~~---~~~~~~~~~~~~~~~~~~~~~~~   85 (239)
T d1ixsb2          12 IGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAAILANSL   85 (239)
T ss_dssp             CSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCC---eEeccCCccccchhhHHHHHhhc
Confidence            6788888888888753     245678899999999999999999977   222   2334433333222222222 223


Q ss_pred             CCcEEEEEcCCCCccc---------ccc----ccCCC-C------CCCCCCEEEE-ecCChhhh------------hccC
Q 038724           75 TKKFLLLLDDLWETID---------LSK----IGVPL-P------SQKIVSKVVF-TTHSEEVC------------VDCF  121 (483)
Q Consensus        75 ~~~~LlvlDdv~~~~~---------~~~----l~~~~-~------~~~~gs~ilv-TtR~~~~~------------l~~L  121 (483)
                      +....+++|+++....         .+.    ..... .      ...+...++. |++.....            +...
T Consensus        86 ~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (239)
T d1ixsb2          86 EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYY  165 (239)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCSEEEECCCC
T ss_pred             cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhcccceeeEeecc
Confidence            3455677898864411         000    00000 0      0011233443 44433221            6778


Q ss_pred             ChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCchHHHH
Q 038724          122 TPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLPLALT  164 (483)
Q Consensus       122 ~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plal~  164 (483)
                      +.++..+++........   .....+..+.|++.++|.+....
T Consensus       166 ~~~~~~~i~~~~~~~~~---i~~~~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         166 TPEELAQGVMRDARLLG---VRITEEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             CHHHHHHHHHHHHGGGC---CCBCHHHHHHHHHHTTSSHHHHH
T ss_pred             ChhhhhHHHHHHHHHhC---CccchHHHHHHHHHcCCCHHHHH
Confidence            88888888777665444   23345678899999999876553

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.40  E-value=3.2e-08  Score=92.34  Aligned_cols=133  Identities=19%  Similarity=0.210  Sum_probs=66.9

Q ss_pred             CCcccEEEecCCcccccc----chhhhcCCCccEEEccCCccCcc-----CCcccccCcCCCEEeccCCCCCc-----cC
Q 038724          317 CPHLLTLFLNDNYLQDIK----NGFFQFMPCLKVLNLSYNRFLTK-----LPSGISKLVSLQHLDISFTSTLE-----LP  382 (483)
Q Consensus       317 ~~~L~~L~l~~n~~~~~~----~~~~~~l~~L~~L~l~~n~~~~~-----~p~~~~~l~~L~~L~l~~~~i~~-----lp  382 (483)
                      .+.|+.+++++|.+....    ...+...+.|+.|++++|++...     +...+...++|+.|++++|.++.     +.
T Consensus       157 ~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~  236 (344)
T d2ca6a1         157 APPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALA  236 (344)
T ss_dssp             CCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHH
T ss_pred             Ccccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccccccccc
Confidence            455666666666544221    11234456666666666653221     22334556666666666666433     33


Q ss_pred             ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhcc--ccccccceeeccCccc---------c-CCCCCcccccc
Q 038724          383 EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLC--LEQLNIIRLTSCSLCS---------L-CGLPTVQCLTS  450 (483)
Q Consensus       383 ~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~--l~~L~~L~l~~~~l~~---------l-~~l~~l~~l~l  450 (483)
                      ..+..+++|++|++++|.+...       ......+.+..  .+.|+.|++++|.+..         + .+.+.|+.|++
T Consensus       237 ~~l~~~~~L~~L~Ls~n~i~~~-------g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l  309 (344)
T d2ca6a1         237 IALKSWPNLRELGLNDCLLSAR-------GAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLEL  309 (344)
T ss_dssp             HHGGGCTTCCEEECTTCCCCHH-------HHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEEC
T ss_pred             ccccccccchhhhhhcCccCch-------hhHHHHHHhhhccCCCCCEEECCCCcCChHHHHHHHHHHHccCCCCCEEEC
Confidence            3455666666666666664311       00112222322  2456667777666521         2 13455666666


Q ss_pred             eeeeee
Q 038724          451 RRLNLE  456 (483)
Q Consensus       451 ~~~~~~  456 (483)
                      ++|.+.
T Consensus       310 ~~N~~~  315 (344)
T d2ca6a1         310 NGNRFS  315 (344)
T ss_dssp             TTSBSC
T ss_pred             CCCcCC
Confidence            555553

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {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: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.38  E-value=5.9e-07  Score=83.66  Aligned_cols=132  Identities=20%  Similarity=0.255  Sum_probs=77.9

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhccc--CCC-CCCEEEE-EEeCCCc-------C----cc
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCS--ERP-GFDVVIW-VVVSKEL-------K----LE   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~--~~~-~f~~~~~-v~~~~~~-------~----~~   65 (483)
                      |||+++++++.+.|....-.-+.++|.+|||||+++..++.+...  +.. -.+..+| ++++.-.       .    +.
T Consensus        25 ~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e~r~~  104 (387)
T d1qvra2          25 IGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLK  104 (387)
T ss_dssp             CSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHHHHHH
Confidence            799999999999998776666788899999999999877765521  111 2233444 4332111       1    11


Q ss_pred             chhHHhhhcCCcEEEEEcCCCCccc---------c-ccccCCCCCCCCCCEEEEecCChhhh----------------hc
Q 038724           66 TSQDDMILSTKKFLLLLDDLWETID---------L-SKIGVPLPSQKIVSKVVFTTHSEEVC----------------VD  119 (483)
Q Consensus        66 ~~~~~i~l~~~~~LlvlDdv~~~~~---------~-~~l~~~~~~~~~gs~ilvTtR~~~~~----------------l~  119 (483)
                      .+..++.-....+++++|++...-.         . .-+++++. .+ .-++|.+|....+.                ++
T Consensus       105 ~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~-rg-~~~~I~~tT~~ey~~~e~d~al~rrF~~v~v~  182 (387)
T d1qvra2         105 AVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-RG-ELRLIGATTLDEYREIEKDPALERRFQPVYVD  182 (387)
T ss_dssp             HHHHHHHTTCSSEEEEECCC-------------------HHHHH-TT-CCCEEEEECHHHHHHHTTCTTTCSCCCCEEEC
T ss_pred             HHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh-CC-CcceeeecCHHHHHHhcccHHHHHhcccccCC
Confidence            2222323445689999999975511         1 11222221 12 24566655544443                88


Q ss_pred             cCChHHHHHHHHHHh
Q 038724          120 CFTPQESWQVFQMKV  134 (483)
Q Consensus       120 ~L~~~~a~~l~~~~~  134 (483)
                      +.+.+++..++....
T Consensus       183 ep~~~~~~~il~~~~  197 (387)
T d1qvra2         183 EPTVEETISILRGLK  197 (387)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHH
Confidence            889999998887654

>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=98.30  E-value=2.1e-06  Score=77.11  Aligned_cols=43  Identities=28%  Similarity=0.283  Sum_probs=33.9

Q ss_pred             CCChhHHHHHHHHHhc----C----C-eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK----K----D-VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~----~----~-~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +||++++++|.+.+..    +    . ..++.|+|++|+|||++++++++..
T Consensus        19 ~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l   70 (287)
T d1w5sa2          19 RVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV   70 (287)
T ss_dssp             SSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHH
Confidence            5899999999887632    1    1 2246678999999999999999875

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {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: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.28  E-value=3.8e-06  Score=73.67  Aligned_cols=150  Identities=16%  Similarity=0.153  Sum_probs=85.6

Q ss_pred             CCChhHHHHHHHHH---hc---------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC-----
Q 038724            1 IENPKQFYQVWRFL---VK---------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK-----   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l---~~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~-----   63 (483)
                      +|.++..++|.+.+   ..         ...+-+.++|++|+|||++|+++++..   ..+   .+.+..+.-.+     
T Consensus        15 ~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~---~~~i~~~~l~~~~~g~   88 (256)
T d1lv7a_          15 AGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVP---FFTISGSDFVEMFVGV   88 (256)
T ss_dssp             CSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCC---EEEECSCSSTTSCCCC
T ss_pred             hchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCC---EEEEEhHHhhhcchhH
Confidence            46666666665543   21         234678999999999999999999877   222   23333332111     


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCc------------cc----cccccCCCC--CCCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWET------------ID----LSKIGVPLP--SQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~------------~~----~~~l~~~~~--~~~~gs~ilvTtR~~~~~-----  117 (483)
                      ...-++++   +-+..+++|++||++..            ..    +..+...+.  ....+.-+|.||......     
T Consensus        89 ~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~  168 (256)
T d1lv7a_          89 GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALL  168 (256)
T ss_dssp             CHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGG
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHc
Confidence            11112222   55678899999999531            00    111111111  122334555577654332     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                ++..+.++-.+++..+........    ....+.+++.+.|..
T Consensus       169 R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~----~~~~~~la~~t~G~s  217 (256)
T d1lv7a_         169 RPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP----DIDAAIIARGTPGFS  217 (256)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCT----TCCHHHHHHTCTTCC
T ss_pred             CCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCc----ccCHHHHHHhCCCCC
Confidence                      667788888888888775443221    223567788888764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.23  E-value=3.6e-06  Score=74.26  Aligned_cols=150  Identities=17%  Similarity=0.150  Sum_probs=88.7

Q ss_pred             CCChhHHHHHHHHHhc-------------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-----
Q 038724            1 IENPKQFYQVWRFLVK-------------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-----   62 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~-------------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-----   62 (483)
                      +|-++..++|.+.+..             ...+-|.++|++|+|||++|+++++..   ..+   .+.++.+.-.     
T Consensus         7 ~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~---~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           7 GGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGPEIMSKLAG   80 (258)
T ss_dssp             CSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCE---EEEECHHHHTTSCTT
T ss_pred             ccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCe---EEEEEchhhcccccc
Confidence            4778888888776431             134678999999999999999999976   222   2333322110     


Q ss_pred             -CccchhHHh--hhcCCcEEEEEcCCCCccc-------------cccccCCC--CCCCCCCEEEEecCChhhh-------
Q 038724           63 -KLETSQDDM--ILSTKKFLLLLDDLWETID-------------LSKIGVPL--PSQKIVSKVVFTTHSEEVC-------  117 (483)
Q Consensus        63 -~~~~~~~~i--~l~~~~~LlvlDdv~~~~~-------------~~~l~~~~--~~~~~gs~ilvTtR~~~~~-------  117 (483)
                       ....+..-+  +...++++|++||++....             ...+....  .....+.-|+.||......       
T Consensus        81 ~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~  160 (258)
T d1e32a2          81 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRF  160 (258)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTST
T ss_pred             cHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhc
Confidence             111111111  5567899999999975411             01111111  1222334555577665443       


Q ss_pred             --------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 --------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 --------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                              ++..+.++-.++|...........    ......|++.+.|+-
T Consensus       161 gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~----~~~~~~la~~t~G~s  207 (258)
T d1e32a2         161 GRFDREVDIGIPDATGRLEILQIHTKNMKLAD----DVDLEQVANETHGHV  207 (258)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHTTTTSCBCT----TCCHHHHHHHCTTCC
T ss_pred             ccccceeECCCCCHHHHHHHhhhhccCccccc----ccchhhhhhcccCCC
Confidence                    777788888888987775433211    112578889988854

>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=98.18  E-value=4.4e-06  Score=72.98  Aligned_cols=150  Identities=15%  Similarity=0.159  Sum_probs=83.1

Q ss_pred             CCChhHHHHHHHHH---hc---------CCeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc-----C
Q 038724            1 IENPKQFYQVWRFL---VK---------KDVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL-----K   63 (483)
Q Consensus         1 vgr~~~~~~l~~~l---~~---------~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~-----~   63 (483)
                      +|-++..++|.+.+   ..         ...+-|.++|++|+|||++|+++++..   ..+   .+.++.++-.     .
T Consensus        12 ~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~---~~~---~~~i~~~~l~~~~~g~   85 (247)
T d1ixza_          12 AGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASGSDFVEMFVGV   85 (247)
T ss_dssp             CSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCC---EEEEEHHHHHHSCTTH
T ss_pred             ccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc---CCC---EEEEEhHHhhhccccH
Confidence            46666665555433   21         124568999999999999999999876   222   3344433211     0


Q ss_pred             ccchhHHh---hhcCCcEEEEEcCCCCcc----------------ccccccCCCC--CCCCCCEEEEecCChhhh-----
Q 038724           64 LETSQDDM---ILSTKKFLLLLDDLWETI----------------DLSKIGVPLP--SQKIVSKVVFTTHSEEVC-----  117 (483)
Q Consensus        64 ~~~~~~~i---~l~~~~~LlvlDdv~~~~----------------~~~~l~~~~~--~~~~gs~ilvTtR~~~~~-----  117 (483)
                      ....++++   +.+..+++|+|||++...                .+..+...+.  ....+.-||.||......     
T Consensus        86 ~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~  165 (247)
T d1ixza_          86 GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALL  165 (247)
T ss_dssp             HHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGG
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHc
Confidence            11112222   445788999999985220                0111111111  112223334466543222     


Q ss_pred             ----------hccCChHHHHHHHHHHhcCCcccCCCCchhHHHHHHhHcCCch
Q 038724          118 ----------VDCFTPQESWQVFQMKVGNETLVSHPAIHKPAKMVAKDCGGLP  160 (483)
Q Consensus       118 ----------l~~L~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  160 (483)
                                +++.+.++-.+++..+.........    .....+++.+.|..
T Consensus       166 R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~----~~~~~la~~t~g~s  214 (247)
T d1ixza_         166 RPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED----VDLALLAKRTPGFV  214 (247)
T ss_dssp             STTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTT----CCHHHHHHTCTTCC
T ss_pred             CCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccc----cCHHHHHHHCCCCC
Confidence                      6777899999999888755432211    12567778887754

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.11  E-value=7.3e-07  Score=82.76  Aligned_cols=162  Identities=19%  Similarity=0.185  Sum_probs=110.4

Q ss_pred             cccceEEEEccccccccccC------CCCCCcccEEEecCCccccccc-------------hhhhcCCCccEEEccCCcc
Q 038724          294 KWLGLRRMSLMNNQIKTLLN------TPSCPHLLTLFLNDNYLQDIKN-------------GFFQFMPCLKVLNLSYNRF  354 (483)
Q Consensus       294 ~~~~l~~l~l~~~~~~~~~~------~~~~~~L~~L~l~~n~~~~~~~-------------~~~~~l~~L~~L~l~~n~~  354 (483)
                      ..++|+.|++++|.+.....      ...+++|+.|++++|.+.....             ......+.|+.+++++|++
T Consensus        91 ~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i  170 (344)
T d2ca6a1          91 KCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRL  170 (344)
T ss_dssp             TCTTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCC
T ss_pred             hCCCcccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeecccccc
Confidence            45678889999887764311      1246789999999887643111             0123467788999988864


Q ss_pred             Cc----cCCcccccCcCCCEEeccCCCCCc------cCccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhcccc
Q 038724          355 LT----KLPSGISKLVSLQHLDISFTSTLE------LPEELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLE  424 (483)
Q Consensus       355 ~~----~~p~~~~~l~~L~~L~l~~~~i~~------lp~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~  424 (483)
                      ..    .+...+...++|++|++++|.+..      +...+..+++|+.|++++|.+...       ........+..++
T Consensus       171 ~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~-------g~~~L~~~l~~~~  243 (344)
T d2ca6a1         171 ENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHL-------GSSALAIALKSWP  243 (344)
T ss_dssp             TGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHH-------HHHHHHHHGGGCT
T ss_pred             cccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhccccccccccccc-------ccccccccccccc
Confidence            32    233345667889999999998764      333467788999999999985311       0122445677889


Q ss_pred             ccccceeeccCccc---------cC--CCCCcccccceeeeeeeeeccc
Q 038724          425 QLNIIRLTSCSLCS---------LC--GLPTVQCLTSRRLNLEVEDWHK  462 (483)
Q Consensus       425 ~L~~L~l~~~~l~~---------l~--~l~~l~~l~l~~~~~~~~~~~~  462 (483)
                      +|+.|++++|++..         +.  ..+.++.|++++|+++...+..
T Consensus       244 ~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~  292 (344)
T d2ca6a1         244 NLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRT  292 (344)
T ss_dssp             TCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHH
T ss_pred             cchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCcCChHHHHH
Confidence            99999999998732         22  3467899999999887655443

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.06  E-value=6.9e-07  Score=86.05  Aligned_cols=106  Identities=18%  Similarity=0.256  Sum_probs=73.8

Q ss_pred             ceEEEEcccccccccc--C-CCCCCcccEEEecCCcccccc----chhhhcCCCccEEEccCCccCc----cCCcccc-c
Q 038724          297 GLRRMSLMNNQIKTLL--N-TPSCPHLLTLFLNDNYLQDIK----NGFFQFMPCLKVLNLSYNRFLT----KLPSGIS-K  364 (483)
Q Consensus       297 ~l~~l~l~~~~~~~~~--~-~~~~~~L~~L~l~~n~~~~~~----~~~~~~l~~L~~L~l~~n~~~~----~~p~~~~-~  364 (483)
                      +|+.|++++|+++...  . .+.++++++|+|++|+++...    ...+..+++|++|+|++|.+..    .+...+. .
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~   82 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   82 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             CCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcC
Confidence            5788999999887532  1 145788899999999876422    2335678889999999986432    1222222 2


Q ss_pred             CcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCc
Q 038724          365 LVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQV  402 (483)
Q Consensus       365 l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~  402 (483)
                      ..+|++|++++|.++.     ++..+..+++|++|++++|.+.
T Consensus        83 ~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i~  125 (460)
T d1z7xw1          83 SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLG  125 (460)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBCH
T ss_pred             CCCCCEEECCCCCccccccccccchhhccccccccccccccch
Confidence            3478999999988765     3455778889999999998754

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=2.6e-07  Score=75.59  Aligned_cols=66  Identities=27%  Similarity=0.168  Sum_probs=39.3

Q ss_pred             hhhcCCCccEEEccCCccCcc--CCcccccCcCCCEEeccCCCCCccCcc-ccCCcCCCEEecCCCCCc
Q 038724          337 FFQFMPCLKVLNLSYNRFLTK--LPSGISKLVSLQHLDISFTSTLELPEE-LKALEKLKYLDMDDHQQV  402 (483)
Q Consensus       337 ~~~~l~~L~~L~l~~n~~~~~--~p~~~~~l~~L~~L~l~~~~i~~lp~~-~~~l~~L~~L~l~~n~~~  402 (483)
                      .+..+++|++|+|++|++...  ++..+..+++|++|++++|.|++++.- .....+|+.|++++|.+.
T Consensus        60 ~~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          60 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             HHHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             HHHhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhhhhccccceeecCCCCcC
Confidence            345567777777777753321  223455667777777777777766542 223345677777777654

>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=98.03  E-value=3.7e-06  Score=71.70  Aligned_cols=106  Identities=17%  Similarity=0.113  Sum_probs=60.4

Q ss_pred             HHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh---------hhcCC
Q 038724            8 YQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM---------ILSTK   76 (483)
Q Consensus         8 ~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i---------~l~~~   76 (483)
                      ..+.++....  ....+.|+|++|+|||.|++++++..   ......++|++...-..  .....+         ..-..
T Consensus        23 ~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~---~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~   97 (213)
T d1l8qa2          23 EVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA---KKRGYRVIYSSADDFAQ--AMVEHLKKGTINEFRNMYKS   97 (213)
T ss_dssp             HHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH---HHTTCCEEEEEHHHHHH--HHHHHHHHTCHHHHHHHHHT
T ss_pred             HHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh---ccCccceEEechHHHHH--HHHHHHHccchhhHHHHHhh
Confidence            3444444432  22348899999999999999999988   23334567775442211  111111         11124


Q ss_pred             cEEEEEcCCCCcc---cccc-ccCCCCC-CCCCCEEEEecCChhhhh
Q 038724           77 KFLLLLDDLWETI---DLSK-IGVPLPS-QKIVSKVVFTTHSEEVCV  118 (483)
Q Consensus        77 ~~LlvlDdv~~~~---~~~~-l~~~~~~-~~~gs~ilvTtR~~~~~l  118 (483)
                      .-+++|||++...   .|+. +...+.. ...|..||+|++.....+
T Consensus        98 ~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l  144 (213)
T d1l8qa2          98 VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKL  144 (213)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGC
T ss_pred             ccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhc
Confidence            5688899997442   2222 1111111 235788999998876553

>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=98.02  E-value=3.2e-06  Score=73.93  Aligned_cols=63  Identities=16%  Similarity=0.174  Sum_probs=41.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc---C---ccchhHHh---hhcCCcEEEEEcCCC
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL---K---LETSQDDM---ILSTKKFLLLLDDLW   86 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~---~---~~~~~~~i---~l~~~~~LlvlDdv~   86 (483)
                      ..+-|.++|++|+|||++|+++++..   ..+|   +.+..+...   .   .....+++   +.+..+++|++|+++
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~---~~~~---~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~~p~il~iDEid  110 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEES---NFPF---IKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIE  110 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHH---TCSE---EEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhcc---cccc---cccccccccccccccchhhhhhhhhhhhhhcccceeehhhhh
Confidence            45678999999999999999999976   2222   233332211   0   11122222   556778999999985

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.94  E-value=3.8e-06  Score=74.40  Aligned_cols=133  Identities=14%  Similarity=0.198  Sum_probs=75.5

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC----Cc-CccchhHHh---hhcCCcEEEEEcCCCCccc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK----EL-KLETSQDDM---ILSTKKFLLLLDDLWETID   90 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~----~~-~~~~~~~~i---~l~~~~~LlvlDdv~~~~~   90 (483)
                      .+-|.++|++|.|||++|+++++..   ..+   .+.+..+.    .. ........+   +....+++|+|||++....
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~---~~~---~~~~~~~~l~~~~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~  114 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANEC---QAN---FISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAK  114 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHT---TCE---EEEECHHHHHTSCTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCC
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHh---CCc---EEEEEHHHhhhccccchHHHHHHHHHHHHhcCCcceeHHhhhhccc
Confidence            4578899999999999999999977   222   22232211    11 111112222   4557889999999963311


Q ss_pred             ----------------cccccCCCCC--CCCCCEEEEecCChhhh---------------hccCChHHHHHHHHHHhcCC
Q 038724           91 ----------------LSKIGVPLPS--QKIVSKVVFTTHSEEVC---------------VDCFTPQESWQVFQMKVGNE  137 (483)
Q Consensus        91 ----------------~~~l~~~~~~--~~~gs~ilvTtR~~~~~---------------l~~L~~~~a~~l~~~~~~~~  137 (483)
                                      ...+...+..  ..++--+|.||......               ++..+.++-.++|.......
T Consensus       115 ~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~  194 (265)
T d1r7ra3         115 ARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS  194 (265)
T ss_dssp             HHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC
T ss_pred             cCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccC
Confidence                            1122222321  22344566677655332               77888999999998776543


Q ss_pred             cccCCCCchhHHHHHHhHcCCchH
Q 038724          138 TLVSHPAIHKPAKMVAKDCGGLPL  161 (483)
Q Consensus       138 ~~~~~~~~~~~~~~i~~~c~g~Pl  161 (483)
                      ......+    .+.+++++.|...
T Consensus       195 ~~~~~~~----l~~la~~t~g~s~  214 (265)
T d1r7ra3         195 PVAKDVD----LEFLAKMTNGFSG  214 (265)
T ss_dssp             ----CCC----CHHHHHHHCSSCC
T ss_pred             Cchhhhh----HHHHHhcCCCCCH
Confidence            2111112    4677778777653

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=1.8e-06  Score=70.42  Aligned_cols=79  Identities=32%  Similarity=0.307  Sum_probs=51.7

Q ss_pred             CCCcccEEEecCCccccccc--hhhhcCCCccEEEccCCccCccCCc-ccccCcCCCEEeccCCCCCccCc--------c
Q 038724          316 SCPHLLTLFLNDNYLQDIKN--GFFQFMPCLKVLNLSYNRFLTKLPS-GISKLVSLQHLDISFTSTLELPE--------E  384 (483)
Q Consensus       316 ~~~~L~~L~l~~n~~~~~~~--~~~~~l~~L~~L~l~~n~~~~~~p~-~~~~l~~L~~L~l~~~~i~~lp~--------~  384 (483)
                      .+++|++|+|++|.++.+.+  ..+..+++|+.|++++|. +..+++ ......+|+.|++++|++.....        -
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~-i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i  141 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAI  141 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSC-CCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHH
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCc-cccchhhhhhhccccceeecCCCCcCcCcccchhHHHHH
Confidence            46677777777777776542  346677888888888886 444432 23344567888888888655432        1


Q ss_pred             ccCCcCCCEEe
Q 038724          385 LKALEKLKYLD  395 (483)
Q Consensus       385 ~~~l~~L~~L~  395 (483)
                      +..+++|+.||
T Consensus       142 ~~~~P~L~~LD  152 (162)
T d1koha1         142 RERFPKLLRLD  152 (162)
T ss_dssp             HTTSTTCCEET
T ss_pred             HHHCCCCCEEC
Confidence            45678888775

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.83  E-value=1.9e-06  Score=82.87  Aligned_cols=88  Identities=19%  Similarity=0.078  Sum_probs=60.8

Q ss_pred             ccccceEEEEccccccccccC------CCCCCcccEEEecCCccccccchhh-----hcCCCccEEEccCCccCcc----
Q 038724          293 LKWLGLRRMSLMNNQIKTLLN------TPSCPHLLTLFLNDNYLQDIKNGFF-----QFMPCLKVLNLSYNRFLTK----  357 (483)
Q Consensus       293 ~~~~~l~~l~l~~~~~~~~~~------~~~~~~L~~L~l~~n~~~~~~~~~~-----~~l~~L~~L~l~~n~~~~~----  357 (483)
                      ..+++++.|++++|.++....      ...+++|+.|+|++|.++......+     ....+|++|++++|.+...    
T Consensus        24 ~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it~~~~~~  103 (460)
T d1z7xw1          24 PLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGV  103 (460)
T ss_dssp             HHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHH
T ss_pred             HhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCCCCEEECCCCCcccccccc
Confidence            356778889999998763211      1467889999999998754221111     1234799999999975432    


Q ss_pred             CCcccccCcCCCEEeccCCCCCc
Q 038724          358 LPSGISKLVSLQHLDISFTSTLE  380 (483)
Q Consensus       358 ~p~~~~~l~~L~~L~l~~~~i~~  380 (483)
                      ++..+..+++|++|++++|.+..
T Consensus       104 l~~~l~~~~~L~~L~L~~N~i~~  126 (460)
T d1z7xw1         104 LSSTLRTLPTLQELHLSDNLLGD  126 (460)
T ss_dssp             HHHHTTSCTTCCEEECCSSBCHH
T ss_pred             ccchhhccccccccccccccchh
Confidence            45567788899999999988765

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {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: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.82  E-value=1.5e-05  Score=66.85  Aligned_cols=109  Identities=10%  Similarity=-0.007  Sum_probs=70.3

Q ss_pred             HHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhcccC-CCCCCEEEEEEeC-CCcCccchhH---Hh---hhcCCc
Q 038724            6 QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRFCSE-RPGFDVVIWVVVS-KELKLETSQD---DM---ILSTKK   77 (483)
Q Consensus         6 ~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~~~~-~~~f~~~~~v~~~-~~~~~~~~~~---~i---~l~~~~   77 (483)
                      .++-+.+++..+..+.+.++|++|+|||++|..+++..... ..|.| ..++... ......++..   .+   ...+++
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~   80 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIRTIKDFLNYSPELYTR   80 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHHHHHHHHHTSCCSSSSS
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHHHHHHHHHhhCcccCCC
Confidence            56778888888888999999999999999999988755211 22334 3444332 2223333332   22   344677


Q ss_pred             EEEEEcCCCCc--cccccccCCCCCCCCCCEEEEecCChh
Q 038724           78 FLLLLDDLWET--IDLSKIGVPLPSQKIVSKVVFTTHSEE  115 (483)
Q Consensus        78 ~LlvlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtR~~~  115 (483)
                      -++|+|+++..  ....+++..+-+..+.+.++++|.+..
T Consensus        81 KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~  120 (198)
T d2gnoa2          81 KYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWH  120 (198)
T ss_dssp             EEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGG
T ss_pred             EEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChh
Confidence            79999999865  334555555544445677776666554

>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=97.63  E-value=1.9e-05  Score=71.52  Aligned_cols=43  Identities=26%  Similarity=0.209  Sum_probs=33.5

Q ss_pred             CCChhHHHHHHHHHhc--------------CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--------------KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--------------~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||-++.++.|..++.+              ...+-+.++||+|+|||.||+++++..
T Consensus        17 iGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          17 IGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            5777777777765521              134678899999999999999999976

>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=97.27  E-value=6.6e-05  Score=62.16  Aligned_cols=25  Identities=16%  Similarity=0.485  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.|+|.|++|+||||||+++++..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999976

>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=97.19  E-value=6.5e-05  Score=60.74  Aligned_cols=24  Identities=38%  Similarity=0.480  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|.|+|++|+||||+|+.++++.
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468889999999999999999977

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.15  E-value=0.00015  Score=58.86  Aligned_cols=115  Identities=12%  Similarity=0.023  Sum_probs=59.7

Q ss_pred             CCcccEEEecCC-ccccc----cchhhhcCCCccEEEccCCccCc----cCCcccccCcCCCEEeccCCCCCc-----cC
Q 038724          317 CPHLLTLFLNDN-YLQDI----KNGFFQFMPCLKVLNLSYNRFLT----KLPSGISKLVSLQHLDISFTSTLE-----LP  382 (483)
Q Consensus       317 ~~~L~~L~l~~n-~~~~~----~~~~~~~l~~L~~L~l~~n~~~~----~~p~~~~~l~~L~~L~l~~~~i~~-----lp  382 (483)
                      .++|+.|+|+++ .+...    ....+...++|+.|+|++|.+..    .+...+...+.|++|++++|.++.     +-
T Consensus        14 ~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l~   93 (167)
T d1pgva_          14 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLL   93 (167)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHHH
Confidence            456777777653 33321    11124445667777777775432    122334445667777777776554     22


Q ss_pred             ccccCCcCCCEEecCCCCCcCCCCCCCCccchhhHhhhccccccccceeeccC
Q 038724          383 EELKALEKLKYLDMDDHQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS  435 (483)
Q Consensus       383 ~~~~~l~~L~~L~l~~n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~  435 (483)
                      ..+..-++|++|++++|....+-+    .....+...+..-++|+.|+++.+.
T Consensus        94 ~aL~~n~sL~~L~l~~n~~~~~g~----~~~~~l~~~L~~n~sL~~l~l~~~~  142 (167)
T d1pgva_          94 RSTLVTQSIVEFKADNQRQSVLGN----QVEMDMMMAIEENESLLRVGISFAS  142 (167)
T ss_dssp             HHTTTTCCCSEEECCCCSSCCCCH----HHHHHHHHHHHHCSSCCEEECCCCC
T ss_pred             HHHHhCCcCCEEECCCCcCCCccH----HHHHHHHHHHHhCCCccEeeCcCCC
Confidence            235556677777777775332100    0012234445555666666665543

>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=97.14  E-value=0.00011  Score=59.87  Aligned_cols=24  Identities=29%  Similarity=0.506  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|.|+|++|+||||+|+++++..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            689999999999999999999876

>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=97.13  E-value=0.00022  Score=59.43  Aligned_cols=39  Identities=18%  Similarity=0.322  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHh---cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            5 KQFYQVWRFLV---KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         5 ~~~~~l~~~l~---~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.++.|.+...   ..+.-+|+|.|++|.||||||+++.+..
T Consensus         5 ~~~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_           5 DRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             HHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34455554443   3456689999999999999999998876

>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=97.10  E-value=0.00013  Score=58.06  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|.|+|++|+||||+|+++..+.
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987654

>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=97.07  E-value=0.00013  Score=59.78  Aligned_cols=25  Identities=24%  Similarity=0.147  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -.+|.|+|++|+||||+|++++++.
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999999999887

>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=97.05  E-value=0.00016  Score=59.34  Aligned_cols=23  Identities=48%  Similarity=0.673  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|++|+|||||++.++...
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhcC
Confidence            38999999999999999999866

>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=97.04  E-value=0.00013  Score=59.23  Aligned_cols=25  Identities=28%  Similarity=0.509  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++++|+|.+|+|||||++++.+..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999999876

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, 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: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.01  E-value=0.0007  Score=60.88  Aligned_cols=82  Identities=20%  Similarity=0.246  Sum_probs=51.9

Q ss_pred             CCChhHHHHHHHHHhc--------C-CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC---cc---
Q 038724            1 IENPKQFYQVWRFLVK--------K-DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK---LE---   65 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--------~-~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~---~~---   65 (483)
                      ||-++.++.|..++..        + ...++.++|++|+|||.||+.+++-.      +...+-++++.-.+   ..   
T Consensus        25 iGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l------~~~~i~~d~s~~~~~~~~~~l~   98 (315)
T d1r6bx3          25 FGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL------GIELLRFDMSEYMERHTVSRLI   98 (315)
T ss_dssp             CSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH------TCEEEEEEGGGCSSSSCCSSSC
T ss_pred             cChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc------cCCeeEeccccccchhhhhhhc
Confidence            5777888887776631        1 34578899999999999999999866      12233344332111   11   


Q ss_pred             ------------chhHHhhhcCCcEEEEEcCCCCc
Q 038724           66 ------------TSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        66 ------------~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                                  ........+....++++|+++..
T Consensus        99 g~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3          99 GAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             CCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             ccCCCccccccCChhhHHHHhCccchhhhcccccc
Confidence                        11111234456678999999765

>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=96.98  E-value=0.00021  Score=58.07  Aligned_cols=27  Identities=26%  Similarity=0.534  Sum_probs=24.4

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+++.|.|++|+||||+|+.++++.
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            356899999999999999999999876

>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=96.96  E-value=0.00017  Score=58.74  Aligned_cols=24  Identities=46%  Similarity=0.499  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|+|++|+||||+|+.++++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999876

>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=96.96  E-value=0.00014  Score=60.01  Aligned_cols=24  Identities=33%  Similarity=0.488  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|.|+|++|+|||||+++++...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            579999999999999999999887

>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=96.94  E-value=0.00043  Score=60.88  Aligned_cols=26  Identities=27%  Similarity=0.221  Sum_probs=23.5

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++.|.++|++|+||||+|++++...
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45678999999999999999999976

>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=96.93  E-value=0.00052  Score=60.74  Aligned_cols=38  Identities=34%  Similarity=0.563  Sum_probs=32.8

Q ss_pred             HHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            6 QFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         6 ~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++..+.+.+.+.+.++|.+.|-||+||||+|..++...
T Consensus         7 ~~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~l   44 (279)
T d1ihua2           7 SLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRL   44 (279)
T ss_dssp             CHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45677788888889999999999999999998887766

>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=96.87  E-value=0.00026  Score=58.97  Aligned_cols=28  Identities=29%  Similarity=0.401  Sum_probs=24.8

Q ss_pred             cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           16 KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        16 ~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...+.+|.|.|++|+||||+|+.++++.
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3456799999999999999999999876

>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=96.85  E-value=0.00026  Score=57.76  Aligned_cols=25  Identities=24%  Similarity=0.388  Sum_probs=23.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|.|.|++|+||||+|+++++..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            3689999999999999999999976

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {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: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.83  E-value=0.00076  Score=60.56  Aligned_cols=43  Identities=21%  Similarity=0.375  Sum_probs=32.9

Q ss_pred             CCChhHHHHHHHHHhc--------C-CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--------K-DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--------~-~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|-++.++.|...+..        . ...++.++|+.|+|||.+|+.+++..
T Consensus        26 ~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          26 VGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             CSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             eCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            5777777777666632        1 23478889999999999999999875

>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=96.78  E-value=0.00033  Score=56.95  Aligned_cols=24  Identities=33%  Similarity=0.391  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -.|.|.|++|+||||+|+.+++++
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999876

>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=96.77  E-value=0.00035  Score=56.90  Aligned_cols=25  Identities=36%  Similarity=0.387  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -++|.|.|++|+||||+|++++++.
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999998765

>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=96.76  E-value=0.0003  Score=56.61  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|.||+|+||||+|+.++++.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999999987

>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=96.75  E-value=0.00033  Score=56.60  Aligned_cols=22  Identities=32%  Similarity=0.480  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.+.||+|+||||+|+.++++.
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4566999999999999999987

>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=96.75  E-value=0.00039  Score=57.95  Aligned_cols=27  Identities=26%  Similarity=0.473  Sum_probs=24.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...++|.|.|++|+||||+|+.+++++
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999999976

>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=96.72  E-value=0.00034  Score=57.66  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|++|+||||+++.++++.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999877

>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=96.71  E-value=0.00024  Score=59.14  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+|.++|++|+||||+|++++...
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578899999999999999999877

>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=96.64  E-value=0.00034  Score=56.85  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.++|++|+||||+|+.++++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            46788999999999999999987

>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=96.60  E-value=0.00053  Score=58.34  Aligned_cols=25  Identities=28%  Similarity=0.489  Sum_probs=23.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|+|.||+|+||||+|+.+++++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4699999999999999999999987

>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=96.59  E-value=0.003  Score=54.23  Aligned_cols=61  Identities=13%  Similarity=0.090  Sum_probs=40.6

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCC----CCCEEEEEEeCCCcCccchhHH
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERP----GFDVVIWVVVSKELKLETSQDD   70 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~----~f~~~~~v~~~~~~~~~~~~~~   70 (483)
                      .|.+.|..+  .-+++.|+|++|+|||++|.+++... ....    .-..++|++....+....+...
T Consensus        22 ~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   88 (251)
T d1szpa2          22 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPVRLVSI   88 (251)
T ss_dssp             HHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTT-TSCTTTTCCSCEEEEEESSSCCCGGGGHHH
T ss_pred             HHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHh-hhhhhhccCCceEEEEeecchHHHHHHHHH
Confidence            344444432  33599999999999999999987654 2111    2256888888777765554443

>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=96.58  E-value=0.00054  Score=57.68  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -+|.++|.+|+||||+|+++++..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999866

>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=96.58  E-value=0.00053  Score=55.75  Aligned_cols=27  Identities=19%  Similarity=0.263  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.+|.++|++|+||||+|++.+...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            356799999999999999999997654

>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=96.57  E-value=0.001  Score=55.88  Aligned_cols=33  Identities=21%  Similarity=0.212  Sum_probs=27.0

Q ss_pred             HHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           11 WRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        11 ~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++........+|.++|++|.||||+|+++++..
T Consensus        16 r~~~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          16 RTELRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHHHHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            344555566799999999999999999998765

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.49  E-value=0.00074  Score=54.57  Aligned_cols=92  Identities=15%  Similarity=0.150  Sum_probs=64.4

Q ss_pred             hhcCCCccEEEccCCccCcc-----CCcccccCcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCcCCCCC
Q 038724          338 FQFMPCLKVLNLSYNRFLTK-----LPSGISKLVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQVMEEGN  407 (483)
Q Consensus       338 ~~~l~~L~~L~l~~n~~~~~-----~p~~~~~l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~~~p~~  407 (483)
                      ..+.+.|+.|+|++++.++.     +-..+...++|++|++++|.+..     +...+...+.|++|+|++|.+...   
T Consensus        11 ~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~---   87 (167)
T d1pgva_          11 REDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPE---   87 (167)
T ss_dssp             HTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHH---
T ss_pred             HhCCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchH---
Confidence            34568899999997532221     22346677889999999998754     333456678999999999985421   


Q ss_pred             CCCccchhhHhhhccccccccceeeccCc
Q 038724          408 CQSDDAESLLKEMLCLEQLNIIRLTSCSL  436 (483)
Q Consensus       408 ~~l~~~~~~~~~l~~l~~L~~L~l~~~~l  436 (483)
                          ......+.+..-++|++|++++|..
T Consensus        88 ----g~~~l~~aL~~n~sL~~L~l~~n~~  112 (167)
T d1pgva_          88 ----LLARLLRSTLVTQSIVEFKADNQRQ  112 (167)
T ss_dssp             ----HHHHHHHHTTTTCCCSEEECCCCSS
T ss_pred             ----HHHHHHHHHHhCCcCCEEECCCCcC
Confidence                1123445677778999999998854

>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=96.46  E-value=0.00074  Score=56.03  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.+|.|.|++|+||||.|+.+++++
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999999876

>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=96.44  E-value=0.003  Score=54.69  Aligned_cols=41  Identities=32%  Similarity=0.541  Sum_probs=31.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKEL   62 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~   62 (483)
                      ..++|.|.+|+|||+|+..++++.  .+.+-+.++++-+++..
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~--~~~~~~v~V~~~iGer~  109 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNV--AKAHGGYSVFAGVGERT  109 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH--TTTCSSEEEEEEESCCH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHH--HhhCCCeEEEEEeccCh
Confidence            369999999999999999998874  13445667788776553

>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=96.43  E-value=0.0012  Score=58.81  Aligned_cols=29  Identities=31%  Similarity=0.376  Sum_probs=24.9

Q ss_pred             hcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           15 VKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        15 ~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+..++++.+.|-||+||||+|..++...
T Consensus         4 ~~~~p~~i~~sGKGGVGKTTvaa~lA~~l   32 (296)
T d1ihua1           4 LQNIPPYLFFTGKGGVGKTSISCATAIRL   32 (296)
T ss_dssp             GSSCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCcChHHHHHHHHHHHH
Confidence            34557899999999999999999988876

>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=96.40  E-value=0.0013  Score=57.73  Aligned_cols=24  Identities=25%  Similarity=0.707  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|+|+|-||+||||+|..++...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~L   25 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGL   25 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHH
Confidence            678999999999999999988877

>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=96.39  E-value=0.00084  Score=54.09  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++++|+|..|+|||||+.++....
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998876

>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=96.37  E-value=0.00089  Score=55.20  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|++|+||||+|+.+++..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999887

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {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: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.36  E-value=0.0018  Score=55.37  Aligned_cols=24  Identities=38%  Similarity=0.722  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|+.|.|||||++.+..-.
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            489999999999999999997754

>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=96.32  E-value=0.00081  Score=55.43  Aligned_cols=24  Identities=33%  Similarity=0.570  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|+|+|++|+|||||++.++++.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            468899999999999999998876

>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=96.31  E-value=0.0011  Score=55.86  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +-+|+|.|..|.||||+|+++.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998876

>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=96.28  E-value=0.0074  Score=51.89  Aligned_cols=47  Identities=23%  Similarity=0.324  Sum_probs=33.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCC----CCCCEEEEEEeCCCcCccc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSER----PGFDVVIWVVVSKELKLET   66 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~----~~f~~~~~v~~~~~~~~~~   66 (483)
                      -+++.|+|++|+|||++|.+++.+. ...    ......+|+......+...
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPER   86 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHh-hchHHhcCCCceEEEEeccchhHHHH
Confidence            3699999999999999999998765 211    2235677887766655443

>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=96.24  E-value=0.00085  Score=55.51  Aligned_cols=23  Identities=35%  Similarity=0.554  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|+||+|+|||||++++++..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            57899999999999999998876

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

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: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.23  E-value=0.0028  Score=56.77  Aligned_cols=27  Identities=26%  Similarity=0.461  Sum_probs=24.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++..+|+|+|++|+|||||..++....
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999998765

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=96.13  E-value=0.003  Score=57.60  Aligned_cols=52  Identities=17%  Similarity=0.143  Sum_probs=29.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHH
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDD   70 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~   70 (483)
                      .+++.|+|++|.||||++.++.....+....-...+.+..........+.+.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~  214 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTES  214 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHH
Confidence            3589999999999999986654332111111122455655544444444333

>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=96.11  E-value=0.0011  Score=54.79  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +..|.|.|++|+||||+|+.+++.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457899999999999999999877

>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=96.11  E-value=0.0022  Score=56.81  Aligned_cols=24  Identities=25%  Similarity=0.601  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|+|=||+||||+|..++...
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~L   26 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            577889999999999999887766

>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=96.11  E-value=0.0013  Score=55.73  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +|+|.|++|+||||+|+.++.++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999987

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.10  E-value=0.0024  Score=51.28  Aligned_cols=112  Identities=14%  Similarity=0.030  Sum_probs=53.3

Q ss_pred             CCcccEEEecCC-ccccc----cchhhhcCCCccEEEccCCccCcc----CCcccccCcCCCEEeccCCCCCc-----cC
Q 038724          317 CPHLLTLFLNDN-YLQDI----KNGFFQFMPCLKVLNLSYNRFLTK----LPSGISKLVSLQHLDISFTSTLE-----LP  382 (483)
Q Consensus       317 ~~~L~~L~l~~n-~~~~~----~~~~~~~l~~L~~L~l~~n~~~~~----~p~~~~~l~~L~~L~l~~~~i~~-----lp  382 (483)
                      .+.|++|+++++ .++..    ....+...++|+.|++++|.+...    +-..+...+.++.+++++|.+..     +-
T Consensus        16 ~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~l~   95 (166)
T d1io0a_          16 DPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILALV   95 (166)
T ss_dssp             CTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHHHH
T ss_pred             CCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccchhHHHHH
Confidence            456666666652 33211    111233456666666666643221    11233445666666666665432     22


Q ss_pred             ccccCCcCCCEEecCC--CCCcCCCCCCCCccchhhHhhhccccccccceeeccC
Q 038724          383 EELKALEKLKYLDMDD--HQQVMEEGNCQSDDAESLLKEMLCLEQLNIIRLTSCS  435 (483)
Q Consensus       383 ~~~~~l~~L~~L~l~~--n~~~~~p~~~~l~~~~~~~~~l~~l~~L~~L~l~~~~  435 (483)
                      ..+...++|+.++|+.  |.+...       ....+.+.+...+.|++|+++.+.
T Consensus        96 ~~l~~~~~L~~l~L~l~~n~i~~~-------~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          96 EALQSNTSLIELRIDNQSQPLGNN-------VEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HGGGGCSSCCEEECCCCSSCCCHH-------HHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHhCccccEEeeccCCCcCcHH-------HHHHHHHHHHhCCCcCEEeCcCCC
Confidence            3355556666655543  332100       012233445556666666665544

>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=96.08  E-value=0.0018  Score=52.91  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|+||||+|+.+++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37788999999999999999877

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

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: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.07  E-value=0.0014  Score=58.38  Aligned_cols=62  Identities=18%  Similarity=0.383  Sum_probs=37.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcC---------ccchhHHhhhcCCcEEEEEcCCCCc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELK---------LETSQDDMILSTKKFLLLLDDLWET   88 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~---------~~~~~~~i~l~~~~~LlvlDdv~~~   88 (483)
                      .++.++|++|+|||.+|++++... ..+..|.   -+..++-..         ++++....   .++++|++|.++..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~-~~~~~~~---~~~~~~~~~~~~G~~e~~~~~~f~~a---~~~~ilf~DEid~~  194 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL-GGKDKYA---TVRFGEPLSGYNTDFNVFVDDIARAM---LQHRVIVIDSLKNV  194 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH-HTTSCCE---EEEBSCSSTTCBCCHHHHHHHHHHHH---HHCSEEEEECCTTT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh-cCCCCeE---EEEhhHhhhcccchHHHHHHHHHHHH---hhccEEEeehhhhh
Confidence            356678999999999999999976 2122231   233332211         22222222   23679999999654

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {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: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.07  E-value=0.0034  Score=56.34  Aligned_cols=27  Identities=30%  Similarity=0.449  Sum_probs=24.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++..+|+|+|++|+|||||..++....
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999998766

>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=96.07  E-value=0.0014  Score=53.64  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|.|++|+||||+|+.++++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7799999999999999999876

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

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: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.06  E-value=0.0015  Score=54.12  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=23.0

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .++|.|.|++|.||||+|+.++++.
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999876

>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=96.03  E-value=0.0033  Score=53.91  Aligned_cols=50  Identities=16%  Similarity=0.128  Sum_probs=36.6

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      .|.+.|..+  .-.++.|+|.+|+|||++|.+++.+.   ......++|++....
T Consensus        14 ~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          14 RLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEES   65 (242)
T ss_dssp             HHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSSC
T ss_pred             HHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccCC
Confidence            344555532  34599999999999999999999886   345566788876543

>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=96.02  E-value=0.0017  Score=53.61  Aligned_cols=25  Identities=32%  Similarity=0.563  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.++| |.|++|+||||+|+.+++++
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45566 68999999999999999876

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

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 alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=96.02  E-value=0.0032  Score=54.71  Aligned_cols=38  Identities=13%  Similarity=0.168  Sum_probs=27.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCC
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKE   61 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~   61 (483)
                      .++|+|.+|+|||+|+.......   ..+-..++++-+++.
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer  106 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQK  106 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCC
T ss_pred             eEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecch
Confidence            57899999999999998865544   334456666655543

>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=96.02  E-value=0.0016  Score=53.70  Aligned_cols=23  Identities=30%  Similarity=0.575  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.||+|+||||+|+.+++++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            46677999999999999999976

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {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: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.99  E-value=0.0018  Score=52.83  Aligned_cols=24  Identities=25%  Similarity=0.476  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|+||+|+|||||++++..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            579999999999999999998765

>d1znwa1 c.37.1.1 (A:20-201) Guanylate 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: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.98  E-value=0.0017  Score=53.15  Aligned_cols=24  Identities=29%  Similarity=0.595  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|++|+|||||++.+.++.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998876

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {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: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.97  E-value=0.0043  Score=53.33  Aligned_cols=24  Identities=29%  Similarity=0.596  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|+.|.|||||++.+..-.
T Consensus        41 e~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhccc
Confidence            489999999999999999997654

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=95.94  E-value=0.0025  Score=55.54  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|.|..|+|||+|+..+++..
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998865

>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=95.85  E-value=0.0019  Score=52.77  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|.||||+|+.+++++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37789999999999999999977

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.69  E-value=0.0069  Score=52.44  Aligned_cols=49  Identities=16%  Similarity=0.234  Sum_probs=36.1

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDM   71 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i   71 (483)
                      -+++-|+|++|+|||++|.+++... +..  -..++|++....++... ++++
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~~-q~~--g~~~vyIDtE~~~~~e~-a~~~  108 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVANA-QAA--GGVAAFIDAEHALDPDY-AKKL  108 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHHH-HHT--TCEEEEEESSCCCCHHH-HHHH
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHHH-hcC--CCEEEEEECCccCCHHH-HHHh
Confidence            4689999999999999998888766 222  23588998887776443 3444

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=95.68  E-value=0.0075  Score=52.13  Aligned_cols=66  Identities=14%  Similarity=0.106  Sum_probs=43.4

Q ss_pred             HHHHHHhcCC---eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcE
Q 038724            9 QVWRFLVKKD---VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKF   78 (483)
Q Consensus         9 ~l~~~l~~~~---~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~   78 (483)
                      .|..+|..++   -+++-|+|++|+||||+|.+++... +.  .-..++|++....++... .+.+.+.-.++
T Consensus        41 ~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~-q~--~g~~~vyidtE~~~~~~~-a~~~Gvd~d~v  109 (263)
T d1u94a1          41 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAA-QR--EGKTCAFIDAEHALDPIY-ARKLGVDIDNL  109 (263)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHH-HH--TTCCEEEEESSCCCCHHH-HHHTTCCGGGC
T ss_pred             HHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHH-Hc--CCCEEEEEccccccCHHH-HHHhCCCHHHE
Confidence            4445554343   2599999999999999999998877 22  223478998887776532 44444433343

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

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: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.63  E-value=0.0024  Score=57.91  Aligned_cols=41  Identities=20%  Similarity=0.341  Sum_probs=29.5

Q ss_pred             CCChhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHh
Q 038724            1 IENPKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      ||.+.....+.-++-..+..-|.+.|.+|+|||++|+.++.
T Consensus        10 ~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          10 VGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            57777666554333322234689999999999999999875

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.62  E-value=0.0015  Score=52.59  Aligned_cols=113  Identities=18%  Similarity=0.098  Sum_probs=73.2

Q ss_pred             cchhhhcCCCccEEEccCCccCc-----cCCcccccCcCCCEEeccCCCCCc-----cCccccCCcCCCEEecCCCCCcC
Q 038724          334 KNGFFQFMPCLKVLNLSYNRFLT-----KLPSGISKLVSLQHLDISFTSTLE-----LPEELKALEKLKYLDMDDHQQVM  403 (483)
Q Consensus       334 ~~~~~~~l~~L~~L~l~~n~~~~-----~~p~~~~~l~~L~~L~l~~~~i~~-----lp~~~~~l~~L~~L~l~~n~~~~  403 (483)
                      ........+.|++|+++++..++     .+-..+...++|++|++++|.+..     +-..+...++++.|++++|.+..
T Consensus         9 l~~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~   88 (166)
T d1io0a_           9 LKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISG   88 (166)
T ss_dssp             HHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCH
T ss_pred             HHHHHhcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccHHHHHHHHHHHhhcccchhhhhccccccc
Confidence            33444567899999999743221     122345678899999999998654     22335677899999999987542


Q ss_pred             CCCCCCCccchhhHhhhcccccccccee--eccCc---------cccCCCCCcccccceee
Q 038724          404 EEGNCQSDDAESLLKEMLCLEQLNIIRL--TSCSL---------CSLCGLPTVQCLTSRRL  453 (483)
Q Consensus       404 ~p~~~~l~~~~~~~~~l~~l~~L~~L~l--~~~~l---------~~l~~l~~l~~l~l~~~  453 (483)
                      .       ......+.+...++|+.+++  ++|++         ..+...+.|+.|++..+
T Consensus        89 ~-------g~~~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          89 S-------GILALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             H-------HHHHHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             h-------hHHHHHHHHHhCccccEEeeccCCCcCcHHHHHHHHHHHHhCCCcCEEeCcCC
Confidence            1       11234456777788887555  45554         22445667777766543

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {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: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.62  E-value=0.011  Score=52.18  Aligned_cols=26  Identities=27%  Similarity=0.312  Sum_probs=23.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+-+|+|.|.+|+||||+|+.+....
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL  104 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHH
Confidence            46799999999999999999998876

>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=95.61  E-value=0.0027  Score=51.75  Aligned_cols=22  Identities=36%  Similarity=0.611  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|.|++|+||||+|+.+++..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4577999999999999999876

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

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: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.61  E-value=0.0041  Score=51.68  Aligned_cols=26  Identities=31%  Similarity=0.383  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.+++.++|+.|+||||.+.+++.+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~   34 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYY   34 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998877

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

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: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.59  E-value=0.0035  Score=52.01  Aligned_cols=27  Identities=26%  Similarity=0.509  Sum_probs=23.7

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+.+++.++|+.|+||||.+.+++.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~   30 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYY   30 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999998877

>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=95.59  E-value=0.0028  Score=51.56  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.|.|++|.||||+|+.++++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999876

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

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: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=95.54  E-value=0.0059  Score=55.65  Aligned_cols=26  Identities=27%  Similarity=0.410  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ....+.+.||.|+|||.||+.+++..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            34568999999999999999998765

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=95.49  E-value=0.0038  Score=51.38  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHH
Q 038724           19 VGIIGLFGTGGVGKTTILKQIN   40 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~   40 (483)
                      +-+|+|+|+.|.||||+|+.+.
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999873

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {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: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.49  E-value=0.0045  Score=51.54  Aligned_cols=27  Identities=30%  Similarity=0.410  Sum_probs=23.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.+|.++|+.|+||||.+.+++.++
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~   35 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF   35 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999988877

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {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: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.42  E-value=0.0047  Score=51.32  Aligned_cols=27  Identities=37%  Similarity=0.583  Sum_probs=24.0

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.+|.++|+.|+||||.+.+++.+.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~   33 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF   33 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            346899999999999999999998877

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.39  E-value=0.018  Score=49.19  Aligned_cols=35  Identities=23%  Similarity=0.225  Sum_probs=26.2

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|.+.|..+  .-.++.|+|.+|+|||++|.+++.+.
T Consensus        22 ~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          22 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            344444422  23699999999999999999998765

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {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: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.37  E-value=0.035  Score=47.35  Aligned_cols=56  Identities=14%  Similarity=0.106  Sum_probs=37.7

Q ss_pred             HHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhccc---CCCCCCEEEEEEeCCCcCc
Q 038724            9 QVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRFCS---ERPGFDVVIWVVVSKELKL   64 (483)
Q Consensus         9 ~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~~~---~~~~f~~~~~v~~~~~~~~   64 (483)
                      .|.++|..+  .-+++.|+|++|+|||++|.+++.....   ....+..+.|+........
T Consensus        25 ~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (258)
T d1v5wa_          25 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRP   85 (258)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCH
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHH
Confidence            344444432  3469999999999999999999865411   1224566788877666553

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {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: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.36  E-value=0.056  Score=42.56  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+|+|.+|+|||+|+.++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7889999999999999987543

>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=95.34  E-value=0.0039  Score=51.51  Aligned_cols=27  Identities=26%  Similarity=0.210  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+-+|+|-|..|+||||+++.+.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999998765

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

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: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=95.28  E-value=0.0049  Score=51.27  Aligned_cols=27  Identities=30%  Similarity=0.347  Sum_probs=19.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.+|.++|+.|+||||.+.+++.+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~   36 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFY   36 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999998888776

>d1s96a_ c.37.1.1 (A:) Guanylate 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: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.22  E-value=0.0047  Score=51.39  Aligned_cols=24  Identities=13%  Similarity=0.289  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+||+|+|||||.+.+.++.
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            478999999999999999998875

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

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: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=95.15  E-value=0.0099  Score=51.44  Aligned_cols=56  Identities=16%  Similarity=0.192  Sum_probs=39.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCCCcCccchhHHhhhcCCcE
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSKELKLETSQDDMILSTKKF   78 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~~~~~~~~~~~i~l~~~~~   78 (483)
                      -+++-|+|++|.|||++|.+++... +..+  ..++|++....++.. .++.+.+...++
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~a-qk~g--~~v~yiDtE~~~~~~-~a~~~Gvd~d~i  112 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQA-QKAG--GTCAFIDAEHALDPV-YARALGVNTDEL  112 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH-HHHHTTCCGGGC
T ss_pred             ceEEEEecCCccchHHHHHHHHHHH-HhCC--CEEEEEECCccCCHH-HHHHhCCCchhE
Confidence            3599999999999999999988876 2222  348899888777654 444554433343

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {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: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.13  E-value=0.016  Score=46.08  Aligned_cols=23  Identities=26%  Similarity=0.268  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|.+.|.+|+|||+|+.++.+..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999998653

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.10  E-value=0.043  Score=43.83  Aligned_cols=35  Identities=31%  Similarity=0.590  Sum_probs=27.3

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ...+..++.+... -|.|+|.+|+|||||..++...
T Consensus         4 ~~~~~~~~~~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           4 FTRIWRLFNHQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHHTTSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            3456667776665 4678999999999999998765

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

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: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.93  E-value=0.0088  Score=54.36  Aligned_cols=26  Identities=19%  Similarity=0.059  Sum_probs=23.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.+.++||+|+|||++|.++++..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999999987

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {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: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.92  E-value=0.011  Score=50.61  Aligned_cols=43  Identities=16%  Similarity=0.209  Sum_probs=33.5

Q ss_pred             CCChhHHHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            1 IENPKQFYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         1 vgr~~~~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||....++++.+.+..  .....|.|+|..|+|||++|+.+++.-
T Consensus         3 v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           3 VFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            6777778877777764  222368999999999999999998754

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

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: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.89  E-value=0.0038  Score=54.45  Aligned_cols=26  Identities=27%  Similarity=0.525  Sum_probs=20.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|.|.+|.||||+|+++.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            45699999999999999999987765

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

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: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=94.86  E-value=0.011  Score=50.48  Aligned_cols=23  Identities=35%  Similarity=0.579  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ||+|+|+.|.|||||..++.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            78999999999999999998765

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {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: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=94.66  E-value=0.011  Score=48.85  Aligned_cols=33  Identities=30%  Similarity=0.529  Sum_probs=25.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|.|+.|+|||||.+.++.-.    ....+.+.+
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl~----~p~~G~I~~   60 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTYL----KPLKGEIIY   60 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCChHHHHHHHHhccc----ccCCCEEEE
Confidence            489999999999999999998754    234455544

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {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: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.66  E-value=0.054  Score=42.88  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|...+.+..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37788999999999999987654

>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=94.58  E-value=0.01  Score=50.62  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=23.7

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++.|+|-|+-|+||||+++.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46789999999999999999999876

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.58  E-value=0.009  Score=47.07  Aligned_cols=22  Identities=36%  Similarity=0.401  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |.|+|.+|+|||||..++..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987654

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.53  E-value=0.0086  Score=50.42  Aligned_cols=33  Identities=21%  Similarity=0.398  Sum_probs=25.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      -+++|.|++|+|||||.+.++.-.    ..-.+.+++
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~gl~----~p~sG~I~~   64 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGCLD----KPTEGEVYI   64 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCCcchhhHhccCCC----CCCcceeEE
Confidence            489999999999999999886643    233455555

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=94.51  E-value=0.0097  Score=50.39  Aligned_cols=33  Identities=30%  Similarity=0.375  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      -+++|.|+.|.|||||++.++--.    ..-.+.+++
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl~----~p~sG~I~~   62 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGLE----EPSRGQIYI   62 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC----CCCCCEEEE
Confidence            389999999999999999998754    233455555

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {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: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.45  E-value=0.013  Score=51.11  Aligned_cols=26  Identities=31%  Similarity=0.218  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+-+|+|.|..|+||||||..+....
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999886654

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {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: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.43  E-value=0.017  Score=48.14  Aligned_cols=34  Identities=29%  Similarity=0.484  Sum_probs=27.1

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++|.+++..   +..+++|.+|+|||||..++..+.
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcchh
Confidence            5677777743   377899999999999999997654

>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=94.37  E-value=0.019  Score=48.66  Aligned_cols=37  Identities=30%  Similarity=0.408  Sum_probs=26.6

Q ss_pred             EEEEEE-cCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC
Q 038724           20 GIIGLF-GTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS   59 (483)
Q Consensus        20 ~~v~i~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~   59 (483)
                      ++|+|+ +-||+||||+|..++... ..  .-..++.++..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~l-a~--~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVAL-GD--RGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHH-HH--TTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHH-Hh--CCCCEEEEeCC
Confidence            689898 778999999999998877 22  22235556543

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.36  E-value=0.011  Score=49.77  Aligned_cols=33  Identities=21%  Similarity=0.338  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|.|+.|.|||||.+.++--.    ..-.+.+++
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl~----~p~sG~I~i   59 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGLE----TITSGDLFI   59 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC----CCCCCEEEE
Confidence            489999999999999999997644    233556655

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {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: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=94.36  E-value=0.0097  Score=50.39  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+.|.|||||++.++--.
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCc
Confidence            489999999999999999997644

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {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: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.36  E-value=0.015  Score=48.67  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +++.|+|++|+|||++|.+++.+.
T Consensus        24 ~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          24 SITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHH
Confidence            599999999999999999998765

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.36  E-value=0.011  Score=48.54  Aligned_cols=26  Identities=31%  Similarity=0.506  Sum_probs=22.6

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ++.+.|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            35668999999999999999999863

>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=94.36  E-value=0.027  Score=44.01  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=22.8

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-+|.+.|.=|+||||+++.+++..
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhc
Confidence            3489999999999999999999887

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=94.24  E-value=0.012  Score=49.74  Aligned_cols=33  Identities=30%  Similarity=0.391  Sum_probs=25.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|.|+.|.|||||.+.+..-.    ..-.+.+++
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl~----~p~sG~I~i   65 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGLE----EPTEGRIYF   65 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC----CCCCCEEEE
Confidence            489999999999999999997754    223455555

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.20  E-value=0.011  Score=50.86  Aligned_cols=33  Identities=33%  Similarity=0.438  Sum_probs=25.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      -+++|.|+.|.|||||++.++--.    ....+.+++
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl~----~p~~G~I~~   61 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFLE----KPSEGAIIV   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc----cCCCCCEEE
Confidence            489999999999999999997633    234566655

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.16  E-value=0.012  Score=46.65  Aligned_cols=23  Identities=39%  Similarity=0.475  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||..++..+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999997765

>d1r2qa_ c.37.1.8 (A:) Rab5a {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: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.15  E-value=0.056  Score=42.93  Aligned_cols=23  Identities=22%  Similarity=0.393  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||+|+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987544

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {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: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.12  E-value=0.013  Score=49.42  Aligned_cols=32  Identities=22%  Similarity=0.231  Sum_probs=25.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           21 IIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      +++|.|+.|.|||||.+.++.-.    ..-.+.+++
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~----~p~~G~I~~   57 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV----KPDRGEVRL   57 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             EEEEECCCCChHHHHHHHHHcCC----CCCceEEEE
Confidence            78899999999999999998755    234566666

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.07  E-value=0.012  Score=50.52  Aligned_cols=33  Identities=27%  Similarity=0.333  Sum_probs=25.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      ..++|+|+.|.|||||++.+..-.    ....+.+.+
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl~----~p~~G~I~i   74 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRFY----DIDEGHILM   74 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTTT----CCSEEEEEE
T ss_pred             CEEEEECCCCChHHHHHHHHhccc----CCCccEEEE
Confidence            489999999999999999997644    223455554

>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=94.06  E-value=0.019  Score=48.52  Aligned_cols=37  Identities=30%  Similarity=0.288  Sum_probs=27.5

Q ss_pred             EEEEEE-cCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC
Q 038724           20 GIIGLF-GTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS   59 (483)
Q Consensus        20 ~~v~i~-G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~   59 (483)
                      |+|+|+ |-||+||||+|..++... .  ..-..++.|+..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~l-a--~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVAL-A--QLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHH-H--HTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHH-H--hCCCCEEEEeCC
Confidence            678887 889999999999988877 2  222346677654

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=93.98  E-value=0.011  Score=49.55  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -+++|.|+.|.|||||.+.++--.
T Consensus        27 e~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCc
Confidence            389999999999999999998754

>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=93.97  E-value=0.025  Score=47.19  Aligned_cols=24  Identities=25%  Similarity=0.086  Sum_probs=21.6

Q ss_pred             EEEEEEcCC-CCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTG-GVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~-GiGKTtLa~~~~~~~   43 (483)
                      +.+.|+|-| |+||||++..++...
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            568899998 999999999998876

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA 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: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=93.97  E-value=0.015  Score=48.39  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 038724           20 GIIGLFGTGGVGKTTILKQIN   40 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~   40 (483)
                      .+|+|+|+.|.||||+|+.+.
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            389999999999999998763

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=93.97  E-value=0.071  Score=41.99  Aligned_cols=23  Identities=30%  Similarity=0.296  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|++.|.+|+|||||..++....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36788999999999999886654

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine 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: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.95  E-value=0.0096  Score=50.73  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -+.|+|-|+-|+||||+|+.+++..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998866

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {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: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.94  E-value=0.089  Score=42.00  Aligned_cols=22  Identities=32%  Similarity=0.614  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+++|.+|+|||+|..++.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999987543

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding 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: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.88  E-value=0.015  Score=50.70  Aligned_cols=24  Identities=29%  Similarity=0.551  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|+|+.|.|||||++.++.-.
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhCCC
Confidence            489999999999999999998755

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.87  E-value=0.014  Score=49.70  Aligned_cols=24  Identities=33%  Similarity=0.600  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|+.|.|||||++.+..-.
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999997654

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.84  E-value=0.073  Score=43.07  Aligned_cols=23  Identities=39%  Similarity=0.548  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|++.|.+|+|||+|..++....
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999999986554

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {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: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.80  E-value=0.016  Score=46.55  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|+.++.+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            37789999999999999987653

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

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 alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.77  E-value=0.039  Score=47.81  Aligned_cols=23  Identities=22%  Similarity=0.109  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ..++|.|.+|+|||+++..+...
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHHh
Confidence            46899999999999999877654

>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=93.74  E-value=0.016  Score=48.29  Aligned_cols=24  Identities=25%  Similarity=0.374  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|+|-|+.|+||||+++.+++..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999999999877

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {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: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.71  E-value=0.017  Score=45.90  Aligned_cols=22  Identities=23%  Similarity=0.578  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+++|.+|+|||||+..+.+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999887643

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=93.65  E-value=0.017  Score=47.85  Aligned_cols=21  Identities=48%  Similarity=0.578  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHH
Q 038724           20 GIIGLFGTGGVGKTTILKQIN   40 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~   40 (483)
                      -+|||+|..|.||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999998763

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.65  E-value=0.021  Score=45.98  Aligned_cols=25  Identities=32%  Similarity=0.606  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .+..|+|.|.+|+|||||..++.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999864

>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=93.62  E-value=0.018  Score=47.69  Aligned_cols=23  Identities=30%  Similarity=0.717  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|-|+-|+||||+++.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999998876

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {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: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.58  E-value=0.018  Score=45.75  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|+.++.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47889999999999999987643

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {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: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=93.56  E-value=0.022  Score=45.83  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..+.|+|+|.+|+|||||..++....
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~~   29 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGVK   29 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998753

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {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: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.49  E-value=0.02  Score=45.76  Aligned_cols=23  Identities=22%  Similarity=0.455  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|.|.+|+|||||..++....
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~   24 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999997643

>d3raba_ c.37.1.8 (A:) Rab3a {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: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.41  E-value=0.02  Score=45.65  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|+++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999998764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {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: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.41  E-value=0.034  Score=44.13  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-|+|.|.+|+|||+|...+.+..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            468889999999999999987643

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon 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: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=93.39  E-value=0.013  Score=49.61  Aligned_cols=24  Identities=33%  Similarity=0.553  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+.|.|||||++.+..-.
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            489999999999999999998744

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {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: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.34  E-value=0.021  Score=45.66  Aligned_cols=23  Identities=30%  Similarity=0.681  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||||...+....
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36789999999999999987643

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {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: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.34  E-value=0.021  Score=45.67  Aligned_cols=23  Identities=35%  Similarity=0.653  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|..++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988654

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=93.31  E-value=0.019  Score=45.56  Aligned_cols=23  Identities=39%  Similarity=0.512  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||..++....
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            47799999999999999986644

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {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: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.31  E-value=0.021  Score=47.26  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|+|.+|+|||||..++.++.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            478999999999999999998653

>d1kaoa_ c.37.1.8 (A:) Rap2a {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: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.28  E-value=0.022  Score=45.34  Aligned_cols=23  Identities=30%  Similarity=0.533  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||+|+.++.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999998754

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=93.23  E-value=0.021  Score=48.49  Aligned_cols=33  Identities=33%  Similarity=0.397  Sum_probs=25.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEE
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWV   56 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v   56 (483)
                      .+++|.|+.|.|||||.+.++--.    ....+.+.+
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl~----~p~~G~I~~   65 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGLV----RAQKGKIIF   65 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC----CCCccEEEe
Confidence            489999999999999999997754    233455554

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=93.22  E-value=0.024  Score=45.28  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      +-|.|.|.+|+||||+|.++..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            46889999999999999998763

>d2gjsa1 c.37.1.8 (A:91-258) Rad {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: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.18  E-value=0.023  Score=45.31  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||+|+..+....
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEEECCCCcCHHHHHHHHhCCc
Confidence            47899999999999999987644

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {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: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.16  E-value=0.023  Score=45.19  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|+.++....
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987643

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.14  E-value=0.024  Score=45.23  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .-|.|.|.+|+||||+|.++..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            45789999999999999998663

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.12  E-value=0.025  Score=47.43  Aligned_cols=26  Identities=38%  Similarity=0.483  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++..|+|.-|.|||||.+++.+..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            47899999999999999999998743

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=93.05  E-value=0.023  Score=48.76  Aligned_cols=24  Identities=25%  Similarity=0.516  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+.|.|||||++.++--.
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCC
Confidence            389999999999999999997754

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {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: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.04  E-value=0.028  Score=47.77  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|+|..|.||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999997754

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {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: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.04  E-value=0.025  Score=45.07  Aligned_cols=22  Identities=27%  Similarity=0.671  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |+++|.+|+|||+|...+.+..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6788999999999999998754

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {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: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.03  E-value=0.025  Score=45.35  Aligned_cols=23  Identities=30%  Similarity=0.538  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||..++.+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            47899999999999999987543

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {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: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=93.01  E-value=0.023  Score=48.07  Aligned_cols=24  Identities=46%  Similarity=0.733  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+++|.|+.|.|||||.+.++.-.
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            489999999999999999997754

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {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: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.99  E-value=0.025  Score=44.87  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||||..++....
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987643

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {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: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.98  E-value=0.024  Score=46.00  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4788999999999999998764

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {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: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.92  E-value=0.026  Score=45.20  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      --|+|+|.+|+|||+|+..+.+..
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCC
Confidence            357899999999999999987644

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {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: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.90  E-value=0.026  Score=45.15  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|+++|.+|+|||+|+.++...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998654

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {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: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.89  E-value=0.026  Score=45.02  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|...+..+.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48899999999999999987643

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {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: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.86  E-value=0.027  Score=46.60  Aligned_cols=24  Identities=17%  Similarity=0.192  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +-|+|+|.+|+|||||..++....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999997754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.84  E-value=0.025  Score=45.68  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||..++..+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999998643

>d1f6ba_ c.37.1.8 (A:) SAR1 {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: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=92.83  E-value=0.022  Score=45.93  Aligned_cols=23  Identities=30%  Similarity=0.589  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .-|+++|.+|+|||||..++...
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999998554

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=92.81  E-value=0.03  Score=44.42  Aligned_cols=23  Identities=22%  Similarity=0.330  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .-|.|.|.+|+||||+|.+..++
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            46889999999999999988764

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {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: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.73  E-value=0.029  Score=43.99  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||||...+....
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987754

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=92.72  E-value=0.023  Score=45.59  Aligned_cols=23  Identities=43%  Similarity=0.538  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhh
Q 038724           20 GIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      --|+++|.+|+|||||..++...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35889999999999999998653

>d1kmqa_ c.37.1.8 (A:) RhoA {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: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.69  E-value=0.035  Score=44.55  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|...+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47788999999999999987654

>d1c1ya_ c.37.1.8 (A:) Rap1A {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: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.68  E-value=0.03  Score=44.48  Aligned_cols=23  Identities=30%  Similarity=0.577  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||+|...+....
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999987654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {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: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.68  E-value=0.03  Score=44.45  Aligned_cols=23  Identities=30%  Similarity=0.551  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||+|..++.++.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37889999999999999988754

>d1mh1a_ c.37.1.8 (A:) Rac {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: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.58  E-value=0.031  Score=45.18  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|..++..+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999987654

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {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: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.55  E-value=0.032  Score=44.74  Aligned_cols=23  Identities=30%  Similarity=0.553  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|..|+|||||+.++.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48899999999999999987643

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

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: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=92.54  E-value=0.18  Score=44.61  Aligned_cols=23  Identities=35%  Similarity=0.401  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|.|+|..|.||||++++++...
T Consensus       168 nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CEEEEeeccccchHHHHHHhhhc
Confidence            47899999999999999998765

>d1ek0a_ c.37.1.8 (A:) Ypt51 {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: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.41  E-value=0.034  Score=44.25  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|..++....
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999987653

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=92.37  E-value=0.035  Score=43.65  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||..++....
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~   25 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGRE   25 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47799999999999999997543

>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=92.30  E-value=0.04  Score=45.89  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|-|+-|+||||+++.+++..
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHH
Confidence            579999999999999999999887

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {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: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.30  E-value=0.036  Score=44.13  Aligned_cols=22  Identities=36%  Similarity=0.607  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|+|+|.+|+|||+|+.++...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998664

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {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: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=92.29  E-value=0.025  Score=47.67  Aligned_cols=22  Identities=36%  Similarity=0.709  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      -+++|.|+.|.|||||.+.++.
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            3899999999999999999977

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {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: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.23  E-value=0.036  Score=44.90  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||+|...+.+..
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            37899999999999999987654

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {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: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.23  E-value=0.036  Score=45.32  Aligned_cols=23  Identities=30%  Similarity=0.543  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||+..+....
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            47899999999999999987643

>d1vg8a_ c.37.1.8 (A:) Rab7 {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: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.17  E-value=0.037  Score=44.71  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||||+..+.+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987643

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=92.16  E-value=0.038  Score=43.91  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-|+|+|.+|+|||+|+.++....
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            458899999999999999986543

>d1g41a_ 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=92.15  E-value=0.036  Score=51.61  Aligned_cols=25  Identities=32%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+-|.+.||.|+|||.||+.+++-.
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh
Confidence            3469999999999999999999866

>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=92.15  E-value=0.036  Score=45.95  Aligned_cols=24  Identities=29%  Similarity=0.331  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.|+|-|+.|+||||+++.+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            468899999999999999998876

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {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: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.10  E-value=0.026  Score=45.52  Aligned_cols=21  Identities=29%  Similarity=0.621  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 038724           22 IGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      |+|+|.+|+|||||..++...
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998653

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=92.08  E-value=0.021  Score=48.87  Aligned_cols=24  Identities=25%  Similarity=0.527  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..++|+|+.|.|||||++.+..-.
T Consensus        45 e~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcC
Confidence            489999999999999999886644

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {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: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.06  E-value=0.039  Score=44.39  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhhc
Q 038724           22 IGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        22 v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      |++.|.+|+|||+|+..+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987754

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=92.04  E-value=0.029  Score=45.45  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||..++....
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~   25 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAK   25 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEEC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999986543

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {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: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.90  E-value=0.041  Score=43.95  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5789999999999999998754

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

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: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=91.84  E-value=0.056  Score=46.88  Aligned_cols=38  Identities=21%  Similarity=0.291  Sum_probs=26.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVS   59 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~   59 (483)
                      .++.|.|.+|+|||++|.+++.+. .....+ .+++++..
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~-a~~~g~-~v~~~s~E   73 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQW-GTAMGK-KVGLAMLE   73 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH-HHTSCC-CEEEEESS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhh-hhhccc-ceeEeeec
Confidence            488999999999999999988664 112222 35555543

>d1wmsa_ c.37.1.8 (A:) Rab9a {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: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.82  E-value=0.044  Score=43.81  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||||+..+.+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48899999999999998887643

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {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: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.80  E-value=0.044  Score=44.28  Aligned_cols=23  Identities=30%  Similarity=0.520  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+|+|.+|+|||||..++....
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTST
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            48999999999999999998643

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {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: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.75  E-value=0.045  Score=43.51  Aligned_cols=23  Identities=30%  Similarity=0.563  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|.++|.+|+|||+|+..+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46788999999999999988754

>d2ngra_ c.37.1.8 (A:) CDC42 {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: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.61  E-value=0.047  Score=44.43  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||+|+.++.+..
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37788999999999999887654

>d1i2ma_ c.37.1.8 (A:) Ran {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: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.54  E-value=0.027  Score=44.98  Aligned_cols=22  Identities=41%  Similarity=0.575  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|+++|.+|+|||+|..++.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999887654

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {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: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.52  E-value=0.05  Score=43.57  Aligned_cols=23  Identities=17%  Similarity=0.452  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|++.|.+|+|||+|..++.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57899999999999999987754

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.49  E-value=0.045  Score=44.70  Aligned_cols=19  Identities=53%  Similarity=0.749  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 038724           21 IIGLFGTGGVGKTTILKQI   39 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~   39 (483)
                      -|.+.|.+|+|||+|...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999998

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {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: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=91.42  E-value=0.05  Score=47.05  Aligned_cols=24  Identities=25%  Similarity=0.466  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .+..|+|.+|+||||+|.+++...
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            477899999999999999987754

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {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: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=91.28  E-value=0.037  Score=44.61  Aligned_cols=26  Identities=19%  Similarity=0.335  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      ++...|+|+|.+++|||||..++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34578999999999999999888553

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=91.19  E-value=0.065  Score=42.65  Aligned_cols=27  Identities=33%  Similarity=0.457  Sum_probs=21.3

Q ss_pred             cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           16 KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        16 ~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +...+ |.++|.+|+|||||..++.+..
T Consensus        10 ~k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          10 NKEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             TCCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CCeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            44454 6689999999999999986543

>d1tf7a1 c.37.1.11 (A:14-255) 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=91.16  E-value=0.058  Score=45.30  Aligned_cols=39  Identities=21%  Similarity=0.045  Sum_probs=26.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhcccCCCCCCEEEEEEeCC
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRFCSERPGFDVVIWVVVSK   60 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~~~~~~~f~~~~~v~~~~   60 (483)
                      .++.|+|.+|+|||++|.+++....  ...-..++|++...
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~~~~~--~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFLYNGI--IEFDEPGVFVTFEE   65 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH--HHHCCCEEEEESSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHH--HhcCCCcccccccC
Confidence            5899999999999999988654320  11122356665543

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=91.14  E-value=0.12  Score=44.20  Aligned_cols=37  Identities=24%  Similarity=0.380  Sum_probs=27.0

Q ss_pred             HHHHHHHHhcC--CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVKK--DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~~--~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.++...+.+.  ..-.|+|+|.+|+|||||...+..+.
T Consensus        18 l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          18 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            44445555443  33468899999999999999998754

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.90  E-value=0.06  Score=43.81  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|.+.|.+|+|||+|..++....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999986654

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=90.79  E-value=0.042  Score=44.25  Aligned_cols=25  Identities=36%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .---|.++|.+|+|||||..++...
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcC
Confidence            3345779999999999999988543

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=90.63  E-value=0.016  Score=48.54  Aligned_cols=24  Identities=29%  Similarity=0.524  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +..++.|.+|+|||||..++..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            356788999999999999997654

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=90.59  E-value=0.13  Score=38.82  Aligned_cols=26  Identities=19%  Similarity=0.213  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.++..|+++.|.|||+++-.++.+.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~~   32 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAAQ   32 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHTT
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHc
Confidence            45788999999999999987766543

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {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: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.20  E-value=0.045  Score=43.66  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=8.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|+|+|.+|+|||||..++..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999887653

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.95  E-value=0.075  Score=44.33  Aligned_cols=24  Identities=38%  Similarity=0.498  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-|.+.|.+|+|||||..++....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999986543

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {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: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.70  E-value=0.1  Score=44.90  Aligned_cols=27  Identities=30%  Similarity=0.238  Sum_probs=23.5

Q ss_pred             CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           17 KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        17 ~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...|-|+|+|.+|.|||||+.++....
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            357889999999999999999987655

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {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: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.64  E-value=0.031  Score=43.94  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -|+++|.+|+|||||..++....
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999997653

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

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: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=89.22  E-value=0.22  Score=45.54  Aligned_cols=36  Identities=33%  Similarity=0.397  Sum_probs=28.1

Q ss_pred             HHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.+.+ +......+|.|+|+.|.||||....+.+..
T Consensus       147 ~~~l~~-l~~~~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         147 HDNFRR-LIKRPHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             HHHHHH-HHTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHHHH-HHhhhhceEEEEcCCCCCccHHHHHHhhhh
Confidence            444444 444555899999999999999999988866

>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=89.03  E-value=0.2  Score=44.37  Aligned_cols=24  Identities=29%  Similarity=0.228  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -.|.|=|+-|+||||+++.+++..
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             EEEEEECCccCCHHHHHHHHHHHh
Confidence            457778999999999999999977

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=88.54  E-value=0.14  Score=43.77  Aligned_cols=24  Identities=29%  Similarity=0.556  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhh
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      .|-|+|.|..|.|||||+.++...
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHH
Confidence            578999999999999999998543

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

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 protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=87.62  E-value=0.23  Score=40.10  Aligned_cols=38  Identities=13%  Similarity=0.090  Sum_probs=28.8

Q ss_pred             HHHHHHHHHhcC-CeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            6 QFYQVWRFLVKK-DVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         6 ~~~~l~~~l~~~-~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -+..+..+|... .-..+.|+|+++.|||++|.++.+-.
T Consensus        39 Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          39 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            345566666432 34689999999999999999988755

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.61  E-value=0.43  Score=39.78  Aligned_cols=98  Identities=21%  Similarity=0.153  Sum_probs=54.6

Q ss_pred             CeEEEEEEcCCCCcHHHHHHHHHhhcc-cCCC-----------CCCEEEEEEeCCCcC----ccchhHHh-------hhc
Q 038724           18 DVGIIGLFGTGGVGKTTILKQINNRFC-SERP-----------GFDVVIWVVVSKELK----LETSQDDM-------ILS   74 (483)
Q Consensus        18 ~~~~v~i~G~~GiGKTtLa~~~~~~~~-~~~~-----------~f~~~~~v~~~~~~~----~~~~~~~i-------~l~   74 (483)
                      +.+++.|+|+...||||+.+.++--.. ..-+           .|+. ++..++...+    ...+..++       ...
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~-I~~~~~~~d~~~~~~S~F~~E~~~~~~il~~~  118 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDR-IFTRVGAADDLASGRSTFMVEMTETANILHNA  118 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCE-EEEEEC-----------CHHHHHHHHHHHHHC
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchh-heeEEccCcccccchhHHHHHHHHHHHHHHhc
Confidence            347899999999999999999753321 0111           2343 3333332222    22233333       567


Q ss_pred             CCcEEEEEcCCCCcccc-------ccccCCCCCCCCCCEEEEecCChhhh
Q 038724           75 TKKFLLLLDDLWETIDL-------SKIGVPLPSQKIVSKVVFTTHSEEVC  117 (483)
Q Consensus        75 ~~~~LlvlDdv~~~~~~-------~~l~~~~~~~~~gs~ilvTtR~~~~~  117 (483)
                      .++.|+++|.+-....-       ..+...+. ...++.+++||......
T Consensus       119 ~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~  167 (234)
T d1wb9a2         119 TEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELT  167 (234)
T ss_dssp             CTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGG
T ss_pred             ccccEEeecccccCCChhhhhHHHHHhhhhhh-ccccceEEEecchHHHh
Confidence            78999999999654221       11122221 12357899999877554

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {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: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.62  E-value=0.23  Score=42.69  Aligned_cols=28  Identities=11%  Similarity=0.343  Sum_probs=24.5

Q ss_pred             cCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           16 KKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        16 ~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++.+.||+|+|+-+.|||+|+..++...
T Consensus        29 ~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          29 TQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            3568899999999999999999998754

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

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: Varicella-zoster virus [TaxId: 10335]

Probab=86.36  E-value=0.21  Score=44.16  Aligned_cols=23  Identities=39%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|+|=|.-|+||||+++.+.+..
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47888999999999999999876

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=85.95  E-value=0.21  Score=41.67  Aligned_cols=24  Identities=33%  Similarity=0.505  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ++|+|.|-++.|||||+.++....
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhc
Confidence            579999999999999999987654

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=85.62  E-value=0.22  Score=39.68  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 038724           21 IIGLFGTGGVGKTTILKQINNR   42 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~   42 (483)
                      -|+|+|.+++|||||..++...
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5899999999999999999753

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

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: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=83.67  E-value=0.25  Score=43.56  Aligned_cols=24  Identities=25%  Similarity=0.138  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ..|.|=|.=|+||||+++.+.+..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC--
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHh
Confidence            457888999999999999997655

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {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: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.51  E-value=0.42  Score=43.52  Aligned_cols=22  Identities=18%  Similarity=0.424  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHh
Q 038724           20 GIIGLFGTGGVGKTTILKQINN   41 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~   41 (483)
                      --|+|+|.+|+|||||..++..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4589999999999999999974

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

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: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=83.23  E-value=0.65  Score=39.51  Aligned_cols=37  Identities=27%  Similarity=0.308  Sum_probs=27.6

Q ss_pred             HHHHHHHHhc--CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            7 FYQVWRFLVK--KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         7 ~~~l~~~l~~--~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +..+..+|..  .....+.++|+|+.|||+++..+.+-.
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445555643  234688999999999999999998754

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=83.18  E-value=0.56  Score=40.11  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           19 VGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        19 ~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .-.|+|+|++.+|||||+..+..+.
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             ceEEEEEecCccchhhhhhhhhccc
Confidence            3468999999999999999998755

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) 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: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.42  E-value=0.47  Score=42.02  Aligned_cols=36  Identities=19%  Similarity=0.253  Sum_probs=27.7

Q ss_pred             HHHHHHHhc-CCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            8 YQVWRFLVK-KDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         8 ~~l~~~l~~-~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      +.+.+...+ +.+|-|+|.|-.|.|||||+.++....
T Consensus         5 ~~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2           5 DQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             HHHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHHHC
Confidence            445555544 468899999999999999999886433

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal 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: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=82.02  E-value=0.32  Score=41.85  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhc
Q 038724           21 IIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      .|||+|.+.+|||||-.++-...
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            58999999999999999987654

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=81.85  E-value=0.35  Score=42.02  Aligned_cols=18  Identities=22%  Similarity=0.372  Sum_probs=14.7

Q ss_pred             EEEEEcCCCCcHHHHHHH
Q 038724           21 IIGLFGTGGVGKTTILKQ   38 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~   38 (483)
                      .+.|.|.+|.||||.+.+
T Consensus        16 ~~lI~g~aGTGKTt~l~~   33 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITN   33 (306)
T ss_dssp             EEEECCCTTSCHHHHHHH
T ss_pred             CEEEEeeCCccHHHHHHH
Confidence            467889999999987644

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal 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: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.82  E-value=0.45  Score=34.70  Aligned_cols=24  Identities=17%  Similarity=0.019  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHHhhc
Q 038724           20 GIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus        20 ~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      -.|.+.|..|.||+|+|.++....
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l   30 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTF   30 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHH
Confidence            378899999999999999997766

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {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: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=81.51  E-value=0.81  Score=37.90  Aligned_cols=40  Identities=15%  Similarity=0.012  Sum_probs=32.7

Q ss_pred             hhHHHHHHHHHhcCCeEEEEEEcCCCCcHHHHHHHHHhhc
Q 038724            4 PKQFYQVWRFLVKKDVGIIGLFGTGGVGKTTILKQINNRF   43 (483)
Q Consensus         4 ~~~~~~l~~~l~~~~~~~v~i~G~~GiGKTtLa~~~~~~~   43 (483)
                      ...++++.+.+.........++|-.|.|||.++-..+...
T Consensus        61 ~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~  100 (233)
T d2eyqa3          61 AQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA  100 (233)
T ss_dssp             HHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHH
Confidence            3456777788888877788999999999999998877654

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=81.34  E-value=0.34  Score=42.51  Aligned_cols=18  Identities=28%  Similarity=0.486  Sum_probs=15.0

Q ss_pred             EEEEEcCCCCcHHHHHHH
Q 038724           21 IIGLFGTGGVGKTTILKQ   38 (483)
Q Consensus        21 ~v~i~G~~GiGKTtLa~~   38 (483)
                      .+.|.|.+|.||||.+.+
T Consensus        26 ~~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             CEEEEECTTSCHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHH
Confidence            467889999999987755